Citrus Sinensis ID: 013323

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-----
Protein Sequence
MRLLQSIYRHHKSVGGALGRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRLVVVSRAYDNLLRGRPGAVRQQ
Secondary Structure (PSIPRED)
ccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccccHHHHHHHHHHccHHHcccccccccc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcHcHccHHHHHHHHHHHHHccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHccccccccc
Coil and Loop (DISEMBL)
MRLLQSIYRHHKSVGGALGRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVyddmmldgvqptrDLFHSLIVGtmkgsrlqdtFFFRDqmkangflpdVAVYNYLISVCGKCKNSDQAIRIFEEMkkyevkpngqtYVCLLNACaaagqldpVYAIVRDMTAAGAGLDKFCYAGLItahtnkipraddtATKIIELVEQskgwssvetsgnnaenemmgvskeelynlptaeyvhrrggFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKkdrkspdvyIVMQNIRCYlhsgdidnghKVFEDyicsekfppaeLYATLVEGAmfgytpkgmqLAQDTLVNMnsrniflsprmgSDLLLVAAGEKSGGYTTANYIWDLMQarkitpslpaVEAYYNglkdrevpaddprlVVVSRAYDnllrgrpgavrqq
Flexible Loop (DISEMBL)
MRLLQSIYRhhksvggalgrrFFVTSAGAEEYArrnyannaseyntvvtsltsqRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHtnkipraddTATKIIELveqskgwssveTSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLkkdrkspdVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLkdrevpaddprlVVVSRaydnllrgrpgavrqq
Low Complexity Region (SEG)
MRLLQSIYRHHKSVGGALGRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRLVVVSRAYDNLLRGRPGAVRQQ
Disordered region (IsUnstruct)
******IYRHHKSVGGALGRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVE*************************ELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRLVVVSRAYDNLL**********
Disordered Region (DISOPRED)
MRLLQSIYRHHKSVGGALGRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRLVVVSRAYDNLLRGRPGAVR**
Disordered Region (DISEMBL)
MRLLQSIYRHHKSVGGALGRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQ***********NNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRLVVVSRAYDNLLRG********
Disordered Region (DISPRO)
*RLLQSIYRHHKSVGGALGRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRLVVVSRAYDNLLRGRPG*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MRLLQSIYRHHKSVGGALGRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRLVVVSRAYDNLLRGRPGAVRQQ
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	445	2.2.26 [Sep-21-2011]
Q8VYR5	444	Pentatricopeptide repeat-	yes	no	0.979	0.981	0.653	1e-172
Q9FIT7	974	Pentatricopeptide repeat-	no	no	0.662	0.302	0.225	1e-14
Q9SAK0	836	Pentatricopeptide repeat-	no	no	0.393	0.209	0.305	3e-14
P0C8A0	638	Pentatricopeptide repeat-	no	no	0.4	0.278	0.244	6e-13
Q9ZUU3	757	Pentatricopeptide repeat-	no	no	0.323	0.190	0.255	1e-11
Q9M1D8	473	Pentatricopeptide repeat-	no	no	0.330	0.310	0.267	1e-11
Q9SH26	577	Pentatricopeptide repeat-	no	no	0.712	0.549	0.227	2e-11
Q940A6	838	Pentatricopeptide repeat-	no	no	0.343	0.182	0.264	2e-11
Q9C8T7	559	Pentatricopeptide repeat-	no	no	0.737	0.586	0.210	4e-11
Q9FMD3	504	Pentatricopeptide repeat-	no	no	0.685	0.605	0.219	1e-10

>sp|Q8VYR5|PP351_ARATH Pentatricopeptide repeat-containing protein At4g35850, mitochondrial OS=Arabidopsis thaliana GN=At4g35850 PE=1 SV=1

 Score =  605 bits (1561), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 288/441 (65%), Positives = 354/441 (80%), Gaps = 5/441 (1%)

Query: 3   LLQSIYRHHKSVGGAL-GRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLR 61
           L+QSI   ++S+  AL  RR+F +S   EE A+RNYAN+ SEYNT V S+T+QRR +LLR
Sbjct: 4   LMQSISGRNRSLVRALVSRRYFASSP--EEIAKRNYANDLSEYNTAVNSVTAQRRHYLLR 61

Query: 62  DVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVC 121
           DVYDDM LDGVQPT D+FHS +VGTMKG+RL D FFFR++MKA G  PDV +YN+LIS C
Sbjct: 62  DVYDDMKLDGVQPTADIFHSFVVGTMKGARLSDAFFFREEMKAMGIAPDVNLYNFLISTC 121

Query: 122 GKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDK 181
           GKCKN  +AIR+++EMK+Y+VKPNGQT+VCLLNACA +GQLD VYAIVRDMTAAG GL++
Sbjct: 122 GKCKNGKEAIRVYDEMKRYDVKPNGQTFVCLLNACAVSGQLDLVYAIVRDMTAAGVGLNQ 181

Query: 182 FCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLP 241
           FCYAGLITAH NK PR D+ +TKI+E VEQSKGWS++++S  +AE+ M  +S+EELYN+P
Sbjct: 182 FCYAGLITAHLNKQPRPDNLSTKILEFVEQSKGWSAIDSSRKSAEDVMFSISEEELYNIP 241

Query: 242 TAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRC 301
           TA+Y H R  FL R LTVYHVAF A A+LKDV+A E LLEMLKKD K  D Y ++Q +RC
Sbjct: 242 TADYSH-RTRFLQRNLTVYHVAFSALADLKDVKATEALLEMLKKDGKDTDTYCMLQIMRC 300

Query: 302 YLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNI 361
           YLHS D +NG K+F+DY+ ++K P  ELY TL+EGAM GYT  GM++AQDTL+ MN RN 
Sbjct: 301 YLHSQDFENGLKLFQDYMSADKIPAMELYTTLIEGAMTGYTDNGMKIAQDTLIQMNERNF 360

Query: 362 FLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADD 421
           FL PR GS+LLL AAGEK+GGYT AN IWDLM AR I P+L AVEAYY GLK+RE+P DD
Sbjct: 361 FLDPRTGSNLLLKAAGEKTGGYTVANMIWDLMLARNILPTLAAVEAYYKGLKEREIPEDD 420

Query: 422 PRLVVVSRAYDNLLRGRPGAV 442
           PRL++V+R Y+N LR R G +
Sbjct: 421 PRLMLVTRTYNN-LRLREGTL 440

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FIT7|PP442_ARATH Pentatricopeptide repeat-containing protein At5g61990, mitochondrial OS=Arabidopsis thaliana GN=At5g61990 PE=2 SV=1

 Score = 81.3 bits (199), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 70/311 (22%), Positives = 132/311 (42%), Gaps = 16/311 (5%)

Query: 31  EYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGS 90
           E  +RN   +   Y TVV  + S        ++  +M+  G +P   ++ +LI   ++ S
Sbjct: 407 EMKKRNIVISPYTYGTVVKGMCSSGDLDGAYNIVKEMIASGCRPNVVIYTTLIKTFLQNS 466

Query: 91  RLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYV 150
           R  D      +MK  G  PD+  YN LI    K K  D+A     EM +  +KPN  TY 
Sbjct: 467 RFGDAMRVLKEMKEQGIAPDIFCYNSLIIGLSKAKRMDEARSFLVEMVENGLKPNAFTYG 526

Query: 151 CLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVE 210
             ++    A +       V++M   G   +K    GLI  +  K            +++E
Sbjct: 527 AFISGYIEASEFASADKYVKEMRECGVLPNKVLCTGLINEYCKK-----------GKVIE 575

Query: 211 QSKGWSSVETSGNNAENEMMGVSKEELY---NLPTAEYVHR--RGGFLSRLLTVYHVAFH 265
               + S+   G   + +   V    L+    +  AE + R  RG  ++  +  Y V  +
Sbjct: 576 ACSAYRSMVDQGILGDAKTYTVLMNGLFKNDKVDDAEEIFREMRGKGIAPDVFSYGVLIN 635

Query: 266 ACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFP 325
             ++L ++Q   ++ + + ++  +P+V I    +  +  SG+I+   ++ ++       P
Sbjct: 636 GFSKLGNMQKASSIFDEMVEEGLTPNVIIYNMLLGGFCRSGEIEKAKELLDEMSVKGLHP 695

Query: 326 PAELYATLVEG 336
            A  Y T+++G
Sbjct: 696 NAVTYCTIIDG 706

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SAK0|PP132_ARATH Pentatricopeptide repeat-containing protein At1g79490, mitochondrial OS=Arabidopsis thaliana GN=EMB2217 PE=2 SV=1

 Score = 80.1 bits (196), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 54/177 (30%), Positives = 82/177 (46%), Gaps = 2/177 (1%)

Query: 30  EEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKG 89
           ++   R    + S ++++V S+    R      VY +M   G +P+  +F SLI    K 
Sbjct: 337 QQMKERKLRPSFSVFSSLVDSMGKAGRLDTSMKVYMEMQGFGHRPSATMFVSLIDSYAKA 396

Query: 90  SRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTY 149
            +L       D+MK +GF P+  +Y  +I    K    + A+ +F++M+K    P   TY
Sbjct: 397 GKLDTALRLWDEMKKSGFRPNFGLYTMIIESHAKSGKLEVAMTVFKDMEKAGFLPTPSTY 456

Query: 150 VCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKII 206
            CLL   A +GQ+D    I   MT AG       Y  L+T   NK  R  D A KI+
Sbjct: 457 SCLLEMHAGSGQVDSAMKIYNSMTNAGLRPGLSSYISLLTLLANK--RLVDVAGKIL 511

Arabidopsis thaliana (taxid: 3702)

>sp|P0C8A0|PP275_ARATH Pentatricopeptide repeat-containing protein At3g49730 OS=Arabidopsis thaliana GN=At3g49730 PE=2 SV=1

 Score = 75.9 bits (185), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 45/184 (24%), Positives = 88/184 (47%), Gaps = 6/184 (3%)

Query: 31  EYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGS 90
           E  R  +  N   + +++     + +    ++V   M   G++P   +F +L+ G     
Sbjct: 226 EDMREKFPPNLRYFTSLLYGWCREGKLMEAKEVLVQMKEAGLEPDIVVFTNLLSGYAHAG 285

Query: 91  RLQDTFFFRDQMKANGFLPDVAVYNYLI-SVCGKCKNSDQAIRIFEEMKKYEVKPNGQTY 149
           ++ D +   + M+  GF P+V  Y  LI ++C   K  D+A+R+F EM++Y  + +  TY
Sbjct: 286 KMADAYDLMNDMRKRGFEPNVNCYTVLIQALCRTEKRMDEAMRVFVEMERYGCEADIVTY 345

Query: 150 VCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELV 209
             L++     G +D  Y+++ DM   G    +  Y  ++ AH  K     +   + +EL+
Sbjct: 346 TALISGFCKWGMIDKGYSVLDDMRKKGVMPSQVTYMQIMVAHEKK-----EQFEECLELI 400

Query: 210 EQSK 213
           E+ K
Sbjct: 401 EKMK 404

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZUU3|PP190_ARATH Pentatricopeptide repeat-containing protein At2g37230 OS=Arabidopsis thaliana GN=At2g37230 PE=2 SV=1

 Score = 71.6 bits (174), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 37/145 (25%), Positives = 76/145 (52%)

Query: 44  YNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMK 103
           YN++   +  + R+ + +  ++ M+ +GV+PTR  ++ ++ G     RL+    F + MK
Sbjct: 223 YNSLFKVILRRGRYMMAKRYFNKMVSEGVEPTRHTYNLMLWGFFLSLRLETALRFFEDMK 282

Query: 104 ANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLD 163
             G  PD A +N +I+   + K  D+A ++F EMK  ++ P+  +Y  ++    A  ++D
Sbjct: 283 TRGISPDDATFNTMINGFCRFKKMDEAEKLFVEMKGNKIGPSVVSYTTMIKGYLAVDRVD 342

Query: 164 PVYAIVRDMTAAGAGLDKFCYAGLI 188
               I  +M ++G   +   Y+ L+
Sbjct: 343 DGLRIFEEMRSSGIEPNATTYSTLL 367

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M1D8|PP288_ARATH Pentatricopeptide repeat-containing protein At3g60050 OS=Arabidopsis thaliana GN=At3g60050 PE=2 SV=1

 Score = 71.2 bits (173), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 42/157 (26%), Positives = 71/157 (45%)

Query: 36  NYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDT 95
           NY      YN ++ SL   +++ L+  VY  M+ DG  P    ++ L+    +  ++   
Sbjct: 214 NYRPFKHSYNAILNSLLGVKQYKLIEWVYKQMLEDGFSPDVLTYNILLWTNYRLGKMDRF 273

Query: 96  FFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNA 155
               D+M  +GF PD   YN L+ + GK      A+     MK+  + P+   Y  L++ 
Sbjct: 274 DRLFDEMARDGFSPDSYTYNILLHILGKGNKPLAALTTLNHMKEVGIDPSVLHYTTLIDG 333

Query: 156 CAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHT 192
            + AG L+     + +M  AG   D  CY  +IT + 
Sbjct: 334 LSRAGNLEACKYFLDEMVKAGCRPDVVCYTVMITGYV 370

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SH26|PP102_ARATH Pentatricopeptide repeat-containing protein At1g63400 OS=Arabidopsis thaliana GN=At1g63400 PE=2 SV=1

 Score = 70.9 bits (172), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 79/348 (22%), Positives = 139/348 (39%), Gaps = 31/348 (8%)

Query: 2   RLLQSIYRHHKSVGG-ALGRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLL 60
           R L SI+  +K +   A  ++F +  +  E+  R   ++N   YN ++     + +  L 
Sbjct: 80  RPLPSIFEFNKLLSAIAKMKKFDLVISLGEKMQRLGISHNLYTYNILINCFCRRSQISLA 139

Query: 61  RDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISV 120
             +   MM  G +P+     SL+ G   G R+ D     DQM   G+ PD   +  LI  
Sbjct: 140 LALLGKMMKLGYEPSIVTLSSLLNGYCHGKRISDAVALVDQMVEMGYRPDTITFTTLIHG 199

Query: 121 CGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLD 180
                 + +A+ + + M +   +PN  TY  ++N     G +D  + ++  M AA    +
Sbjct: 200 LFLHNKASEAVALVDRMVQRGCQPNLVTYGVVVNGLCKRGDIDLAFNLLNKMEAAKIEAN 259

Query: 181 KFCYAGLITAHTNKIPRADDTATKIIELVEQSKG-------WSSVETSGNNAENEMMGVS 233
              Y+ +I +   K    DD      E+  ++KG       +SS+ +   N E       
Sbjct: 260 VVIYSTVIDSLC-KYRHEDDALNLFTEM--ENKGVRPNVITYSSLISCLCNYER------ 310

Query: 234 KEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHA-----CAELKDVQAMETLLEMLKKDRK 288
                    ++        + R +    V F+A       E K V+A +   EM+K+   
Sbjct: 311 --------WSDASRLLSDMIERKINPNVVTFNALIDAFVKEGKLVEAEKLYDEMIKRS-I 361

Query: 289 SPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEG 336
            PD++     I  +     +D    +FE  I  + FP    Y TL+ G
Sbjct: 362 DPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLING 409

Arabidopsis thaliana (taxid: 3702)

>sp|Q940A6|PP325_ARATH Pentatricopeptide repeat-containing protein At4g19440, chloroplastic OS=Arabidopsis thaliana GN=At4g19440 PE=2 SV=2

 Score = 70.9 bits (172), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 42/159 (26%), Positives = 73/159 (45%)

Query: 30  EEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKG 89
           +E   R    +   YNT+++    +++        D+M+  G++P    +  LI G    
Sbjct: 542 KEILGRGCVMDRVSYNTLISGCCGKKKLDEAFMFLDEMVKRGLKPDNYTYSILICGLFNM 601

Query: 90  SRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTY 149
           +++++   F D  K NG LPDV  Y+ +I  C K + +++    F+EM    V+PN   Y
Sbjct: 602 NKVEEAIQFWDDCKRNGMLPDVYTYSVMIDGCCKAERTEEGQEFFDEMMSKNVQPNTVVY 661

Query: 150 VCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLI 188
             L+ A   +G+L     +  DM   G   +   Y  LI
Sbjct: 662 NHLIRAYCRSGRLSMALELREDMKHKGISPNSATYTSLI 700

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C8T7|PP101_ARATH Pentatricopeptide repeat-containing protein At1g63330 OS=Arabidopsis thaliana GN=At1g63330 PE=2 SV=2

 Score = 69.7 bits (169), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 71/337 (21%), Positives = 143/337 (42%), Gaps = 9/337 (2%)

Query: 2   RLLQSIYRHHKSVGG-ALGRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLL 60
           R L SI+  +K +   A  ++F +  +  E+  R   ++N   YN ++     + +  L 
Sbjct: 5   RPLPSIFEFNKLLSAIAKMKKFDLVISLGEKMQRLGISHNLYTYNILINCFCRRSQISLA 64

Query: 61  RDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISV 120
             +   MM  G +P+     SL+ G   G R+ D     DQM   G+ PD   +  LI  
Sbjct: 65  LALLGKMMKLGYEPSIVTLSSLLNGYCHGKRISDAVALVDQMVEMGYRPDTITFTTLIHG 124

Query: 121 CGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLD 180
                 + +A+ + + M +   +PN  TY  ++N     G +D  + ++  M AA    D
Sbjct: 125 LFLHNKASEAVALVDRMVQRGCQPNLVTYGVVVNGLCKRGDIDLAFNLLNKMEAAKIEAD 184

Query: 181 KFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNL 240
              +  +I +   K    DD      E+  ++KG      + ++  + +    +    + 
Sbjct: 185 VVIFNTIIDSLC-KYRHVDDALNLFKEM--ETKGIRPNVVTYSSLISCLCSYGRWSDASQ 241

Query: 241 PTAEYVHRRGGFLSRLLTVYHVAFHA-CAELKDVQAMETLLEMLKKDRKSPDVYIVMQNI 299
             ++ + ++   ++  L  ++    A   E K V+A +   +M+K+    PD++     I
Sbjct: 242 LLSDMIEKK---INPNLVTFNALIDAFVKEGKFVEAEKLHDDMIKR-SIDPDIFTYNSLI 297

Query: 300 RCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEG 336
             +     +D   ++FE  +  + FP  + Y TL++G
Sbjct: 298 NGFCMHDRLDKAKQMFEFMVSKDCFPDLDTYNTLIKG 334

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FMD3|PP389_ARATH Pentatricopeptide repeat-containing protein At5g16640, mitochondrial OS=Arabidopsis thaliana GN=At5g16640 PE=2 SV=1

 Score = 68.6 bits (166), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 70/319 (21%), Positives = 118/319 (36%), Gaps = 14/319 (4%)

Query: 37  YANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTF 96
           Y  N   YNT++  L   ++     D+ + M  DG+ P    ++SLI G     R  D  
Sbjct: 182 YKPNVVIYNTIIDGLCKSKQVDNALDLLNRMEKDGIGPDVVTYNSLISGLCSSGRWSDAT 241

Query: 97  FFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNAC 156
                M      PDV  +N LI  C K     +A   +EEM +  + P+  TY  L+   
Sbjct: 242 RMVSCMTKREIYPDVFTFNALIDACVKEGRVSEAEEFYEEMIRRSLDPDIVTYSLLIYGL 301

Query: 157 AAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWS 216
               +LD    +   M + G   D   Y+ LI  +  K  + +       E+ ++     
Sbjct: 302 CMYSRLDEAEEMFGFMVSKGCFPDVVTYSILINGYC-KSKKVEHGMKLFCEMSQRG---- 356

Query: 217 SVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRL--LTVYHVAFHACAELKDVQ 274
                 N     ++         L  AE + RR  F      +  Y+V  H   +   ++
Sbjct: 357 ---VVRNTVTYTILIQGYCRAGKLNVAEEIFRRMVFCGVHPNIITYNVLLHGLCDNGKIE 413

Query: 275 AMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLV 334
               +L  ++K+    D+      IR    +G++ +   ++    C    P    Y T+ 
Sbjct: 414 KALVILADMQKNGMDADIVTYNIIIRGMCKAGEVADAWDIYCSLNCQGLMPDIWTYTTM- 472

Query: 335 EGAMFGYTPKGMQLAQDTL 353
              M G   KG++   D L
Sbjct: 473 ---MLGLYKKGLRREADAL 488

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	445
225452280	445	PREDICTED: pentatricopeptide repeat-cont	0.932	0.932	0.762	0.0
255572062	510	pentatricopeptide repeat-containing prot	0.955	0.833	0.739	0.0
449446722	442	PREDICTED: pentatricopeptide repeat-cont	0.970	0.977	0.680	1e-178
356570223	450	PREDICTED: pentatricopeptide repeat-cont	0.970	0.96	0.670	1e-174
356512038	450	PREDICTED: pentatricopeptide repeat-cont	0.970	0.96	0.659	1e-172
21593882	444	unknown [Arabidopsis thaliana]	0.979	0.981	0.655	1e-171
18419731	444	pentatricopeptide repeat-containing prot	0.979	0.981	0.653	1e-170
297802344	444	hypothetical protein ARALYDRAFT_912780 [	0.964	0.966	0.660	1e-170
3805851	477	putative protein [Arabidopsis thaliana]	0.966	0.901	0.608	1e-165
357496963	444	Pentatricopeptide repeat-containing prot	0.970	0.972	0.629	1e-163

>gi|225452280|ref|XP_002270990.1| PREDICTED: pentatricopeptide repeat-containing protein At4g35850, mitochondrial [Vitis vinifera] gi|296087577|emb|CBI34833.3| unnamed protein product [Vitis vinifera]

 Score =  681 bits (1758), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 318/417 (76%), Positives = 367/417 (88%), Gaps = 2/417 (0%)

Query: 17  ALGRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTR 76
           ALGRR+F  +A  EEYA+RNYA+N SEY TVV+SLT+QRR FLLRD YDDMMLDGVQP+R
Sbjct: 19  ALGRRYF--AASTEEYAKRNYASNVSEYTTVVSSLTAQRRHFLLRDAYDDMMLDGVQPSR 76

Query: 77  DLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEE 136
           D+FHSLIVGTMKG+RLQD+FFF DQMK  G +PDVA+YN+L+S CGKCKNSDQAI I EE
Sbjct: 77  DIFHSLIVGTMKGARLQDSFFFIDQMKTMGLVPDVALYNFLVSTCGKCKNSDQAIHILEE 136

Query: 137 MKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIP 196
           MKK EVKP GQTY+CLLNACAA+G+ D VYAIVRDMTAAG GL+KFCYAGLI AH NKIP
Sbjct: 137 MKKNEVKPTGQTYICLLNACAASGRTDRVYAIVRDMTAAGLGLNKFCYAGLIAAHKNKIP 196

Query: 197 RADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRL 256
             DDTA+KIIELVEQSKGWSS+E + + AEN MMGVS+EELYN+PTAEYVHRR GFL+R 
Sbjct: 197 LTDDTASKIIELVEQSKGWSSIEATRDMAENVMMGVSEEELYNIPTAEYVHRRAGFLNRQ 256

Query: 257 LTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFE 316
           LTVYHVA HA A+L++V+AMETLLEMLKK+ K+PDV+++MQ +RCYLHSG+ID G ++FE
Sbjct: 257 LTVYHVALHAFADLRNVEAMETLLEMLKKEGKTPDVFLIMQTMRCYLHSGNIDRGLQIFE 316

Query: 317 DYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNIFLSPRMGSDLLLVAA 376
           +Y+ S K    ELY TLVEGAM GYTPKGM+LAQDTLV MN+R  FLSPRMGS+LLLVA+
Sbjct: 317 EYMNSGKPAMVELYVTLVEGAMVGYTPKGMELAQDTLVKMNARGFFLSPRMGSELLLVAS 376

Query: 377 GEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRLVVVSRAYDN 433
           GEK+GGYTTANYIWDLMQARKITPS PAVEAYYNGL++RE+P DD RLV+VSRAYDN
Sbjct: 377 GEKTGGYTTANYIWDLMQARKITPSFPAVEAYYNGLREREIPEDDARLVLVSRAYDN 433

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255572062|ref|XP_002526972.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223533724|gb|EEF35459.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  662 bits (1707), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 315/426 (73%), Positives = 362/426 (84%), Gaps = 1/426 (0%)

Query: 18  LGRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRD 77
           LGR +   ++   EY +RNYA+N SEYNTVV SL +QRR FLLR+VYDDMMLDGVQP+R+
Sbjct: 60  LGRHYSAAASSTAEYDKRNYASNLSEYNTVVGSLIAQRRHFLLREVYDDMMLDGVQPSRE 119

Query: 78  LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEM 137
            F+SLIVGT+KG+RL D FFFRDQMKA G LPDV++YN+LIS CGKCKNSDQA++I EEM
Sbjct: 120 TFYSLIVGTLKGARLSDAFFFRDQMKAMGLLPDVSLYNFLISTCGKCKNSDQAVQILEEM 179

Query: 138 KKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPR 197
           K  EVKPNGQTYVCLLNACAAAG+LD VYAIVRDMTAAGAGL+KFCYAGLI AH NK P 
Sbjct: 180 KINEVKPNGQTYVCLLNACAAAGRLDRVYAIVRDMTAAGAGLNKFCYAGLIAAHMNKKPL 239

Query: 198 ADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLL 257
           +DDTA +IIELVEQSKGWSSVE+S  NAEN MMG+S+EEL+NLPTA+Y HRRG F+ + L
Sbjct: 240 SDDTAKRIIELVEQSKGWSSVESSNYNAENVMMGISEEELFNLPTADYAHRRGAFIIKPL 299

Query: 258 TVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFED 317
           TVYH AFHACAEL++V+A++TLLEMLKKD  SPDV+I MQ +RCYLHSGDID+G K+FE+
Sbjct: 300 TVYHAAFHACAELRNVEAIQTLLEMLKKDGNSPDVFITMQVMRCYLHSGDIDSGLKIFEE 359

Query: 318 YICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNIFLSPRMGSDLLLVAAG 377
           Y+ S K    ELY TLVEGAM GYTPKGMQLAQDTLV M SRN+ L  R G+DLLL+AAG
Sbjct: 360 YMKSGKISGIELYTTLVEGAMVGYTPKGMQLAQDTLVMMGSRNLSLGLRQGNDLLLMAAG 419

Query: 378 EKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRLVVVSRAYDNLLRG 437
           EK+GGYTTANYIWDLM+ARK TPSL AVEAYYNGLK+RE+P DDPRL+ VSR YDN LR 
Sbjct: 420 EKTGGYTTANYIWDLMRARKFTPSLQAVEAYYNGLKEREIPEDDPRLLEVSRIYDN-LRV 478

Query: 438 RPGAVR 443
           R G  R
Sbjct: 479 RFGGGR 484

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449446722|ref|XP_004141120.1| PREDICTED: pentatricopeptide repeat-containing protein At4g35850, mitochondrial-like [Cucumis sativus] gi|449489492|ref|XP_004158328.1| PREDICTED: pentatricopeptide repeat-containing protein At4g35850, mitochondrial-like [Cucumis sativus]

 Score =  631 bits (1627), Expect = e-178,   Method: Compositional matrix adjust.
 Identities = 296/435 (68%), Positives = 358/435 (82%), Gaps = 3/435 (0%)

Query: 1   MRLLQSIYRHHKSVGGALG-RRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFL 59
           M+LLQS+    +S+   LG RR F  S   EEY +RNYA+N +EY TV+ SLT+QRR+F 
Sbjct: 1   MKLLQSLAGQSRSLVRFLGQRRSFAVST--EEYRKRNYADNVAEYKTVIASLTAQRRYFS 58

Query: 60  LRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLIS 119
           L DVYDDMMLDGVQPT D+FH LI GTMKG+R Q  FFFRD+MKA G +PDV++YN LIS
Sbjct: 59  LTDVYDDMMLDGVQPTMDVFHLLISGTMKGARFQHAFFFRDEMKAMGLIPDVSLYNMLIS 118

Query: 120 VCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGL 179
           +CGKC NS++A+RI +EM++YEVKPN QTY+CLLNACAAAG+LD VY IVRDMT+AG GL
Sbjct: 119 LCGKCNNSEEAVRILDEMRRYEVKPNSQTYICLLNACAAAGRLDRVYTIVRDMTSAGLGL 178

Query: 180 DKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYN 239
           +KFCYAGLI AH NK P ADD  TK++E VE+SK W SV+ S   AEN MMGVS+EELYN
Sbjct: 179 NKFCYAGLIAAHMNKKPVADDFDTKVVEFVERSKEWLSVDASSVTAENFMMGVSEEELYN 238

Query: 240 LPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNI 299
           +PTAEYVHRRGGFL++ LT+YHVA +ACA LK+V+ MET+++MLKKD K+PDVY++MQ +
Sbjct: 239 IPTAEYVHRRGGFLNKQLTIYHVALNACANLKNVKVMETIMDMLKKDGKTPDVYMIMQVM 298

Query: 300 RCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSR 359
           RCYLHSGDID GHK FE+++ S      ELY TLVEGAM GYTPKGMQLAQ+TL NMNSR
Sbjct: 299 RCYLHSGDIDRGHKAFEEHLNSGGSIAPELYTTLVEGAMIGYTPKGMQLAQETLENMNSR 358

Query: 360 NIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPA 419
             FL+PR GS+LLL AAGEK+GGYTTANYIWDL++AR+ITP  PAV+AYY GLK RE+P 
Sbjct: 359 GFFLNPRSGSELLLAAAGEKTGGYTTANYIWDLLRAREITPLFPAVDAYYKGLKKREIPE 418

Query: 420 DDPRLVVVSRAYDNL 434
           DDPRLV+V+R ++NL
Sbjct: 419 DDPRLVLVTRIHENL 433

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356570223|ref|XP_003553289.1| PREDICTED: pentatricopeptide repeat-containing protein At4g35850, mitochondrial-like [Glycine max]

 Score =  618 bits (1594), Expect = e-174,   Method: Compositional matrix adjust.
 Identities = 295/440 (67%), Positives = 350/440 (79%), Gaps = 8/440 (1%)

Query: 1   MRLLQSIYRHHK--SVGGALGR----RFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQ 54
           M+ LQS+    +  +  G+L R    RFF  S   EEY++RNYANN +EYNTV+ SLT+Q
Sbjct: 1   MKFLQSLIAQSRYAARAGSLNRVSGLRFF--SVSTEEYSKRNYANNVAEYNTVLGSLTAQ 58

Query: 55  RRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVY 114
           RR FLLRDVYDDMMLDGV+PTRD FHSL VGTMK +R+QD F+F DQMK  G LPDV +Y
Sbjct: 59  RRNFLLRDVYDDMMLDGVKPTRDTFHSLAVGTMKAARMQDAFYFADQMKIMGLLPDVTLY 118

Query: 115 NYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA 174
           N+LIS CGKCKNS++AI+I EEMK  EVKPN QTY+CLLNACAA G++D VYAIVRDMTA
Sbjct: 119 NFLISTCGKCKNSNKAIQILEEMKCMEVKPNIQTYICLLNACAADGRIDRVYAIVRDMTA 178

Query: 175 AGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSK 234
           AG GL++FCYAGLI AH NK P  DD A K+IE VE+SK WSSVET+  NAEN MMGVS 
Sbjct: 179 AGLGLNEFCYAGLIVAHKNKTPLPDDFAAKVIEFVERSKMWSSVETNSANAENVMMGVSD 238

Query: 235 EELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYI 294
           EELY+LPTAEY HRRGGF+ R  T YH AFHA A+LK+V+  +TLLEML K  K+PD++I
Sbjct: 239 EELYSLPTAEYAHRRGGFVVRQFTAYHTAFHAAADLKNVELTDTLLEMLNKQGKTPDIFI 298

Query: 295 VMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLV 354
           +MQ IRCY H+GDI+ G + FE+++  ++  PAEL+ TL EGAM GYT KGMQ+AQD LV
Sbjct: 299 LMQVIRCYCHAGDIERGLQNFENHLRQDRSVPAELFVTLAEGAMVGYTEKGMQMAQDILV 358

Query: 355 NMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKD 414
            MN RNIFL+ ++GS+LL  AAGEK+GGY TANYIWDLMQAR ITPS PAVEAYY GLKD
Sbjct: 359 RMNERNIFLNNKLGSELLFTAAGEKTGGYITANYIWDLMQARGITPSFPAVEAYYQGLKD 418

Query: 415 REVPADDPRLVVVSRAYDNL 434
           RE+P DDPRLV+VSR + NL
Sbjct: 419 REIPEDDPRLVLVSRIHKNL 438

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356512038|ref|XP_003524728.1| PREDICTED: pentatricopeptide repeat-containing protein At4g35850, mitochondrial-like [Glycine max]

 Score =  610 bits (1574), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 290/440 (65%), Positives = 350/440 (79%), Gaps = 8/440 (1%)

Query: 1   MRLLQSIYRHHK------SVGGALGRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQ 54
           M+ LQS+    +       +    G RFF  S   EEY++RNYANN +EYNTV+ SLT+Q
Sbjct: 1   MKFLQSLIAQSRYAARTRPLNRVSGLRFF--SVSTEEYSKRNYANNVAEYNTVLGSLTAQ 58

Query: 55  RRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVY 114
           RR FLLRDVYDDMMLDGV+PTRD FHSL+VGTMKG+R+QD F+F +QMK  G LPDV +Y
Sbjct: 59  RRNFLLRDVYDDMMLDGVKPTRDTFHSLVVGTMKGARMQDAFYFVEQMKIMGLLPDVTLY 118

Query: 115 NYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA 174
           N+LIS CGKCKNS++AI+I EEMK  EVKPN QTY+CLLNACAA G++D VYAIVRDMTA
Sbjct: 119 NFLISTCGKCKNSNKAIQILEEMKCMEVKPNIQTYICLLNACAADGRIDRVYAIVRDMTA 178

Query: 175 AGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSK 234
           AG GL++FCYAGLI AH NK P  DD A K+IE VE+SK WSSVET+  NAEN MMGV+ 
Sbjct: 179 AGLGLNEFCYAGLIVAHKNKKPLPDDFAAKVIEFVERSKMWSSVETNSANAENVMMGVTD 238

Query: 235 EELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYI 294
           EELYNLPTAEY HRRGGFL R  T YH AFHA A+LK+V+  +TLL+ML K  K+PD++I
Sbjct: 239 EELYNLPTAEYAHRRGGFLVRQFTAYHTAFHAAADLKNVELTDTLLDMLNKKGKTPDLFI 298

Query: 295 VMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLV 354
           +MQ IRCY H+GDI+ G + FE+++  ++   +EL+ TL EGAM GYT KGMQ+AQD LV
Sbjct: 299 LMQVIRCYCHAGDIERGLQTFENHLRLDRPVASELFVTLAEGAMIGYTEKGMQMAQDVLV 358

Query: 355 NMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKD 414
            MN RNIF++ ++GS+LL VAAGEK+GGYTTANYIWD+M+AR ITPS PAVEAYY GLKD
Sbjct: 359 RMNERNIFVNNKLGSELLFVAAGEKTGGYTTANYIWDMMRARGITPSFPAVEAYYQGLKD 418

Query: 415 REVPADDPRLVVVSRAYDNL 434
           RE+P DDPRLV+VS  Y+NL
Sbjct: 419 REIPEDDPRLVLVSGIYNNL 438

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21593882|gb|AAM65849.1| unknown [Arabidopsis thaliana]

 Score =  607 bits (1564), Expect = e-171,   Method: Compositional matrix adjust.
 Identities = 289/441 (65%), Positives = 354/441 (80%), Gaps = 5/441 (1%)

Query: 3   LLQSIYRHHKSVGGAL-GRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLR 61
           L+QSI   ++S+  AL  RR+F +S   EE A+RNYAN+ SEYNT V S+T+QRR +LLR
Sbjct: 4   LMQSISGRNRSLVRALVSRRYFASSP--EEIAKRNYANDLSEYNTAVNSVTAQRRHYLLR 61

Query: 62  DVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVC 121
           DVYDDM LDGVQPT D+FHS +VGTMKG+RL D FFFR++MKA G  PDV +YN+LIS C
Sbjct: 62  DVYDDMKLDGVQPTADIFHSFVVGTMKGARLSDAFFFREEMKAMGIAPDVNLYNFLISTC 121

Query: 122 GKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDK 181
           GKCKN  +AIR+++EMK+Y+VKPNGQT+VCLLNACA +GQLD VYAIVRDMTAAG GL++
Sbjct: 122 GKCKNGKEAIRVYDEMKRYDVKPNGQTFVCLLNACAVSGQLDLVYAIVRDMTAAGVGLNQ 181

Query: 182 FCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLP 241
           FCYAGLITAH NK PR D+ +TKI+E VEQSKGWS++++S  +AE+ M  +S+EELYN+P
Sbjct: 182 FCYAGLITAHLNKQPRPDNLSTKILEFVEQSKGWSAIDSSRKSAEDVMFSISEEELYNIP 241

Query: 242 TAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRC 301
           TA+Y H R  FL R LTVYHVAF A A+LKDV+A E LLEMLKKD K  D Y V+Q +RC
Sbjct: 242 TADYSH-RTRFLQRNLTVYHVAFSALADLKDVKATEALLEMLKKDGKDTDTYCVLQIMRC 300

Query: 302 YLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNI 361
           YLHS D +NG K+F+DY+ ++K P  ELY TL+EGAM GYT  GM++AQDTL+ MN RN 
Sbjct: 301 YLHSQDFENGLKLFQDYMSADKIPAMELYTTLIEGAMTGYTDNGMKIAQDTLIQMNERNF 360

Query: 362 FLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADD 421
           FL PR GS+LLL AAGEK+GGYT AN IWDLM AR I P+L AVEAYY GLK+RE+P DD
Sbjct: 361 FLDPRTGSNLLLKAAGEKTGGYTVANMIWDLMLARNILPTLAAVEAYYKGLKEREIPEDD 420

Query: 422 PRLVVVSRAYDNLLRGRPGAV 442
           PRL++V+R Y+N LR R G +
Sbjct: 421 PRLMLVTRTYNN-LRLREGTL 440

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18419731|ref|NP_567990.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75248494|sp|Q8VYR5.1|PP351_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At4g35850, mitochondrial; Flags: Precursor gi|17979139|gb|AAL49827.1| unknown protein [Arabidopsis thaliana] gi|20259115|gb|AAM14273.1| unknown protein [Arabidopsis thaliana] gi|332661180|gb|AEE86580.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  605 bits (1561), Expect = e-170,   Method: Compositional matrix adjust.
 Identities = 288/441 (65%), Positives = 354/441 (80%), Gaps = 5/441 (1%)

Query: 3   LLQSIYRHHKSVGGAL-GRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLR 61
           L+QSI   ++S+  AL  RR+F +S   EE A+RNYAN+ SEYNT V S+T+QRR +LLR
Sbjct: 4   LMQSISGRNRSLVRALVSRRYFASSP--EEIAKRNYANDLSEYNTAVNSVTAQRRHYLLR 61

Query: 62  DVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVC 121
           DVYDDM LDGVQPT D+FHS +VGTMKG+RL D FFFR++MKA G  PDV +YN+LIS C
Sbjct: 62  DVYDDMKLDGVQPTADIFHSFVVGTMKGARLSDAFFFREEMKAMGIAPDVNLYNFLISTC 121

Query: 122 GKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDK 181
           GKCKN  +AIR+++EMK+Y+VKPNGQT+VCLLNACA +GQLD VYAIVRDMTAAG GL++
Sbjct: 122 GKCKNGKEAIRVYDEMKRYDVKPNGQTFVCLLNACAVSGQLDLVYAIVRDMTAAGVGLNQ 181

Query: 182 FCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLP 241
           FCYAGLITAH NK PR D+ +TKI+E VEQSKGWS++++S  +AE+ M  +S+EELYN+P
Sbjct: 182 FCYAGLITAHLNKQPRPDNLSTKILEFVEQSKGWSAIDSSRKSAEDVMFSISEEELYNIP 241

Query: 242 TAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRC 301
           TA+Y H R  FL R LTVYHVAF A A+LKDV+A E LLEMLKKD K  D Y ++Q +RC
Sbjct: 242 TADYSH-RTRFLQRNLTVYHVAFSALADLKDVKATEALLEMLKKDGKDTDTYCMLQIMRC 300

Query: 302 YLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNI 361
           YLHS D +NG K+F+DY+ ++K P  ELY TL+EGAM GYT  GM++AQDTL+ MN RN 
Sbjct: 301 YLHSQDFENGLKLFQDYMSADKIPAMELYTTLIEGAMTGYTDNGMKIAQDTLIQMNERNF 360

Query: 362 FLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADD 421
           FL PR GS+LLL AAGEK+GGYT AN IWDLM AR I P+L AVEAYY GLK+RE+P DD
Sbjct: 361 FLDPRTGSNLLLKAAGEKTGGYTVANMIWDLMLARNILPTLAAVEAYYKGLKEREIPEDD 420

Query: 422 PRLVVVSRAYDNLLRGRPGAV 442
           PRL++V+R Y+N LR R G +
Sbjct: 421 PRLMLVTRTYNN-LRLREGTL 440

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297802344|ref|XP_002869056.1| hypothetical protein ARALYDRAFT_912780 [Arabidopsis lyrata subsp. lyrata] gi|297314892|gb|EFH45315.1| hypothetical protein ARALYDRAFT_912780 [Arabidopsis lyrata subsp. lyrata]

 Score =  604 bits (1558), Expect = e-170,   Method: Compositional matrix adjust.
 Identities = 286/433 (66%), Positives = 350/433 (80%), Gaps = 4/433 (0%)

Query: 3   LLQSIYRHHKSVGGAL-GRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLR 61
           L+QSI   ++S+  AL  RR+F +S   EE A++NYAN+ SEYNT V S+T+QRR +LLR
Sbjct: 4   LIQSISGRNRSLVRALVSRRYFASSP--EELAKKNYANDLSEYNTAVHSVTAQRRHYLLR 61

Query: 62  DVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVC 121
           DVYDDM LDGVQPT D+FHS +VGTMKG+RL D FFFR++MKA G  PDV +YN+LIS C
Sbjct: 62  DVYDDMKLDGVQPTADIFHSFVVGTMKGARLSDAFFFREEMKAMGIAPDVNLYNFLISTC 121

Query: 122 GKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDK 181
           GKCKN  +AIR+++EMK+Y+VKPNGQT+VCLLNACA +GQLD VYAIVRDMTAAG GL++
Sbjct: 122 GKCKNGKEAIRVYDEMKRYDVKPNGQTFVCLLNACAVSGQLDLVYAIVRDMTAAGVGLNQ 181

Query: 182 FCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLP 241
           FCYAGLITAH NK PR D+ +TKI+E VEQSKGWS++++S  +AE+ M  +S+EELYN+P
Sbjct: 182 FCYAGLITAHLNKQPRPDNLSTKILEFVEQSKGWSAIDSSRKSAEDVMFSISEEELYNIP 241

Query: 242 TAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRC 301
           TA+Y H R  FL R LTVYHVAF A A++KDV+A E LLEMLKKD K  D Y V+Q +RC
Sbjct: 242 TADYAH-RTRFLQRNLTVYHVAFSALADIKDVKATEALLEMLKKDGKDTDTYCVLQIMRC 300

Query: 302 YLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNI 361
           YLHS D +NG KVFEDY+ ++K P  ELY TL+EGAM G+T  GM++AQDTLV MN RN 
Sbjct: 301 YLHSQDFENGLKVFEDYMSADKIPAMELYTTLIEGAMTGHTDNGMKIAQDTLVKMNERNF 360

Query: 362 FLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADD 421
           FL PR GS+LLL AAGEK+GGYT AN IWDLM AR I P+L AVEAYY GLK+RE+P DD
Sbjct: 361 FLDPRTGSNLLLKAAGEKTGGYTVANMIWDLMLARNILPTLAAVEAYYKGLKEREIPEDD 420

Query: 422 PRLVVVSRAYDNL 434
           PRL++V+R Y+NL
Sbjct: 421 PRLMLVTRTYNNL 433

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|3805851|emb|CAA21471.1| putative protein [Arabidopsis thaliana] gi|7270537|emb|CAB81494.1| putative protein [Arabidopsis thaliana]

 Score =  586 bits (1510), Expect = e-165,   Method: Compositional matrix adjust.
 Identities = 284/467 (60%), Positives = 347/467 (74%), Gaps = 37/467 (7%)

Query: 9   RHHKSVGGALGRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMM 68
           R+   V   + RR+F +S   EE A+RNYAN+ SEYNT V S+T+QRR +LLRDVYDDM 
Sbjct: 11  RNRSLVRALVSRRYFASSP--EEIAKRNYANDLSEYNTAVNSVTAQRRHYLLRDVYDDMK 68

Query: 69  LDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSD 128
           LDGVQPT D+FHS +VGTMKG+RL D FFFR++MKA G  PDV +YN+LIS CGKCKN  
Sbjct: 69  LDGVQPTADIFHSFVVGTMKGARLSDAFFFREEMKAMGIAPDVNLYNFLISTCGKCKNGK 128

Query: 129 QAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLI 188
           +AIR+++EMK+Y+VKPNGQT+VCLLNACA +GQLD VYAIVRDMTAAG GL++FCYAGLI
Sbjct: 129 EAIRVYDEMKRYDVKPNGQTFVCLLNACAVSGQLDLVYAIVRDMTAAGVGLNQFCYAGLI 188

Query: 189 TAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHR 248
           TAH NK PR D+ +TKI+E VEQSKGWS++++S  +AE+ M  +S+EELYN+PTA+Y HR
Sbjct: 189 TAHLNKQPRPDNLSTKILEFVEQSKGWSAIDSSRKSAEDVMFSISEEELYNIPTADYSHR 248

Query: 249 RGGFLSRLLTVYHVAFHACAELKDV---------------------------------QA 275
              FL R LTVYHVAF A A+LKDV                                 QA
Sbjct: 249 -TRFLQRNLTVYHVAFSALADLKDVKIPKCPELSGNKDKDKKSQFRSLFLHLTSNSSWQA 307

Query: 276 METLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVE 335
            E LLEMLKKD K  D Y ++Q +RCYLHS D +NG K+F+DY+ ++K P  ELY TL+E
Sbjct: 308 TEALLEMLKKDGKDTDTYCMLQIMRCYLHSQDFENGLKLFQDYMSADKIPAMELYTTLIE 367

Query: 336 GAMFGYTPKGMQLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQA 395
           GAM GYT  GM++AQDTL+ MN RN FL PR GS+LLL AAGEK+GGYT AN IWDLM A
Sbjct: 368 GAMTGYTDNGMKIAQDTLIQMNERNFFLDPRTGSNLLLKAAGEKTGGYTVANMIWDLMLA 427

Query: 396 RKITPSLPAVEAYYNGLKDREVPADDPRLVVVSRAYDNLLRGRPGAV 442
           R I P+L AVEAYY GLK+RE+P DDPRL++V+R Y+N LR R G +
Sbjct: 428 RNILPTLAAVEAYYKGLKEREIPEDDPRLMLVTRTYNN-LRLREGTL 473

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357496963|ref|XP_003618770.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355493785|gb|AES74988.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  582 bits (1499), Expect = e-163,   Method: Compositional matrix adjust.
 Identities = 277/440 (62%), Positives = 338/440 (76%), Gaps = 8/440 (1%)

Query: 1   MRLLQSIYRHHK------SVGGALGRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQ 54
           M+ LQS+    +      S+    G RF+  +  AEEY RRNYA N  EYNTV+ SL +Q
Sbjct: 1   MKFLQSLLGKTRFAVRNGSLPRVSGTRFY--NVPAEEYNRRNYAKNVQEYNTVLGSLNAQ 58

Query: 55  RRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVY 114
           RR FLLRDVY+DMMLDGV+PTR+ FH+L VG+M+GSR+ D FFF+DQMK  G +PDV  Y
Sbjct: 59  RRIFLLRDVYEDMMLDGVRPTRETFHALAVGSMRGSRMHDAFFFKDQMKIMGLVPDVTFY 118

Query: 115 NYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA 174
           N+LIS CGKCKNSDQA++I EEMK  EVKPN QTY+CLL+ACAA G++D V  IVRDMTA
Sbjct: 119 NFLISTCGKCKNSDQAVQILEEMKSMEVKPNVQTYICLLHACAAQGRIDRVQIIVRDMTA 178

Query: 175 AGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSK 234
           AG GL+KF YAGLI AH NK P  DD   K+IE V +SK WSSVET   NAEN M+GV+ 
Sbjct: 179 AGLGLNKFSYAGLIVAHQNKTPLTDDFDAKVIEYVGRSKNWSSVETDSANAENVMVGVTD 238

Query: 235 EELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYI 294
           EELYNLPTAEYV RRGGFL+R  T YH AF+A A+ K+V+  +TLLEML+K+ K+PD+YI
Sbjct: 239 EELYNLPTAEYVTRRGGFLNRPFTAYHTAFNAAADFKNVKLTDTLLEMLEKENKTPDIYI 298

Query: 295 VMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLV 354
           VMQ IRCY H+G+ID G + FED++   K   AE+Y TL EGAM GYT KGMQ++ D L 
Sbjct: 299 VMQVIRCYCHAGEIDRGLQFFEDFLALGKGNAAEIYVTLAEGAMVGYTEKGMQISIDILT 358

Query: 355 NMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKD 414
            MN RN F++ +MGS+LL++AAGEK+GGYT ANYIWDLM+AR I PSL AVEAYY GLKD
Sbjct: 359 RMNERNFFMNSKMGSELLIMAAGEKTGGYTNANYIWDLMRARNIYPSLAAVEAYYQGLKD 418

Query: 415 REVPADDPRLVVVSRAYDNL 434
           R++P DDPRL++V++ YDNL
Sbjct: 419 RQIPQDDPRLMLVTQMYDNL 438

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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	445
TAIR|locus:2125379	444	AT4G35850 "AT4G35850" [Arabido	0.979	0.981	0.653	2.1e-155
TAIR|locus:2174008	974	AT5G61990 "AT5G61990" [Arabido	0.669	0.305	0.227	4.9e-14
TAIR|locus:2155730	915	AT5G65560 "AT5G65560" [Arabido	0.797	0.387	0.246	9.6e-14
TAIR|locus:2206385	836	EMB2217 "embryo defective 2217	0.413	0.220	0.304	1.1e-12
TAIR|locus:2060226	624	AT2G32630 "AT2G32630" [Arabido	0.667	0.475	0.231	1.1e-11
TAIR|locus:2031301	577	AT1G63400 [Arabidopsis thalian	0.734	0.566	0.224	1.2e-11
TAIR|locus:2146549	727	AT5G28370 [Arabidopsis thalian	0.685	0.419	0.222	3.9e-11
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.640	0.381	0.234	4.1e-11
TAIR|locus:2146554	766	AT5G28460 [Arabidopsis thalian	0.685	0.398	0.222	4.2e-11
TAIR|locus:2097395	638	AT3G49730 [Arabidopsis thalian	0.4	0.278	0.244	1.1e-10

TAIR|locus:2125379 AT4G35850 "AT4G35850" [Arabidopsis thaliana (taxid:3702)]

 Score = 1515 (538.4 bits), Expect = 2.1e-155, P = 2.1e-155
 Identities = 288/441 (65%), Positives = 354/441 (80%)

Query:     3 LLQSIYRHHKSVGGAL-GRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLR 61
             L+QSI   ++S+  AL  RR+F +S   EE A+RNYAN+ SEYNT V S+T+QRR +LLR
Sbjct:     4 LMQSISGRNRSLVRALVSRRYFASSP--EEIAKRNYANDLSEYNTAVNSVTAQRRHYLLR 61

Query:    62 DVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVC 121
             DVYDDM LDGVQPT D+FHS +VGTMKG+RL D FFFR++MKA G  PDV +YN+LIS C
Sbjct:    62 DVYDDMKLDGVQPTADIFHSFVVGTMKGARLSDAFFFREEMKAMGIAPDVNLYNFLISTC 121

Query:   122 GKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDK 181
             GKCKN  +AIR+++EMK+Y+VKPNGQT+VCLLNACA +GQLD VYAIVRDMTAAG GL++
Sbjct:   122 GKCKNGKEAIRVYDEMKRYDVKPNGQTFVCLLNACAVSGQLDLVYAIVRDMTAAGVGLNQ 181

Query:   182 FCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLP 241
             FCYAGLITAH NK PR D+ +TKI+E VEQSKGWS++++S  +AE+ M  +S+EELYN+P
Sbjct:   182 FCYAGLITAHLNKQPRPDNLSTKILEFVEQSKGWSAIDSSRKSAEDVMFSISEEELYNIP 241

Query:   242 TAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRC 301
             TA+Y HR   FL R LTVYHVAF A A+LKDV+A E LLEMLKKD K  D Y ++Q +RC
Sbjct:   242 TADYSHRTR-FLQRNLTVYHVAFSALADLKDVKATEALLEMLKKDGKDTDTYCMLQIMRC 300

Query:   302 YLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNI 361
             YLHS D +NG K+F+DY+ ++K P  ELY TL+EGAM GYT  GM++AQDTL+ MN RN 
Sbjct:   301 YLHSQDFENGLKLFQDYMSADKIPAMELYTTLIEGAMTGYTDNGMKIAQDTLIQMNERNF 360

Query:   362 FLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADD 421
             FL PR GS+LLL AAGEK+GGYT AN IWDLM AR I P+L AVEAYY GLK+RE+P DD
Sbjct:   361 FLDPRTGSNLLLKAAGEKTGGYTVANMIWDLMLARNILPTLAAVEAYYKGLKEREIPEDD 420

Query:   422 PRLVVVSRAYDNLLRGRPGAV 442
             PRL++V+R Y+NL R R G +
Sbjct:   421 PRLMLVTRTYNNL-RLREGTL 440

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0009220 "pyrimidine ribonucleotide biosynthetic process" evidence=RCA

GO:0009640 "photomorphogenesis" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0010388 "cullin deneddylation" evidence=RCA

GO:0034968 "histone lysine methylation" evidence=RCA

TAIR|locus:2174008 AT5G61990 "AT5G61990" [Arabidopsis thaliana (taxid:3702)]

 Score = 214 (80.4 bits), Expect = 4.9e-14, P = 4.9e-14
 Identities = 70/308 (22%), Positives = 132/308 (42%)

Query:    31 EYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGS 90
             E  +RN   +   Y TVV  + S        ++  +M+  G +P   ++ +LI   ++ S
Sbjct:   407 EMKKRNIVISPYTYGTVVKGMCSSGDLDGAYNIVKEMIASGCRPNVVIYTTLIKTFLQNS 466

Query:    91 RLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYV 150
             R  D      +MK  G  PD+  YN LI    K K  D+A     EM +  +KPN  TY 
Sbjct:   467 RFGDAMRVLKEMKEQGIAPDIFCYNSLIIGLSKAKRMDEARSFLVEMVENGLKPNAFTYG 526

Query:   151 CLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVE 210
               ++    A +       V++M   G   +K    GLI  +  K  +  +  +    +V+
Sbjct:   527 AFISGYIEASEFASADKYVKEMRECGVLPNKVLCTGLINEYCKK-GKVIEACSAYRSMVD 585

Query:   211 QSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHR--RGGFLSRLLTVYHVAFHACA 268
             Q      +          M G+ K +   +  AE + R  RG  ++  +  Y V  +  +
Sbjct:   586 QG-----ILGDAKTYTVLMNGLFKND--KVDDAEEIFREMRGKGIAPDVFSYGVLINGFS 638

Query:   269 ELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAE 328
             +L ++Q   ++ + + ++  +P+V I    +  +  SG+I+   ++ ++       P A 
Sbjct:   639 KLGNMQKASSIFDEMVEEGLTPNVIIYNMLLGGFCRSGEIEKAKELLDEMSVKGLHPNAV 698

Query:   329 LYATLVEG 336
              Y T+++G
Sbjct:   699 TYCTIIDG 706

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2155730 AT5G65560 "AT5G65560" [Arabidopsis thaliana (taxid:3702)]

 Score = 211 (79.3 bits), Expect = 9.6e-14, P = 9.6e-14
 Identities = 93/378 (24%), Positives = 165/378 (43%)

Query:    40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFR 99
             N   Y  ++ SL SQ +F   R++   M+  G+ P    +++LI G  K   ++D     
Sbjct:   357 NIHTYTVLIDSLCSQCKFEKARELLGQMLEKGLMPNVITYNALINGYCKRGMIEDAVDVV 416

Query:   100 DQMKANGFLPDVAVYNYLISVCGKCK-NSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA 158
             + M++    P+   YN LI   G CK N  +A+ +  +M + +V P+  TY  L++    
Sbjct:   417 ELMESRKLSPNTRTYNELIK--GYCKSNVHKAMGVLNKMLERKVLPDVVTYNSLIDGQCR 474

Query:   159 AGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSV 218
             +G  D  Y ++  M   G   D++ Y  +I +   K  R ++ A  + + +EQ KG +  
Sbjct:   475 SGNFDSAYRLLSLMNDRGLVPDQWTYTSMIDSLC-KSKRVEE-ACDLFDSLEQ-KGVNPN 531

Query:   219 ETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHA-CAELKDVQAME 277
                     +      K +  +L   + + +    L   LT ++   H  CA+ K  +A  
Sbjct:   532 VVMYTALIDGYCKAGKVDEAHLMLEKMLSKN--CLPNSLT-FNALIHGLCADGKLKEA-- 586

Query:   278 TLLE-MLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEG 336
             TLLE  + K    P V      I   L  GD D+ +  F+  + S   P A  Y T ++ 
Sbjct:   587 TLLEEKMVKIGLQPTVSTDTILIHRLLKDGDFDHAYSRFQQMLSSGTKPDAHTYTTFIQT 646

Query:   337 AMFGYTPKGMQL-AQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQA 395
                 Y  +G  L A+D +  M    +  SP + +   L+  G    G T  N+ +D+++ 
Sbjct:   647 ----YCREGRLLDAEDMMAKMRENGV--SPDLFTYSSLIK-GYGDLGQT--NFAFDVLKR 697

Query:   396 RKITPSLPAVEAYYNGLK 413
              + T   P+   + + +K
Sbjct:   698 MRDTGCEPSQHTFLSLIK 715

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2206385 EMB2217 "embryo defective 2217" [Arabidopsis thaliana (taxid:3702)]

 Score = 201 (75.8 bits), Expect = 1.1e-12, P = 1.1e-12
 Identities = 57/187 (30%), Positives = 88/187 (47%)

Query:    30 EEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKG 89
             ++   R    + S ++++V S+    R      VY +M   G +P+  +F SLI    K 
Sbjct:   337 QQMKERKLRPSFSVFSSLVDSMGKAGRLDTSMKVYMEMQGFGHRPSATMFVSLIDSYAKA 396

Query:    90 SRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTY 149
              +L       D+MK +GF P+  +Y  +I    K    + A+ +F++M+K    P   TY
Sbjct:   397 GKLDTALRLWDEMKKSGFRPNFGLYTMIIESHAKSGKLEVAMTVFKDMEKAGFLPTPSTY 456

Query:   150 VCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELV 209
              CLL   A +GQ+D    I   MT AG       Y  L+T   NK  R  D A KI+ L 
Sbjct:   457 SCLLEMHAGSGQVDSAMKIYNSMTNAGLRPGLSSYISLLTLLANK--RLVDVAGKIL-LE 513

Query:   210 EQSKGWS 216
              ++ G+S
Sbjct:   514 MKAMGYS 520

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

TAIR|locus:2060226 AT2G32630 "AT2G32630" [Arabidopsis thaliana (taxid:3702)]

 Score = 190 (71.9 bits), Expect = 1.1e-11, P = 1.1e-11
 Identities = 72/311 (23%), Positives = 136/311 (43%)

Query:    30 EEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKG 89
             +E++ +     A  YNT++ +   QR F  +  V   M  DGV   +  +  L+  ++K 
Sbjct:   248 KEFSVKGIKPEAYTYNTIINAYVKQRDFSGVEGVLKVMKKDGVVYNKVTYTLLMELSVKN 307

Query:    90 SRLQDTFFFRDQMKANGFLPDVAVYNYLISV-CGKCKNSDQAIRIFEEMKKYEVKPNGQT 148
              ++ D     D+M+  G   DV VY  LIS  C K  N  +A  +F+E+ +  + P+  T
Sbjct:   308 GKMSDAEKLFDEMRERGIESDVHVYTSLISWNCRK-GNMKRAFLLFDELTEKGLSPSSYT 366

Query:   149 YVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIEL 208
             Y  L++     G++     ++ +M + G  + +  +  LI  +  K     D A+ I ++
Sbjct:   367 YGALIDGVCKVGEMGAAEILMNEMQSKGVNITQVVFNTLIDGYCRK--GMVDEASMIYDV 424

Query:   209 VEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHR--RGGFLSRLLTVYHVAFHA 266
             +EQ KG+ +   + N   +    + +   Y+    +++ R   GG     ++  ++    
Sbjct:   425 MEQ-KGFQADVFTCNTIASCFNRLKR---YD-EAKQWLFRMMEGGVKLSTVSYTNLIDVY 479

Query:   267 CAELKDVQAMETLLEMLKKD-RKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFP 325
             C E    +A    +EM  K  + +   Y VM  I  Y   G I    K+  +   +   P
Sbjct:   480 CKEGNVEEAKRLFVEMSSKGVQPNAITYNVM--IYAYCKQGKIKEARKLRANMEANGMDP 537

Query:   326 PAELYATLVEG 336
              +  Y +L+ G
Sbjct:   538 DSYTYTSLIHG 548

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2031301 AT1G63400 [Arabidopsis thaliana (taxid:3702)]

 Score = 189 (71.6 bits), Expect = 1.2e-11, P = 1.2e-11
 Identities = 76/338 (22%), Positives = 142/338 (42%)

Query:     2 RLLQSIYRHHKSVGG-ALGRRF-FVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFL 59
             R L SI+  +K +   A  ++F  V S G E+  R   ++N   YN ++     + +  L
Sbjct:    80 RPLPSIFEFNKLLSAIAKMKKFDLVISLG-EKMQRLGISHNLYTYNILINCFCRRSQISL 138

Query:    60 LRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLIS 119
                +   MM  G +P+     SL+ G   G R+ D     DQM   G+ PD   +  LI 
Sbjct:   139 ALALLGKMMKLGYEPSIVTLSSLLNGYCHGKRISDAVALVDQMVEMGYRPDTITFTTLIH 198

Query:   120 VCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGL 179
                    + +A+ + + M +   +PN  TY  ++N     G +D  + ++  M AA    
Sbjct:   199 GLFLHNKASEAVALVDRMVQRGCQPNLVTYGVVVNGLCKRGDIDLAFNLLNKMEAAKIEA 258

Query:   180 DKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYN 239
             +   Y+ +I +   K    DD      E+  ++KG      + ++  + +    +    +
Sbjct:   259 NVVIYSTVIDSLC-KYRHEDDALNLFTEM--ENKGVRPNVITYSSLISCLCNYERWSDAS 315

Query:   240 LPTAEYVHRRGGFLSRLLTVYHVAFHACA-ELKDVQAMETLLEMLKKDRKSPDVYIVMQN 298
                ++ + R+   ++  +  ++    A   E K V+A +   EM+K+    PD++     
Sbjct:   316 RLLSDMIERK---INPNVVTFNALIDAFVKEGKLVEAEKLYDEMIKRSI-DPDIFTYSSL 371

Query:   299 IRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEG 336
             I  +     +D    +FE  I  + FP    Y TL+ G
Sbjct:   372 INGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLING 409

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2146549 AT5G28370 [Arabidopsis thaliana (taxid:3702)]

 Score = 186 (70.5 bits), Expect = 3.9e-11, P = 3.9e-11
 Identities = 73/328 (22%), Positives = 145/328 (44%)

Query:    44 YNTVVTSLTSQRRFFLLRDVYDDMMLDG-VQPTRDLFHSLIVGTMKGSRLQDTFFFRDQM 102
             +NT++  L    R     ++   M L+    P    ++ LI G  +  +L+       +M
Sbjct:   373 FNTLIDGLCKVGRLKEAEELLVRMKLEERCVPNAVTYNCLIDGYCRAGKLETAKEVVSRM 432

Query:   103 KANGFLPDVAVYNYLISVCGKCKNS--DQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAG 160
             K +   P+V   N ++   G C++   + A+  F +M+K  VK N  TY+ L++AC +  
Sbjct:   433 KEDEIKPNVVTVNTIVG--GMCRHHGLNMAVVFFMDMEKEGVKGNVVTYMTLIHACCSVS 490

Query:   161 QLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVET 220
              ++        M  AG   D   Y  LI+       R D  A +++E +++  G  S++ 
Sbjct:   491 NVEKAMYWYEKMLEAGCSPDAKIYYALISGLCQV--RRDHDAIRVVEKLKE--GGFSLDL 546

Query:   221 SGNNAENEMMGV-----SKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQA 275
                 A N ++G+     + E++Y + T   + + G     +   Y+       + KD ++
Sbjct:   547 L---AYNMLIGLFCDKNNAEKVYEMLTD--MEKEGKKPDSI--TYNTLISFFGKHKDFES 599

Query:   276 METLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDY-ICSEKFPPAELYATLV 334
             +E ++E +++D   P V      I  Y   G++D   K+F+D  + S+  P   +Y  L+
Sbjct:   600 VERMMEQMREDGLDPTVTTYGAVIDAYCSVGELDEALKLFKDMGLHSKVNPNTVIYNILI 659

Query:   335 EG-AMFGYTPKGMQLAQDTLVNMNSRNI 361
                +  G   + + L ++  + M   N+
Sbjct:   660 NAFSKLGNFGQALSLKEEMKMKMVRPNV 687

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2164910 EMB2745 "EMBRYO DEFECTIVE 2745" [Arabidopsis thaliana (taxid:3702)]

 Score = 186 (70.5 bits), Expect = 4.1e-11, P = 4.1e-11
 Identities = 71/303 (23%), Positives = 125/303 (41%)

Query:    40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFR 99
             N   YN V+  L  + R   +  V  +M   G       +++LI G  K           
Sbjct:   274 NLISYNVVINGLCREGRMKEVSFVLTEMNRRGYSLDEVTYNTLIKGYCKEGNFHQALVMH 333

Query:   100 DQMKANGFLPDVAVYNYLI-SVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA 158
              +M  +G  P V  Y  LI S+C K  N ++A+   ++M+   + PN +TY  L++  + 
Sbjct:   334 AEMLRHGLTPSVITYTSLIHSMC-KAGNMNRAMEFLDQMRVRGLCPNERTYTTLVDGFSQ 392

Query:   159 AGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAH--TNKIPRADDTATKIIELVEQSKGWS 216
              G ++  Y ++R+M   G       Y  LI  H  T K+   +D A  ++E +++ KG S
Sbjct:   393 KGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKM---ED-AIAVLEDMKE-KGLS 447

Query:   217 SVETSGNNAENEMMGVSKEELYNLPTAEYVHRR---GGFLSRLLTVYHVAFHACAELKDV 273
                 S +     + G  +   Y++  A  V R     G     +T   +    C + +  
Sbjct:   448 PDVVSYSTV---LSGFCRS--YDVDEALRVKREMVEKGIKPDTITYSSLIQGFCEQRRTK 502

Query:   274 QAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATL 333
             +A +   EML+     PD +     I  Y   GD++   ++  + +     P    Y+ L
Sbjct:   503 EACDLYEEMLRVGLP-PDEFTYTALINAYCMEGDLEKALQLHNEMVEKGVLPDVVTYSVL 561

Query:   334 VEG 336
             + G
Sbjct:   562 ING 564

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

TAIR|locus:2146554 AT5G28460 [Arabidopsis thaliana (taxid:3702)]

 Score = 186 (70.5 bits), Expect = 4.2e-11, P = 4.2e-11
 Identities = 73/328 (22%), Positives = 145/328 (44%)

Query:    44 YNTVVTSLTSQRRFFLLRDVYDDMMLDG-VQPTRDLFHSLIVGTMKGSRLQDTFFFRDQM 102
             +NT++  L    R     ++   M L+    P    ++ LI G  +  +L+       +M
Sbjct:   373 FNTLIDGLCKVGRLKEAEELLVRMKLEERCVPNAVTYNCLIDGYCRAGKLETAKEVVSRM 432

Query:   103 KANGFLPDVAVYNYLISVCGKCKNS--DQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAG 160
             K +   P+V   N ++   G C++   + A+  F +M+K  VK N  TY+ L++AC +  
Sbjct:   433 KEDEIKPNVVTVNTIVG--GMCRHHGLNMAVVFFMDMEKEGVKGNVVTYMTLIHACCSVS 490

Query:   161 QLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVET 220
              ++        M  AG   D   Y  LI+       R D  A +++E +++  G  S++ 
Sbjct:   491 NVEKAMYWYEKMLEAGCSPDAKIYYALISGLCQV--RRDHDAIRVVEKLKE--GGFSLDL 546

Query:   221 SGNNAENEMMGV-----SKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQA 275
                 A N ++G+     + E++Y + T   + + G     +   Y+       + KD ++
Sbjct:   547 L---AYNMLIGLFCDKNNAEKVYEMLTD--MEKEGKKPDSI--TYNTLISFFGKHKDFES 599

Query:   276 METLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDY-ICSEKFPPAELYATLV 334
             +E ++E +++D   P V      I  Y   G++D   K+F+D  + S+  P   +Y  L+
Sbjct:   600 VERMMEQMREDGLDPTVTTYGAVIDAYCSVGELDEALKLFKDMGLHSKVNPNTVIYNILI 659

Query:   335 EG-AMFGYTPKGMQLAQDTLVNMNSRNI 361
                +  G   + + L ++  + M   N+
Sbjct:   660 NAFSKLGNFGQALSLKEEMKMKMVRPNV 687

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2097395 AT3G49730 [Arabidopsis thaliana (taxid:3702)]

 Score = 181 (68.8 bits), Expect = 1.1e-10, P = 1.1e-10
 Identities = 45/184 (24%), Positives = 88/184 (47%)

Query:    31 EYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGS 90
             E  R  +  N   + +++     + +    ++V   M   G++P   +F +L+ G     
Sbjct:   226 EDMREKFPPNLRYFTSLLYGWCREGKLMEAKEVLVQMKEAGLEPDIVVFTNLLSGYAHAG 285

Query:    91 RLQDTFFFRDQMKANGFLPDVAVYNYLI-SVCGKCKNSDQAIRIFEEMKKYEVKPNGQTY 149
             ++ D +   + M+  GF P+V  Y  LI ++C   K  D+A+R+F EM++Y  + +  TY
Sbjct:   286 KMADAYDLMNDMRKRGFEPNVNCYTVLIQALCRTEKRMDEAMRVFVEMERYGCEADIVTY 345

Query:   150 VCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELV 209
               L++     G +D  Y+++ DM   G    +  Y  ++ AH  K     +   + +EL+
Sbjct:   346 TALISGFCKWGMIDKGYSVLDDMRKKGVMPSQVTYMQIMVAHEKK-----EQFEECLELI 400

Query:   210 EQSK 213
             E+ K
Sbjct:   401 EKMK 404

GO:0005739 "mitochondrion" evidence=ISM

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

GO:0009691 "cytokinin biosynthetic process" 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)
Q8VYR5	PP351_ARATH	No assigned EC number	0.6530	0.9797	0.9819	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

Your Input:
	GSVIVG00020628001	SubName- Full=Chromosome chr14 scaffold_21, whole genome shotgun sequence; (445 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00030047001	SubName- Full=Chromosome chr1 scaffold_5, whole genome shotgun sequence; (427 aa)				•	•				0.495
	GSVIVG00026907001	SubName- Full=Chromosome chr15 scaffold_40, whole genome shotgun sequence; (232 aa)				•					0.404

---

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	445
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-12
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-08
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-05
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	9e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	1e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-04
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	7e-04
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	0.002
pfam01535	31	pfam01535, PPR, PPR repeat	0.002
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.002

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

 Score = 61.3 bits (150), Expect = 2e-12
 Identities = 20/49 (40%), Positives = 28/49 (57%)

Query: 109 PDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACA 157
           PDV  YN LI    K    ++A+++F EMKK  +KPN  TY  L++   
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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 = 64.9 bits (158), Expect = 4e-11
 Identities = 43/177 (24%), Positives = 72/177 (40%), Gaps = 14/177 (7%)

Query: 25  TSAGAEEYARRNYANNASEYN--------TVVTSLTSQR---RFFLLRDVYDDMMLDGVQ 73
            +AG  + A+  Y     EYN        T+  +  SQ+    F L   +YDDM   GV+
Sbjct: 590 ANAGQVDRAKEVY-QMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALS--IYDDMKKKGVK 646

Query: 74  PTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRI 133
           P    F +L+        L   F      +  G       Y+ L+  C   KN  +A+ +
Sbjct: 647 PDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALEL 706

Query: 134 FEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITA 190
           +E++K  +++P   T   L+ A     QL     ++ +M   G   +   Y+ L+ A
Sbjct: 707 YEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVA 763

Length = 1060

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

 Score = 61.4 bits (149), Expect = 5e-10
 Identities = 46/173 (26%), Positives = 80/173 (46%), Gaps = 13/173 (7%)

Query: 3   LLQSIYRHHKSVGGALGRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLRD 62
           +L S+    + + GAL     V  AG +         +   Y T++++     +   + +
Sbjct: 442 MLMSVCASSQDIDGALRVLRLVQEAGLKA--------DCKLYTTLISTCAKSGKVDAMFE 493

Query: 63  VYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCG 122
           V+ +M+  GV+     F +LI G  +  ++   F     M++    PD  V+N LIS CG
Sbjct: 494 VFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACG 553

Query: 123 KCKNSDQAIRIFEEMK--KYEVKPNGQTYVCLLNACAAAGQLD---PVYAIVR 170
           +    D+A  +  EMK   + + P+  T   L+ ACA AGQ+D    VY ++ 
Sbjct: 554 QSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIH 606

Length = 1060

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

 Score = 58.0 bits (140), Expect = 7e-09
 Identities = 33/139 (23%), Positives = 59/139 (42%), Gaps = 4/139 (2%)

Query: 64  YDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANG--FLPDVAVYNYLISVC 121
           Y  M    V+P R +F++LI    +   +   F    +MKA      PD      L+  C
Sbjct: 530 YGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKAC 589

Query: 122 GKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDK 181
                 D+A  +++ + +Y +K   + Y   +N+C+  G  D   +I  DM   G   D+
Sbjct: 590 ANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDE 649

Query: 182 FCYAGLITA--HTNKIPRA 198
             ++ L+    H   + +A
Sbjct: 650 VFFSALVDVAGHAGDLDKA 668

Length = 1060

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

 Score = 56.4 bits (136), Expect = 2e-08
 Identities = 26/89 (29%), Positives = 40/89 (44%)

Query: 102 MKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQ 161
           ++  G   D  +Y  LIS C K    D    +F EM    V+ N  T+  L++ CA AGQ
Sbjct: 463 VQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQ 522

Query: 162 LDPVYAIVRDMTAAGAGLDKFCYAGLITA 190
           +   +     M +     D+  +  LI+A
Sbjct: 523 VAKAFGAYGIMRSKNVKPDRVVFNALISA 551

Length = 1060

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

 Score = 50.3 bits (120), Expect = 2e-06
 Identities = 36/163 (22%), Positives = 76/163 (46%), Gaps = 7/163 (4%)

Query: 39  NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSR-LQDTFF 97
             + EY      L    R     D+ +DM   G+     ++H+      K  R +++ F 
Sbjct: 368 RKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFR 427

Query: 98  FRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACA 157
           F   ++     P ++ +N L+SVC   ++ D A+R+   +++  +K + + Y  L++ CA
Sbjct: 428 FAKLIRN----PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCA 483

Query: 158 AAGQLDPVYAIVRDMTAAGAGLDKFCYAGLI--TAHTNKIPRA 198
            +G++D ++ +  +M  AG   +   +  LI   A   ++ +A
Sbjct: 484 KSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKA 526

Length = 1060

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

 Score = 47.6 bits (113), Expect = 1e-05
 Identities = 21/95 (22%), Positives = 45/95 (47%)

Query: 62  DVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVC 121
           ++Y+D+    ++PT    ++LI    +G++L        +MK  G  P+   Y+ L+   
Sbjct: 705 ELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVAS 764

Query: 122 GKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNAC 156
            +  ++D  + +  + K+  +KPN     C+   C
Sbjct: 765 ERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLC 799

Length = 1060

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 41.3 bits (98), Expect = 2e-05
 Identities = 11/33 (33%), Positives = 20/33 (60%)

Query: 113 VYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPN 145
            YN LI    K    ++A+ +F+EMK+  ++P+
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. 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. Length = 35

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

 Score = 45.3 bits (107), Expect = 5e-05
 Identities = 48/191 (25%), Positives = 77/191 (40%), Gaps = 20/191 (10%)

Query: 112 AVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRD 171
            VY   ++ C +  + D A+ I+++MKK  VKP+   +  L++    AG LD  + I++D
Sbjct: 615 EVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD 674

Query: 172 MTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVET-SGNNA----- 225
               G  L    Y+ L+ A +N    A +   K +EL E  K      T S  NA     
Sbjct: 675 ARKQGIKLGTVSYSSLMGACSN----AKNW-KKALELYEDIKSIKLRPTVSTMNALITAL 729

Query: 226 -ENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLK 284
            E   +  + E L  +          G     +T Y +   A     D      LL   K
Sbjct: 730 CEGNQLPKALEVLSEMKRL-------GLCPNTIT-YSILLVASERKDDADVGLDLLSQAK 781

Query: 285 KDRKSPDVYIV 295
           +D   P++ + 
Sbjct: 782 EDGIKPNLVMC 792

Length = 1060

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 44.5 bits (105), Expect = 9e-05
 Identities = 31/114 (27%), Positives = 53/114 (46%), Gaps = 9/114 (7%)

Query: 61  RDVYDDMMLDGVQPTRDL--FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLI 118
           R+V+D M      P ++L  +++LI G     R        ++M A G  P+   +  ++
Sbjct: 380 RNVFDRM------PRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVL 433

Query: 119 SVCGKCKNSDQAIRIFEEMKK-YEVKPNGQTYVCLLNACAAAGQLDPVYAIVRD 171
           S C     S+Q   IF+ M + + +KP    Y C++      G LD  YA++R 
Sbjct: 434 SACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRR 487

Length = 697

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 38.7 bits (91), Expect = 1e-04
 Identities = 12/34 (35%), Positives = 18/34 (52%)

Query: 111 VAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKP 144
           +  YN L+    K  + D A+ + EEMK   +KP
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 42.9 bits (101), Expect = 3e-04
 Identities = 35/151 (23%), Positives = 51/151 (33%), Gaps = 30/151 (19%)

Query: 62  DVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVC 121
           + Y  M  D V P      S++        L       +  +  G +  V V N LI + 
Sbjct: 375 ETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMY 434

Query: 122 GKCKNSDQAIRIFEEMKKYEV------------------------------KPNGQTYVC 151
            KCK  D+A+ +F  + + +V                              KPN  T + 
Sbjct: 435 SKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIA 494

Query: 152 LLNACAAAGQLDPVYAIVRDMTAAGAGLDKF 182
            L+ACA  G L     I   +   G G D F
Sbjct: 495 ALSACARIGALMCGKEIHAHVLRTGIGFDGF 525

Length = 857

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 41.8 bits (98), Expect = 7e-04
 Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 1/74 (1%)

Query: 100 DQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMK-KYEVKPNGQTYVCLLNACAA 158
           ++M  +G  PD   +  L+  C +     Q +  F  M+ KY + PN + Y C+++    
Sbjct: 578 NRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGR 637

Query: 159 AGQLDPVYAIVRDM 172
           AG+L   Y  +  M
Sbjct: 638 AGKLTEAYNFINKM 651

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 40.2 bits (94), Expect = 0.002
 Identities = 18/60 (30%), Positives = 32/60 (53%)

Query: 114 YNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMT 173
           +N LI+  G      +A+ +FE M    V PN  T++ +L+AC  +G  +  + I + M+
Sbjct: 394 WNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMS 453

Length = 697

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 12/30 (40%), Positives = 18/30 (60%)

Query: 113 VYNYLISVCGKCKNSDQAIRIFEEMKKYEV 142
            YN LIS   K    ++A+ +F+EMK+  V
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 35.4 bits (83), Expect = 0.002
 Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 4/36 (11%)

Query: 105 NGFLPDVAVYNYLISVCGKCKNS--DQAIRIFEEMK 138
            G  PDV  YN LI   G C+    D+A+ + +EM+
Sbjct: 1   KGLKPDVVTYNTLID--GLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	445
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03077	857	Protein ECB2; 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
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.87
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.84
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.84
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.83
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.81
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.75
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.63
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.61
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.56
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.53
PF13041	50	PPR_2: PPR repeat family	99.51
PF13041	50	PPR_2: PPR repeat family	99.51
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.46
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.46
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.43
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.39
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.39
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.38
PRK14574	822	hmsH outer membrane protein; Provisional	99.37
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.37
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.35
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.26
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.26
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.26
PRK14574	822	hmsH outer membrane protein; Provisional	99.25
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.25
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.21
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.17
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.14
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.1
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.09
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.09
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.07
KOG1126	638	consensus DNA-binding cell division cycle control	99.06
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.04
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.04
PF12854	34	PPR_1: PPR repeat	98.97
KOG2003	840	consensus TPR repeat-containing protein [General f	98.96
PF12854	34	PPR_1: PPR repeat	98.95
PRK12370	553	invasion protein regulator; Provisional	98.95
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	98.94
KOG2076	895	consensus RNA polymerase III transcription factor	98.9
PRK12370	553	invasion protein regulator; Provisional	98.88
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.85
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	98.8
KOG1126	638	consensus DNA-binding cell division cycle control	98.78
KOG2003	840	consensus TPR repeat-containing protein [General f	98.76
KOG2076	895	consensus RNA polymerase III transcription factor	98.73
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.7
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.62
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.59
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.57
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.55
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.53
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.52
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.51
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.51
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.47
PRK11189	296	lipoprotein NlpI; Provisional	98.47
KOG1129	478	consensus TPR repeat-containing protein [General f	98.44
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.43
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.43
KOG1129	478	consensus TPR repeat-containing protein [General f	98.42
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.4
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.4
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.38
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.37
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.36
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.36
PRK11189	296	lipoprotein NlpI; Provisional	98.35
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.34
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.33
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.29
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.26
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.25
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.23
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.22
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.19
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.18
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.17
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.13
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.12
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.09
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.08
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.07
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.04
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.03
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.02
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.01
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.99
PLN02789	320	farnesyltranstransferase	97.95
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.91
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.9
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	97.89
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.86
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	97.83
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.82
KOG2047	835	consensus mRNA splicing factor [RNA processing and	97.79
PRK15359	144	type III secretion system chaperone protein SscB;	97.79
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.74
PRK15359	144	type III secretion system chaperone protein SscB;	97.74
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.71
PRK04841	903	transcriptional regulator MalT; Provisional	97.69
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.68
KOG2376	652	consensus Signal recognition particle, subunit Srp	97.66
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.64
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.63
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.61
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	97.6
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.59
KOG2376	652	consensus Signal recognition particle, subunit Srp	97.58
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	97.57
PRK04841	903	transcriptional regulator MalT; Provisional	97.53
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.52
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.51
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.5
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.5
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.5
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.49
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.49
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.49
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.48
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.48
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	97.46
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.41
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.36
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	97.33
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.28
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.27
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.19
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.17
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.15
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.15
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.12
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.12
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.09
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.08
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.04
KOG3941	406	consensus Intermediate in Toll signal transduction	96.83
PLN02789	320	farnesyltranstransferase	96.8
KOG3616	1636	consensus Selective LIM binding factor [Transcript	96.78
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.78
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	96.78
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	96.77
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	96.77
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	96.77
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	96.75
KOG3941	406	consensus Intermediate in Toll signal transduction	96.75
KOG1125	579	consensus TPR repeat-containing protein [General f	96.75
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.66
KOG1125	579	consensus TPR repeat-containing protein [General f	96.61
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.59
COG4783	484	Putative Zn-dependent protease, contains TPR repea	96.52
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.48
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	96.46
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	96.45
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.42
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.41
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	96.37
KOG3060	289	consensus Uncharacterized conserved protein [Funct	96.32
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.3
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.28
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	96.27
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.2
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.18
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.17
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.12
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.1
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.09
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.04
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	95.85
PF12688	120	TPR_5: Tetratrico peptide repeat	95.84
KOG2796	366	consensus Uncharacterized conserved protein [Funct	95.63
PF12688	120	TPR_5: Tetratrico peptide repeat	95.61
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	95.54
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	95.5
PRK10803	263	tol-pal system protein YbgF; Provisional	95.47
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	95.46
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.45
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	95.4
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.29
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	95.19
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	95.07
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.03
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	94.92
PRK10803	263	tol-pal system protein YbgF; Provisional	94.89
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	94.8
PF13371	73	TPR_9: Tetratricopeptide repeat	94.78
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	94.76
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.76
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	94.68
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	94.65
KOG3060	289	consensus Uncharacterized conserved protein [Funct	94.36
KOG0553	304	consensus TPR repeat-containing protein [General f	94.28
PF13371	73	TPR_9: Tetratricopeptide repeat	94.26
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	94.1
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.02
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.01
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	94.01
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.37
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	93.37
smart00299	140	CLH Clathrin heavy chain repeat homology.	93.33
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	93.32
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	93.22
PF13929	292	mRNA_stabil: mRNA stabilisation	93.19
KOG0553	304	consensus TPR repeat-containing protein [General f	93.0
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	92.94
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	92.88
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	92.78
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	92.69
COG3629	280	DnrI DNA-binding transcriptional activator of the	92.52
COG4700	251	Uncharacterized protein conserved in bacteria cont	92.46
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	92.44
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	92.43
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	92.37
KOG4570	418	consensus Uncharacterized conserved protein [Funct	92.22
PF13762	145	MNE1: Mitochondrial splicing apparatus component	92.17
PRK15331	165	chaperone protein SicA; Provisional	92.15
COG4105	254	ComL DNA uptake lipoprotein [General function pred	92.02
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	91.99
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	91.95
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	91.92
COG3629	280	DnrI DNA-binding transcriptional activator of the	91.92
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	91.92
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	91.72
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	91.71
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	91.39
KOG4570	418	consensus Uncharacterized conserved protein [Funct	91.35
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	90.85
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	90.32
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	90.23
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	90.18
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	90.0
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	89.84
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	89.72
COG3898	531	Uncharacterized membrane-bound protein [Function u	89.35
KOG2041	1189	consensus WD40 repeat protein [General function pr	88.57
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	88.47
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	88.41
PF13762	145	MNE1: Mitochondrial splicing apparatus component	88.18
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	88.01
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	87.25
PF13512	142	TPR_18: Tetratricopeptide repeat	87.14
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	87.09
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	86.66
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	86.41
PF13512	142	TPR_18: Tetratricopeptide repeat	85.74
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	85.56
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	85.22
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	84.78
PF13929	292	mRNA_stabil: mRNA stabilisation	84.69
KOG4555	175	consensus TPR repeat-containing protein [Function	84.23
PRK15331	165	chaperone protein SicA; Provisional	83.84
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	83.58
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	83.5
PF13428	44	TPR_14: Tetratricopeptide repeat	82.94
PF13428	44	TPR_14: Tetratricopeptide repeat	82.78
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	82.14
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	81.94
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	81.69
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	80.78
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	80.5
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	80.48
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	80.48

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.8e-59  Score=472.24  Aligned_cols=367  Identities=14%  Similarity=0.174  Sum_probs=255.3

Q ss_pred             HHHhcCCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC
Q 013323           31 EYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD  110 (445)
Q Consensus        31 ~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~  110 (445)
                      ++.+....||..+||.+|.+|++.|+++.|.++|+.|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||
T Consensus       427 ~lf~~M~~pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~Pd  506 (1060)
T PLN03218        427 RFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEAN  506 (1060)
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCC
Confidence            33444445999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHH--cCCCCCHHHHHHHH
Q 013323          111 VAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA--AGAGLDKFCYAGLI  188 (445)
Q Consensus       111 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~--~g~~p~~~~~~~li  188 (445)
                      ..+||+||.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|..  .|+.||..+|+++|
T Consensus       507 vvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI  586 (1060)
T PLN03218        507 VHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALM  586 (1060)
T ss_pred             HHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999986  67899999999999


Q ss_pred             HHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHH
Q 013323          189 TAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACA  268 (445)
Q Consensus       189 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~  268 (445)
                      .+|++.|+.  +.|.++|+.|.+.+..+................   .+.........|...|+ .||..+|+++|.+|+
T Consensus       587 ~ay~k~G~l--deA~elf~~M~e~gi~p~~~tynsLI~ay~k~G---~~deAl~lf~eM~~~Gv-~PD~~TynsLI~a~~  660 (1060)
T PLN03218        587 KACANAGQV--DRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKG---DWDFALSIYDDMKKKGV-KPDEVFFSALVDVAG  660 (1060)
T ss_pred             HHHHHCCCH--HHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcC---CHHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHH
Confidence            999999977  899999999988643211111000000000000   01111111122333343 455555555555555


Q ss_pred             hcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-H
Q 013323          269 ELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-Q  347 (445)
Q Consensus       269 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~  347 (445)
                      +.|++++|.++|++|.+.|+.||..+|++||.+|++.|++++|.++|++|.+.|+.||..+|++||.    +|++.|. +
T Consensus       661 k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~----gy~k~G~~e  736 (1060)
T PLN03218        661 HAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALIT----ALCEGNQLP  736 (1060)
T ss_pred             hCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH----HHHHCCCHH
Confidence            5555555555555555555555555555555555555555555555555555555555555555555    4455555 5


Q ss_pred             HHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHH
Q 013323          348 LAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYY  409 (445)
Q Consensus       348 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~  409 (445)
                      +|.++|++|.+.|+.||..||+.+|.+|.  +.|++++|.++|++|.+.|+.||..+|++++
T Consensus       737 eAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~--k~G~le~A~~l~~~M~k~Gi~pd~~tynsLI  796 (1060)
T PLN03218        737 KALEVLSEMKRLGLCPNTITYSILLVASE--RKDDADVGLDLLSQAKEDGIKPNLVMCRCIT  796 (1060)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHH--HCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            55555555555555555555555555544  5555555555555555555555555555554

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=9.7e-58  Score=459.74  Aligned_cols=387  Identities=17%  Similarity=0.162  Sum_probs=334.4

Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 013323           28 GAEEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGF  107 (445)
Q Consensus        28 ~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~  107 (445)
                      -..+|.+.|+.||..+||++|.+|++.|+++.|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|.+.|+
T Consensus       459 lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv  538 (1060)
T PLN03218        459 VLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNV  538 (1060)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCC
Confidence            45678899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh--CCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHH
Q 013323          108 LPDVAVYNYLISVCGKCKNSDQAIRIFEEMKK--YEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYA  185 (445)
Q Consensus       108 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~--~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  185 (445)
                      .||..+||.||.+|++.|++++|.++|++|..  .|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.|+..+|+
T Consensus       539 ~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tyn  618 (1060)
T PLN03218        539 KPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYT  618 (1060)
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHH
Confidence            99999999999999999999999999999986  6899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHH
Q 013323          186 GLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFH  265 (445)
Q Consensus       186 ~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~  265 (445)
                      ++|.+|++.|+.  +.|.++|+.|...+..++..+..............+.   .......+.+.|+ .||..+|+++|.
T Consensus       619 sLI~ay~k~G~~--deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~ee---A~~l~~eM~k~G~-~pd~~tynsLI~  692 (1060)
T PLN03218        619 IAVNSCSQKGDW--DFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDK---AFEILQDARKQGI-KLGTVSYSSLMG  692 (1060)
T ss_pred             HHHHHHHhcCCH--HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHH---HHHHHHHHHHcCC-CCCHHHHHHHHH
Confidence            999999999987  9999999999987654443222111111111122222   2222334556677 999999999999


Q ss_pred             HHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhh
Q 013323          266 ACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKG  345 (445)
Q Consensus       266 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g  345 (445)
                      +|++.|++++|.++|++|.+.|+.||..+||.||.+|++.|++++|.++|++|...|+.||..||++||.    +|++.|
T Consensus       693 ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~----a~~k~G  768 (1060)
T PLN03218        693 ACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLV----ASERKD  768 (1060)
T ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH----HHHHCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999    789999


Q ss_pred             H-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHC--CCCCC----HHHHHHHHhhhhccCCC
Q 013323          346 M-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQAR--KITPS----LPAVEAYYNGLKDREVP  418 (445)
Q Consensus       346 ~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~--~~~p~----~~~~~~l~~~~~~~~~~  418 (445)
                      . +.|.+++++|.+.|+.||..+|+.++.+|.    +++++|..+.+.+...  +...+    ...-..+++.+.+.|..
T Consensus       769 ~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~----~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~  844 (1060)
T PLN03218        769 DADVGLDLLSQAKEDGIKPNLVMCRCITGLCL----RRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGTL  844 (1060)
T ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH----HHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCCCC
Confidence            8 999999999999999999999999997653    3566666665555532  22222    22233567888999999


Q ss_pred             CCCCchhhhh
Q 013323          419 ADDPRLVVVS  428 (445)
Q Consensus       419 ~~a~~~l~~~  428 (445)
                      |+..++..++
T Consensus       845 Pd~~T~~~vL  854 (1060)
T PLN03218        845 PTMEVLSQVL  854 (1060)
T ss_pred             CCHHHHHHHH
Confidence            9998876665

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2e-54  Score=442.50  Aligned_cols=392  Identities=16%  Similarity=0.121  Sum_probs=325.1

Q ss_pred             HHhcCCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCH
Q 013323           32 YARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDV  111 (445)
Q Consensus        32 ~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~  111 (445)
                      ...+...||+++||++|.+|++.|++++|+++|++|.+.|+.||..||+.+|.+|++.|+.+.+.+++..|.+.|+.||.
T Consensus       244 lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~  323 (857)
T PLN03077        244 VFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDV  323 (857)
T ss_pred             HHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccch
Confidence            33444478999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 013323          112 AVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAH  191 (445)
Q Consensus       112 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  191 (445)
                      .+||+||.+|++.|++++|.++|++|.    .||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|
T Consensus       324 ~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~  399 (857)
T PLN03077        324 SVCNSLIQMYLSLGSWGEAEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSAC  399 (857)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHH
Confidence            999999999999999999999999987    4788899999999999999999999999999999999999999999888


Q ss_pred             HccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhc----------------------------chhhh
Q 013323          192 TNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELY----------------------------NLPTA  243 (445)
Q Consensus       192 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------~~~~~  243 (445)
                      ++.|+.  +.+.++++.+.+.+..+..................+...                            .....
T Consensus       400 ~~~g~~--~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~l  477 (857)
T PLN03077        400 ACLGDL--DVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIF  477 (857)
T ss_pred             hccchH--HHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHH
Confidence            888876  888888888877654332211111000000000000000                            00011


Q ss_pred             hHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCC
Q 013323          244 EYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEK  323 (445)
Q Consensus       244 ~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  323 (445)
                      ...|. .+ ..||..||+++|.+|++.|+++.+.+++..+.+.|+.+|..++|+||.+|+++|++++|+++|+.+     
T Consensus       478 f~~m~-~~-~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-----  550 (857)
T PLN03077        478 FRQML-LT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-----  550 (857)
T ss_pred             HHHHH-hC-CCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-----
Confidence            11222 23 378888888888888888888888888888888888888888888889999999999999999886     


Q ss_pred             CCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHH-HCCCCCC
Q 013323          324 FPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQ-ARKITPS  401 (445)
Q Consensus       324 ~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~-~~~~~p~  401 (445)
                      .||..+|++||.    +|+++|. ++|.++|++|.+.|+.||..||+.+|.+|.  +.|++++|.++|++|. +.|+.|+
T Consensus       551 ~~d~~s~n~lI~----~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~--~~g~v~ea~~~f~~M~~~~gi~P~  624 (857)
T PLN03077        551 EKDVVSWNILLT----GYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACS--RSGMVTQGLEYFHSMEEKYSITPN  624 (857)
T ss_pred             CCChhhHHHHHH----HHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHh--hcChHHHHHHHHHHHHHHhCCCCc
Confidence            579999999999    7899999 999999999999999999999999999998  9999999999999999 7899999


Q ss_pred             HHHHHHHHhhhhccCCCCCCCc----------------hhhhhhccccccccCcccc
Q 013323          402 LPAVEAYYNGLKDREVPADDPR----------------LVVVSRAYDNLLRGRPGAV  442 (445)
Q Consensus       402 ~~~~~~l~~~~~~~~~~~~a~~----------------~l~~~~~~~~~~~~~~~~~  442 (445)
                      ..+|++++++|++.|..++|..                ++++|+.+++...|+.+|.
T Consensus       625 ~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~  681 (857)
T PLN03077        625 LKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQ  681 (857)
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            9999999999999998766653                5677788888888877664

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

Probab=100.00  E-value=8.8e-54  Score=427.98  Aligned_cols=388  Identities=18%  Similarity=0.177  Sum_probs=342.7

Q ss_pred             HHHHHhc-CCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 013323           29 AEEYARR-NYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGF  107 (445)
Q Consensus        29 ~~~~~~~-~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~  107 (445)
                      ...|... ++.||..+|++++.+|++.++++.+.+++..|.+.|+.||..+|+.++++|++.|+++.|.++|++|.+   
T Consensus       110 f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~---  186 (697)
T PLN03081        110 FEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPE---  186 (697)
T ss_pred             HHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCC---
Confidence            4556554 478999999999999999999999999999999999999999999999999999999999999999975   


Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHH
Q 013323          108 LPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGL  187 (445)
Q Consensus       108 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  187 (445)
                       ||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|..+.+.+++..+.+.|+.||..+|+++
T Consensus       187 -~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~L  265 (697)
T PLN03081        187 -RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCAL  265 (697)
T ss_pred             -CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHH
Confidence             8999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHccCCCchHHHHHHHHHHHHhcCCccccccccc-cchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHH
Q 013323          188 ITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNN-AENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHA  266 (445)
Q Consensus       188 i~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~  266 (445)
                      |++|++.|+.  +.|.++|+.|......    +.... ......+...    ........|...|+ .||..||+++|.+
T Consensus       266 i~~y~k~g~~--~~A~~vf~~m~~~~~v----t~n~li~~y~~~g~~~----eA~~lf~~M~~~g~-~pd~~t~~~ll~a  334 (697)
T PLN03081        266 IDMYSKCGDI--EDARCVFDGMPEKTTV----AWNSMLAGYALHGYSE----EALCLYYEMRDSGV-SIDQFTFSIMIRI  334 (697)
T ss_pred             HHHHHHCCCH--HHHHHHHHhCCCCChh----HHHHHHHHHHhCCCHH----HHHHHHHHHHHcCC-CCCHHHHHHHHHH
Confidence            9999999987  9999999988653211    00000 0111111111    12222335666677 8999999999999


Q ss_pred             HHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH
Q 013323          267 CAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM  346 (445)
Q Consensus       267 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~  346 (445)
                      |++.|++++|.+++..|.+.|+.||..+|++||.+|+++|++++|.++|++|.+    ||..+||+||.    +|+++|.
T Consensus       335 ~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~n~lI~----~y~~~G~  406 (697)
T PLN03081        335 FSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISWNALIA----GYGNHGR  406 (697)
T ss_pred             HHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeHHHHHH----HHHHcCC
Confidence            999999999999999999999999999999999999999999999999999964    69999999999    7999999


Q ss_pred             -HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHH-CCCCCCHHHHHHHHhhhhccCCCCCCCc-
Q 013323          347 -QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQA-RKITPSLPAVEAYYNGLKDREVPADDPR-  423 (445)
Q Consensus       347 -~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~-~~~~p~~~~~~~l~~~~~~~~~~~~a~~-  423 (445)
                       ++|.++|++|.+.|+.||..||+.+|.+|.  +.|++++|.++|+.|.+ .|+.|+..+|++++++|++.|..++|.. 
T Consensus       407 ~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~--~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~  484 (697)
T PLN03081        407 GTKAVEMFERMIAEGVAPNHVTFLAVLSACR--YSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAM  484 (697)
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHh--cCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHH
Confidence             999999999999999999999999999998  99999999999999985 7999999999999999999998887753 


Q ss_pred             ---------------hhhhhhccccccccCccc
Q 013323          424 ---------------LVVVSRAYDNLLRGRPGA  441 (445)
Q Consensus       424 ---------------~l~~~~~~~~~~~~~~~~  441 (445)
                                     ++++|+.+|+...|+.++
T Consensus       485 ~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~  517 (697)
T PLN03081        485 IRRAPFKPTVNMWAALLTACRIHKNLELGRLAA  517 (697)
T ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHH
Confidence                           566777888887776554

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

Probab=100.00  E-value=8.5e-53  Score=420.90  Aligned_cols=373  Identities=13%  Similarity=0.105  Sum_probs=332.9

Q ss_pred             hcCCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCC-CCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHH
Q 013323           34 RRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDG-VQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVA  112 (445)
Q Consensus        34 ~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~  112 (445)
                      .....++..+|+.+|.++.+.|++++|+++|+.|...+ +.||..+|+.++.+|++.++.+.+.+++..|.+.|+.||..
T Consensus        80 ~~~~~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~  159 (697)
T PLN03081         80 DTQIRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQY  159 (697)
T ss_pred             cccCCCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchH
Confidence            34467788999999999999999999999999998864 78999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 013323          113 VYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHT  192 (445)
Q Consensus       113 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  192 (445)
                      +||.||++|++.|++++|.++|++|.+    ||..+||++|.+|++.|++++|.++|++|.+.|+.|+..||+.++.+|+
T Consensus       160 ~~n~Li~~y~k~g~~~~A~~lf~~m~~----~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~  235 (697)
T PLN03081        160 MMNRVLLMHVKCGMLIDARRLFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASA  235 (697)
T ss_pred             HHHHHHHHHhcCCCHHHHHHHHhcCCC----CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHh
Confidence            999999999999999999999999974    8999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhccc
Q 013323          193 NKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKD  272 (445)
Q Consensus       193 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~  272 (445)
                      +.|..  +.+.+++..+.+.+..+..................+....+..        ....+|..+||++|.+|++.|+
T Consensus       236 ~~~~~--~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~--------~m~~~~~vt~n~li~~y~~~g~  305 (697)
T PLN03081        236 GLGSA--RAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFD--------GMPEKTTVAWNSMLAGYALHGY  305 (697)
T ss_pred             cCCcH--HHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHH--------hCCCCChhHHHHHHHHHHhCCC
Confidence            99876  8899999998887654433222222111111222222211111        1126799999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHH
Q 013323          273 VQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQD  351 (445)
Q Consensus       273 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~  351 (445)
                      +++|.++|++|.+.|+.||..||+++|.+|++.|++++|.+++..|.+.|+.||..+|++||+    +|++.|. +.|.+
T Consensus       306 ~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~----~y~k~G~~~~A~~  381 (697)
T PLN03081        306 SEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVD----LYSKWGRMEDARN  381 (697)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHH----HHHHCCCHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999    7899999 99999


Q ss_pred             HHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccCCCCCCCchhhhhhc
Q 013323          352 TLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRLVVVSRA  430 (445)
Q Consensus       352 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~l~~~~~  430 (445)
                      +|++|.+    ||..+|+.+|.+|+  +.|+.++|.++|++|.+.|+.||..||++++.+|++.|..+++..++..+..
T Consensus       382 vf~~m~~----~d~~t~n~lI~~y~--~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~  454 (697)
T PLN03081        382 VFDRMPR----KNLISWNALIAGYG--NHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSE  454 (697)
T ss_pred             HHHhCCC----CCeeeHHHHHHHHH--HcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHH
Confidence            9999964    78999999999998  9999999999999999999999999999999999999999999888877753

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.3e-52  Score=426.21  Aligned_cols=382  Identities=14%  Similarity=0.067  Sum_probs=254.4

Q ss_pred             HHHHhcCCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCC
Q 013323           30 EEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLP  109 (445)
Q Consensus        30 ~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p  109 (445)
                      .+.......||+++||++|.+|++.|++++|+++|++|...|+.||..||+.+|++|++.+++..+.+++..|.+.|+.|
T Consensus       141 ~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~  220 (857)
T PLN03077        141 WYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFEL  220 (857)
T ss_pred             HHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCc
Confidence            44445555799999999999999999999999999999999999999999888888877777777777777777777777


Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHH
Q 013323          110 DVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLIT  189 (445)
Q Consensus       110 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  189 (445)
                      |..+||+||.+|++.|++++|.++|++|.    .||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.+|.
T Consensus       221 ~~~~~n~Li~~y~k~g~~~~A~~lf~~m~----~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~  296 (857)
T PLN03077        221 DVDVVNALITMYVKCGDVVSARLVFDRMP----RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVIS  296 (857)
T ss_pred             ccchHhHHHHHHhcCCCHHHHHHHHhcCC----CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHH
Confidence            77777777777777776666666666665    25556666666666666666666666666666666666666666666


Q ss_pred             HHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchh----------------------------hhcchh
Q 013323          190 AHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKE----------------------------ELYNLP  241 (445)
Q Consensus       190 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------~~~~~~  241 (445)
                      +|++.|+.  +.+.+++..+.+.+..++.................+                            ......
T Consensus       297 a~~~~g~~--~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~  374 (857)
T PLN03077        297 ACELLGDE--RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKAL  374 (857)
T ss_pred             HHHhcCCh--HHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHH
Confidence            66665544  555555555555433222111110000000000000                            011111


Q ss_pred             hhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          242 TAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       242 ~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      .....|...|+ .||..||+++|.+|++.|+++.|.++++.|.+.|+.|+..+||+||.+|++.|++++|.++|++|.+.
T Consensus       375 ~lf~~M~~~g~-~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~  453 (857)
T PLN03077        375 ETYALMEQDNV-SPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK  453 (857)
T ss_pred             HHHHHHHHhCC-CCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCC
Confidence            11223334444 56666666666666666666666666666666666666666666666666666666666666666543


Q ss_pred             CCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCC------------------------------------
Q 013323          322 EKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLS------------------------------------  364 (445)
Q Consensus       322 ~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~------------------------------------  364 (445)
                          |..+|+++|.    +|+++|. ++|.++|++|.. ++.||                                    
T Consensus       454 ----d~vs~~~mi~----~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~  524 (857)
T PLN03077        454 ----DVISWTSIIA----GLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDG  524 (857)
T ss_pred             ----CeeeHHHHHH----HHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccc
Confidence                4445555555    4455555 555555555543 24444                                    


Q ss_pred             -----------------------------cchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhcc
Q 013323          365 -----------------------------PRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDR  415 (445)
Q Consensus       365 -----------------------------~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  415 (445)
                                                   ..+|+.+|.+|+  +.|+.++|.++|++|.+.|+.||..||+.++.+|++.
T Consensus       525 ~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~--~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~  602 (857)
T PLN03077        525 FLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYV--AHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRS  602 (857)
T ss_pred             eechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHH--HcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhc
Confidence                                         445666666666  8999999999999999999999999999999999999


Q ss_pred             CCCCCCCchhhhhh
Q 013323          416 EVPADDPRLVVVSR  429 (445)
Q Consensus       416 ~~~~~a~~~l~~~~  429 (445)
                      |..+++..++..++
T Consensus       603 g~v~ea~~~f~~M~  616 (857)
T PLN03077        603 GMVTQGLEYFHSME  616 (857)
T ss_pred             ChHHHHHHHHHHHH
Confidence            99999998888776

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.87  E-value=3.3e-19  Score=167.70  Aligned_cols=313  Identities=13%  Similarity=0.072  Sum_probs=248.5

Q ss_pred             HHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHccC
Q 013323           49 TSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD---VAVYNYLISVCGKCK  125 (445)
Q Consensus        49 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~g  125 (445)
                      ..+...|++++|.+.|.++.+.+ +.+..++..+...+...|++++|..+++.+...+..++   ..++..+...|.+.|
T Consensus        43 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g  121 (389)
T PRK11788         43 LNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAG  121 (389)
T ss_pred             HHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCC
Confidence            34567899999999999999864 23556788899999999999999999999988642222   357889999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCH----HHHHHHHHHHHccCCCchHH
Q 013323          126 NSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDK----FCYAGLITAHTNKIPRADDT  201 (445)
Q Consensus       126 ~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~~~~~~~~  201 (445)
                      ++++|..+|+++.+.. +++..+++.++..+.+.|++++|.+.++.+.+.+..++.    ..+..+...+.+.|+.  +.
T Consensus       122 ~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~--~~  198 (389)
T PRK11788        122 LLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDL--DA  198 (389)
T ss_pred             CHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCH--HH
Confidence            9999999999998753 356789999999999999999999999999886533322    2344555666777765  88


Q ss_pred             HHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHH
Q 013323          202 ATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLE  281 (445)
Q Consensus       202 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  281 (445)
                      |...++.+.+..                                        +.+...+..+...+.+.|++++|.++++
T Consensus       199 A~~~~~~al~~~----------------------------------------p~~~~~~~~la~~~~~~g~~~~A~~~~~  238 (389)
T PRK11788        199 ARALLKKALAAD----------------------------------------PQCVRASILLGDLALAQGDYAAAIEALE  238 (389)
T ss_pred             HHHHHHHHHhHC----------------------------------------cCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            999998876532                                        3344567788899999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCC
Q 013323          282 MLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRN  360 (445)
Q Consensus       282 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~  360 (445)
                      ++.+.+......+++.+..+|+..|++++|.+.++.+.+.  .|+...+..+..    .+.+.|. ++|..+++++.+. 
T Consensus       239 ~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~----~~~~~g~~~~A~~~l~~~l~~-  311 (389)
T PRK11788        239 RVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQ----LLEEQEGPEAAQALLREQLRR-  311 (389)
T ss_pred             HHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHH----HHHHhCCHHHHHHHHHHHHHh-
Confidence            9987532223467889999999999999999999999876  466666666666    5788888 9999999998876 


Q ss_pred             CCCCcchhhHHHHHhh-cccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccCCCC
Q 013323          361 IFLSPRMGSDLLLVAA-GEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPA  419 (445)
Q Consensus       361 ~~p~~~~~~~ll~~~~-~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~  419 (445)
                       .|+..++..++..+. ....|+.+++..++++|.++++.|++.      ..|...|...
T Consensus       312 -~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~------~~c~~cg~~~  364 (389)
T PRK11788        312 -HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR------YRCRNCGFTA  364 (389)
T ss_pred             -CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC------EECCCCCCCC
Confidence             588888887776654 112679999999999999999998887      3355556553

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

Probab=99.84  E-value=1.5e-17  Score=173.61  Aligned_cols=368  Identities=10%  Similarity=-0.050  Sum_probs=278.1

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYL  117 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  117 (445)
                      ..+..++..+...+.+.|++++|...|+++.+.+ +.+...+..+...+.+.|++++|..+++.+.+.. +.+..+|..+
T Consensus       530 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l  607 (899)
T TIGR02917       530 PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLML  607 (899)
T ss_pred             cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHH
Confidence            4567888899999999999999999999987754 3466778888899999999999999999998754 4578889999


Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCC
Q 013323          118 ISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPR  197 (445)
Q Consensus       118 l~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~  197 (445)
                      ..++.+.|++++|...|+.+.+.. +.+...+..+...+.+.|++++|..+|+++.+.. +.+..++..+...+...|+.
T Consensus       608 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  685 (899)
T TIGR02917       608 GRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRT  685 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCH
Confidence            999999999999999999998753 2356778889999999999999999999988753 33577888888888888876


Q ss_pred             chHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHH
Q 013323          198 ADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAME  277 (445)
Q Consensus       198 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~  277 (445)
                        +.+.++++.+.....................+...+..       ......-...|+..++..+...+.+.|+.++|.
T Consensus       686 --~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~-------~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  756 (899)
T TIGR02917       686 --ESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAI-------QAYRKALKRAPSSQNAIKLHRALLASGNTAEAV  756 (899)
T ss_pred             --HHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHH-------HHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHH
Confidence              88999998887654221111000000000011111111       011110011455567888999999999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhHHHHHHHHHHHH
Q 013323          278 TLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMN  357 (445)
Q Consensus       278 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~~~a~~~~~~m~  357 (445)
                      +.++.+.+.. +.+..++..+...|...|++++|.+.|+.+.+.. +++...++.+..    .+...|..+|...+++..
T Consensus       757 ~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~----~~~~~~~~~A~~~~~~~~  830 (899)
T TIGR02917       757 KTLEAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAW----LYLELKDPRALEYAEKAL  830 (899)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH----HHHhcCcHHHHHHHHHHH
Confidence            9999888753 4577889999999999999999999999998874 346777777766    455666667999999988


Q ss_pred             hCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccCCCCCCCchhhhh
Q 013323          358 SRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRLVVVS  428 (445)
Q Consensus       358 ~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~l~~~  428 (445)
                      +.. +-++.++..+...+.  ..|++++|..+|+++.+.+.. ++.++..+...+++.|..++|..++.-+
T Consensus       831 ~~~-~~~~~~~~~~~~~~~--~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  897 (899)
T TIGR02917       831 KLA-PNIPAILDTLGWLLV--EKGEADRALPLLRKAVNIAPE-AAAIRYHLALALLATGRKAEARKELDKL  897 (899)
T ss_pred             hhC-CCCcHHHHHHHHHHH--HcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            754 224445555555555  999999999999999986643 8899999999999999999998876543

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.

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.84  E-value=5e-18  Score=147.98  Aligned_cols=357  Identities=12%  Similarity=0.154  Sum_probs=259.1

Q ss_pred             HHhcCCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCH
Q 013323           32 YARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDV  111 (445)
Q Consensus        32 ~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~  111 (445)
                      .-......+..+|..+|.++|+....+.|.+++++-.....+.+..+||.+|.+.+-..    ..+++.+|....+.||.
T Consensus       198 L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl  273 (625)
T KOG4422|consen  198 LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNL  273 (625)
T ss_pred             HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCch
Confidence            34445567899999999999999999999999999999888999999999998765333    38899999999999999


Q ss_pred             HHHHHHHHHHHccCCHHH----HHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhh-HHHHHHHHH----HcCCCC---
Q 013323          112 AVYNYLISVCGKCKNSDQ----AIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDP-VYAIVRDMT----AAGAGL---  179 (445)
Q Consensus       112 ~~~~~ll~~~~~~g~~~~----a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~-a~~~~~~m~----~~g~~p---  179 (445)
                      .|||+++++.++.|+++.    |.+++.+|++-|+.|...+|..+|..+++-++..+ +..+..++.    .+.++|   
T Consensus       274 ~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p  353 (625)
T KOG4422|consen  274 FTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITP  353 (625)
T ss_pred             HhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCC
Confidence            999999999999998754    67888999999999999999999999999998855 334444443    333433   


Q ss_pred             -CHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchh
Q 013323          180 -DKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLT  258 (445)
Q Consensus       180 -~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~  258 (445)
                       |...|...+..|.+..+.  +.|.++.+.++...+|..+..                                ......
T Consensus       354 ~d~~FF~~AM~Ic~~l~d~--~LA~~v~~ll~tg~N~~~ig~--------------------------------~~~~~f  399 (625)
T KOG4422|consen  354 TDNKFFQSAMSICSSLRDL--ELAYQVHGLLKTGDNWKFIGP--------------------------------DQHRNF  399 (625)
T ss_pred             chhHHHHHHHHHHHHhhhH--HHHHHHHHHHHcCCchhhcCh--------------------------------HHHHHH
Confidence             466778888888877655  889999999998776643211                                011123


Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHh
Q 013323          259 VYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAM  338 (445)
Q Consensus       259 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  338 (445)
                      -|..+....|.....+.....++.|.-+-.-|+..+...++++....|+++-.-++|.++...|..-+...-.-++.-++
T Consensus       400 Yyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~  479 (625)
T KOG4422|consen  400 YYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLA  479 (625)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHh
Confidence            45667778888888999999999998887889999999999999999999999999998887763222222222222111


Q ss_pred             hc-----------------CChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHC-CCC
Q 013323          339 FG-----------------YTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQAR-KIT  399 (445)
Q Consensus       339 ~~-----------------~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~-~~~  399 (445)
                      .-                 -+.... +....--.+|++..+.|.  ..+.......  +.|..++|.++|..+.+. .-.
T Consensus       480 ~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~t--~l~~ia~Ll~--R~G~~qkA~e~l~l~~~~~~~i  555 (625)
T KOG4422|consen  480 RDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPAT--SLNCIAILLL--RAGRTQKAWEMLGLFLRKHNKI  555 (625)
T ss_pred             cCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCChh--HHHHHHHHHH--HcchHHHHHHHHHHHHhcCCcC
Confidence            00                 011111 222223344555555443  3333333344  899999999999999643 223


Q ss_pred             ---CCHHHHHHHHhhhhccCCCCCCCchhhhhhc
Q 013323          400 ---PSLPAVEAYYNGLKDREVPADDPRLVVVSRA  430 (445)
Q Consensus       400 ---p~~~~~~~l~~~~~~~~~~~~a~~~l~~~~~  430 (445)
                         |.......|++.-...+.+-.|...+.....
T Consensus       556 p~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~  589 (625)
T KOG4422|consen  556 PRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASA  589 (625)
T ss_pred             CCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence               4444444566666667777788888777733

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.83  E-value=1.1e-17  Score=157.52  Aligned_cols=280  Identities=13%  Similarity=0.078  Sum_probs=228.2

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCC---HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHH
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPT---RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYN  115 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~  115 (445)
                      .+..+|..+...+...|++++|.++++.+...+..++   ...+..+...+.+.|+++.|..+|+++.+.. +++..+++
T Consensus        67 ~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~  145 (389)
T PRK11788         67 ETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQ  145 (389)
T ss_pred             ccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHH
Confidence            3566888999999999999999999999987643222   2467888899999999999999999998763 35678999


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCcc----HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 013323          116 YLISVCGKCKNSDQAIRIFEEMKKYEVKPN----GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAH  191 (445)
Q Consensus       116 ~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~----~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  191 (445)
                      .+...+.+.|++++|.+.++.+.+.+..++    ...|..+...+.+.|++++|...|+++.+.. +.+...+..+...+
T Consensus       146 ~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~  224 (389)
T PRK11788        146 QLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLA  224 (389)
T ss_pred             HHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHH
Confidence            999999999999999999999987653332    2345677788899999999999999998754 23456777778888


Q ss_pred             HccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcc
Q 013323          192 TNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELK  271 (445)
Q Consensus       192 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g  271 (445)
                      .+.|+.  +.|.+.++.+.....                                       .....+++.+..+|.+.|
T Consensus       225 ~~~g~~--~~A~~~~~~~~~~~p---------------------------------------~~~~~~~~~l~~~~~~~g  263 (389)
T PRK11788        225 LAQGDY--AAAIEALERVEEQDP---------------------------------------EYLSEVLPKLMECYQALG  263 (389)
T ss_pred             HHCCCH--HHHHHHHHHHHHHCh---------------------------------------hhHHHHHHHHHHHHHHcC
Confidence            888876  889999998775420                                       112356788999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHH
Q 013323          272 DVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQ  350 (445)
Q Consensus       272 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~  350 (445)
                      ++++|...++.+.+.  .|+...+..+...+.+.|++++|.++|+++.+.  .|+..+++.++...+ .....|. +++.
T Consensus       264 ~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~-~~~~~g~~~~a~  338 (389)
T PRK11788        264 DEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHL-AEAEEGRAKESL  338 (389)
T ss_pred             CHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhh-hccCCccchhHH
Confidence            999999999998875  577777788999999999999999999998875  689999998887432 1122556 8999


Q ss_pred             HHHHHHHhCCCCCCcc
Q 013323          351 DTLVNMNSRNIFLSPR  366 (445)
Q Consensus       351 ~~~~~m~~~~~~p~~~  366 (445)
                      .++++|.++++.|++.
T Consensus       339 ~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        339 LLLRDLVGEQLKRKPR  354 (389)
T ss_pred             HHHHHHHHHHHhCCCC
Confidence            9999999999998887

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

Probab=99.81  E-value=2.1e-16  Score=164.99  Aligned_cols=363  Identities=11%  Similarity=0.008  Sum_probs=244.5

Q ss_pred             CCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHH
Q 013323           36 NYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYN  115 (445)
Q Consensus        36 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~  115 (445)
                      ...++...|+.+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.|+.+.+.+ +.+..++.
T Consensus       460 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~  537 (899)
T TIGR02917       460 KQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAIL  537 (899)
T ss_pred             hCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHH
Confidence            345677888888899999999999999999887653 2345567777888888899999999999888765 34677888


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC
Q 013323          116 YLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKI  195 (445)
Q Consensus       116 ~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~  195 (445)
                      .+...+.+.|+.++|..+|+++...+ +.+...+..+...+.+.|++++|..+++.+.+.. +.+..+|..+...+...|
T Consensus       538 ~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  615 (899)
T TIGR02917       538 ALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAG  615 (899)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcC
Confidence            88888888888999988888887654 3456677788888888888888888888887643 446777888888888877


Q ss_pred             CCchHHHHHHHHHHHHhcCCccccccccccch-hhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHH
Q 013323          196 PRADDTATKIIELVEQSKGWSSVETSGNNAEN-EMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQ  274 (445)
Q Consensus       196 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~  274 (445)
                      +.  +.+...++.+........... ...... ...+...+... .....     -...+.+..++..+...+...|+++
T Consensus       616 ~~--~~A~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~A~~-~~~~~-----~~~~~~~~~~~~~l~~~~~~~~~~~  686 (899)
T TIGR02917       616 DL--NKAVSSFKKLLALQPDSALAL-LLLADAYAVMKNYAKAIT-SLKRA-----LELKPDNTEAQIGLAQLLLAAKRTE  686 (899)
T ss_pred             CH--HHHHHHHHHHHHhCCCChHHH-HHHHHHHHHcCCHHHHHH-HHHHH-----HhcCCCCHHHHHHHHHHHHHcCCHH
Confidence            66  778888877765432111000 000000 00011111110 00000     0111445667777888888888888


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHH
Q 013323          275 AMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTL  353 (445)
Q Consensus       275 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~  353 (445)
                      +|.++++.+.+.. +++...+..+...+...|++++|.+.|+.+...+  |+..++..+..    .+.+.|. ++|.+.+
T Consensus       687 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~----~~~~~g~~~~A~~~~  759 (899)
T TIGR02917       687 SAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHR----ALLASGNTAEAVKTL  759 (899)
T ss_pred             HHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHH----HHHHCCCHHHHHHHH
Confidence            8888888877654 3456667777777888888888888888877653  44455555555    4566676 7788877


Q ss_pred             HHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccCCCCCCCc
Q 013323          354 VNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPR  423 (445)
Q Consensus       354 ~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  423 (445)
                      +++.+.. +.+...+..+...+.  +.|++++|...|+++.+.. ++++..+..+...+.+.|. ++|..
T Consensus       760 ~~~l~~~-~~~~~~~~~la~~~~--~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~  824 (899)
T TIGR02917       760 EAWLKTH-PNDAVLRTALAELYL--AQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALE  824 (899)
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHH--HCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHH
Confidence            7777654 234445555555554  7788888888888877543 3456666666666666665 44444

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.

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.75  E-value=9.2e-15  Score=127.87  Aligned_cols=313  Identities=16%  Similarity=0.162  Sum_probs=225.7

Q ss_pred             CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHH
Q 013323           75 TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLN  154 (445)
Q Consensus        75 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~  154 (445)
                      +..||.++|.++|+-...+.|..+|++-.....+.+..+||.+|.+-+-.-    ..+++.+|....+.||..|+|++++
T Consensus       206 T~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNalL~  281 (625)
T KOG4422|consen  206 TDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNALLS  281 (625)
T ss_pred             CchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHHHH
Confidence            456899999999999999999999999998888899999999998765432    3789999999999999999999999


Q ss_pred             HHHHcCChhh----HHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHh---cCCccccccccccch
Q 013323          155 ACAAAGQLDP----VYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQS---KGWSSVETSGNNAEN  227 (445)
Q Consensus       155 ~~~~~g~~~~----a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~~~~  227 (445)
                      +..+.|+++.    |.+++.+|++-|+.|+..+|..+|.-+++.++. ...+..+...+...   +.+.+.         
T Consensus       282 c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp-~k~as~~i~dI~N~ltGK~fkp~---------  351 (625)
T KOG4422|consen  282 CAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDP-QKVASSWINDIQNSLTGKTFKPI---------  351 (625)
T ss_pred             HHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCc-hhhhHHHHHHHHHhhccCcccCC---------
Confidence            9999998865    678899999999999999999999998887653 12233333333221   111111         


Q ss_pred             hhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhC----CCCCCH---HHHHHHHH
Q 013323          228 EMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKD----RKSPDV---YIVMQNIR  300 (445)
Q Consensus       228 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~---~~~~~li~  300 (445)
                                               .+.|...|...|..|.+..+.+.|.++..-++..    -+.|+.   .-|..+..
T Consensus       352 -------------------------~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~  406 (625)
T KOG4422|consen  352 -------------------------TPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFD  406 (625)
T ss_pred             -------------------------CCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHH
Confidence                                     1556678899999999999999999998877643    234443   35777888


Q ss_pred             HHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhh---
Q 013323          301 CYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAA---  376 (445)
Q Consensus       301 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~---  376 (445)
                      +.|....++.-+.+|+.|.-.-+.|+..+-..++++    ....+. +-.-++|.++...|-..+.+.-..++...+   
T Consensus       407 licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA----~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k  482 (625)
T KOG4422|consen  407 LICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRA----LDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDK  482 (625)
T ss_pred             HHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHH----HhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCC
Confidence            999999999999999999999888999998888884    445555 666666666665542222222222221111   


Q ss_pred             ----------------cccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccCCCCCCCchhhhh-hccc
Q 013323          377 ----------------GEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRLVVVS-RAYD  432 (445)
Q Consensus       377 ----------------~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~l~~~-~~~~  432 (445)
                                      -|...-.+....--.+|++..+.|  ...+...--+.+.|...+|..+++.+ ++++
T Consensus       483 ~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~--t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~  553 (625)
T KOG4422|consen  483 LHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPA--TSLNCIAILLLRAGRTQKAWEMLGLFLRKHN  553 (625)
T ss_pred             CCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCCh--hHHHHHHHHHHHcchHHHHHHHHHHHHhcCC
Confidence                            001222222233344555555544  45666777788999999999998887 4433

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.63  E-value=5.7e-12  Score=125.10  Aligned_cols=131  Identities=10%  Similarity=0.063  Sum_probs=95.0

Q ss_pred             cCchhHHHHHHHHHHhcccHHH----HHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCC-H
Q 013323          254 SRLLTVYHVAFHACAELKDVQA----METLLEMLKKDRKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPP-A  327 (445)
Q Consensus       254 ~~~~~~~~~li~~~~~~g~~~~----a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~  327 (445)
                      +.+...+..+-..+...|++++    |...++...+.  .| +...+..+...+...|++++|...++.....  .|+ .
T Consensus       243 p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~  318 (656)
T PRK15174        243 LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLP  318 (656)
T ss_pred             CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCH
Confidence            4456677778888888998875    78888887763  45 5668888889999999999999999988875  343 3


Q ss_pred             HHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhH-HHHHhhcccCCChhhHHHHHHHHHHC
Q 013323          328 ELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSD-LLLVAAGEKSGGYTTANYIWDLMQAR  396 (445)
Q Consensus       328 ~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~-ll~~~~~~~~g~~~~A~~~~~~m~~~  396 (445)
                      ..+..+-.    .+.+.|. ++|...++++.+.+  |+...+.. +..++.  ..|+.++|...|++..+.
T Consensus       319 ~a~~~La~----~l~~~G~~~eA~~~l~~al~~~--P~~~~~~~~~a~al~--~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        319 YVRAMYAR----ALRQVGQYTAASDEFVQLAREK--GVTSKWNRYAAAALL--QAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHHHHHHH----HHHHCCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHH--HCCCHHHHHHHHHHHHHh
Confidence            34444444    4677788 99999999888754  55433322 233344  899999999999988754

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.61  E-value=3.8e-12  Score=126.34  Aligned_cols=326  Identities=10%  Similarity=-0.015  Sum_probs=242.3

Q ss_pred             hHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013323           43 EYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCG  122 (445)
Q Consensus        43 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  122 (445)
                      -.-.++..+.+.|++++|..+++........+ ...+..+..+....|+++.|...|+.+.+.. +.+...+..+...+.
T Consensus        44 ~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~-~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~  121 (656)
T PRK15174         44 NIILFAIACLRKDETDVGLTLLSDRVLTAKNG-RDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLL  121 (656)
T ss_pred             CHHHHHHHHHhcCCcchhHHHhHHHHHhCCCc-hhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHH
Confidence            34456788899999999999999998765433 3344455566677999999999999999865 235678888899999


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHH
Q 013323          123 KCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTA  202 (445)
Q Consensus       123 ~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a  202 (445)
                      +.|++++|...|++..... +.+...+..+...+...|++++|...++.+......+ ...+..+ ..+...|+.  +.|
T Consensus       122 ~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~-~~a~~~~-~~l~~~g~~--~eA  196 (656)
T PRK15174        122 KSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPR-GDMIATC-LSFLNKSRL--PED  196 (656)
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCC-HHHHHHH-HHHHHcCCH--HHH
Confidence            9999999999999998752 2346788899999999999999999999887654322 2233333 335666765  888


Q ss_pred             HHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHH
Q 013323          203 TKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEM  282 (445)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  282 (445)
                      ...++.+.....                                       .++...+..+..++...|+.++|...++.
T Consensus       197 ~~~~~~~l~~~~---------------------------------------~~~~~~~~~l~~~l~~~g~~~eA~~~~~~  237 (656)
T PRK15174        197 HDLARALLPFFA---------------------------------------LERQESAGLAVDTLCAVGKYQEAIQTGES  237 (656)
T ss_pred             HHHHHHHHhcCC---------------------------------------CcchhHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            888887654321                                       12233445566788899999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCChhh----HHHHHHHHHhCCCCC-CHHHHHHHHHhHhhcCChhhH-HHHHHHHHHH
Q 013323          283 LKKDRKSPDVYIVMQNIRCYLHSGDIDN----GHKVFEDYICSEKFP-PAELYATLVEGAMFGYTPKGM-QLAQDTLVNM  356 (445)
Q Consensus       283 m~~~~~~p~~~~~~~li~~~~~~g~~~~----a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m  356 (445)
                      ..+.. +.+...+..+-..|...|++++    |...|+...+.  .| +...+..+-.    .+...|. ++|...+++.
T Consensus       238 al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~----~l~~~g~~~eA~~~l~~a  310 (656)
T PRK15174        238 ALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYAD----ALIRTGQNEKAIPLLQQS  310 (656)
T ss_pred             HHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHH----HHHHCCCHHHHHHHHHHH
Confidence            88753 2356678888999999999986    89999988875  34 4556666655    5677888 9999999999


Q ss_pred             HhCCCCCCc-chhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHH-HHHHHhhhhccCCCCCCCchhhh
Q 013323          357 NSRNIFLSP-RMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPA-VEAYYNGLKDREVPADDPRLVVV  427 (445)
Q Consensus       357 ~~~~~~p~~-~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~-~~~l~~~~~~~~~~~~a~~~l~~  427 (445)
                      .+..  |+. ..+..+..++.  +.|++++|...|+++...  .|+... +..+...+...|..++|...+..
T Consensus       311 l~l~--P~~~~a~~~La~~l~--~~G~~~eA~~~l~~al~~--~P~~~~~~~~~a~al~~~G~~deA~~~l~~  377 (656)
T PRK15174        311 LATH--PDLPYVRAMYARALR--QVGQYTAASDEFVQLARE--KGVTSKWNRYAAAALLQAGKTSEAESVFEH  377 (656)
T ss_pred             HHhC--CCCHHHHHHHHHHHH--HCCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            8764  443 34445555555  999999999999999864  355433 33345668889999998876554

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

Probab=99.56  E-value=1.7e-13  Score=130.09  Aligned_cols=90  Identities=19%  Similarity=0.262  Sum_probs=62.0

Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC
Q 013323           63 VYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEV  142 (445)
Q Consensus        63 ~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~  142 (445)
                      ++-.|...|+.||..||..+|.-||..|+.+.|- +|..|.-..++.+...|+.++.+..+.++.+.+.           
T Consensus        12 fla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------   79 (1088)
T KOG4318|consen   12 FLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------   79 (1088)
T ss_pred             HHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------
Confidence            4555666677777777777777777777777776 7777766666666677777777777777766665           


Q ss_pred             CccHHHHHHHHHHHHHcCChhh
Q 013323          143 KPNGQTYVCLLNACAAAGQLDP  164 (445)
Q Consensus       143 ~p~~~~y~~li~~~~~~g~~~~  164 (445)
                      .|.+.||+.++.+|.+.||+.-
T Consensus        80 ep~aDtyt~Ll~ayr~hGDli~  101 (1088)
T KOG4318|consen   80 EPLADTYTNLLKAYRIHGDLIL  101 (1088)
T ss_pred             CCchhHHHHHHHHHHhccchHH
Confidence            4666777777777777776644

>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=99.53  E-value=1.1e-10  Score=115.99  Aligned_cols=359  Identities=9%  Similarity=-0.055  Sum_probs=202.5

Q ss_pred             HHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 013323           46 TVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCK  125 (445)
Q Consensus        46 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g  125 (445)
                      ..-..+.+.|+++.|+..|++..+  +.|+...|..+-.++.+.|++++|...++...+.. +.+...|..+-.+|...|
T Consensus       132 ~~G~~~~~~~~~~~Ai~~y~~al~--~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~lg  208 (615)
T TIGR00990       132 EKGNKAYRNKDFNKAIKLYSKAIE--CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGLG  208 (615)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcC
Confidence            344555666777777777766554  34566666666666666677777777776666643 123456666666666677


Q ss_pred             CHHHHHHHHHHHHhCC-C---------------------------Cc----cHHHHHHH---------------------
Q 013323          126 NSDQAIRIFEEMKKYE-V---------------------------KP----NGQTYVCL---------------------  152 (445)
Q Consensus       126 ~~~~a~~~~~~m~~~g-~---------------------------~p----~~~~y~~l---------------------  152 (445)
                      ++++|+.-|......+ .                           .|    ........                     
T Consensus       209 ~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  288 (615)
T TIGR00990       209 KYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDE  288 (615)
T ss_pred             CHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccccc
Confidence            7666655443322110 0                           00    00000000                     


Q ss_pred             ------HHHH------HHcCChhhHHHHHHHHHHcC-CCCC-HHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccc
Q 013323          153 ------LNAC------AAAGQLDPVYAIVRDMTAAG-AGLD-KFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSV  218 (445)
Q Consensus       153 ------i~~~------~~~g~~~~a~~~~~~m~~~g-~~p~-~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  218 (445)
                            +...      ...+++++|.+.|+...+.+ ..|+ ...+..+-..+...|+.  +.|...++.......-...
T Consensus       289 ~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~--~eA~~~~~kal~l~P~~~~  366 (615)
T TIGR00990       289 ETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKH--LEALADLSKSIELDPRVTQ  366 (615)
T ss_pred             ccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHcCCCcHH
Confidence                  0000      01235666666666666543 2232 33344444444555544  5666666554432210000


Q ss_pred             cccccccch-hhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCC-CHHHHH
Q 013323          219 ETSGNNAEN-EMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSP-DVYIVM  296 (445)
Q Consensus       219 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~  296 (445)
                       ........ ...+...+....+ ...  .   ...+.+..+|..+...+...|++++|...|+...+.  .| +...+.
T Consensus       367 -~~~~la~~~~~~g~~~eA~~~~-~~a--l---~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~~~~~~  437 (615)
T TIGR00990       367 -SYIKRASMNLELGDPDKAEEDF-DKA--L---KLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDFIFSHI  437 (615)
T ss_pred             -HHHHHHHHHHHCCCHHHHHHHH-HHH--H---HhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccCHHHHH
Confidence             00000000 0000001111000 000  0   001445678888888899999999999999988764  34 566777


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhh------
Q 013323          297 QNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGS------  369 (445)
Q Consensus       297 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~------  369 (445)
                      .+...+.+.|++++|+..|+...... +-+...|+.+-.    .+...|+ ++|.+.|++..+..-..+....+      
T Consensus       438 ~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~----~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~  512 (615)
T TIGR00990       438 QLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGE----LLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLIN  512 (615)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHH----HHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHH
Confidence            78888999999999999999887652 224556666655    4677787 99999999987654221111111      


Q ss_pred             HHHHHhhcccCCChhhHHHHHHHHHHCCCCCC-HHHHHHHHhhhhccCCCCCCCchhhh
Q 013323          370 DLLLVAAGEKSGGYTTANYIWDLMQARKITPS-LPAVEAYYNGLKDREVPADDPRLVVV  427 (445)
Q Consensus       370 ~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~l~~  427 (445)
                      .....+.  ..|++++|..++++....+  |+ ...+..+...+.+.|..++|..++..
T Consensus       513 ~a~~~~~--~~~~~~eA~~~~~kAl~l~--p~~~~a~~~la~~~~~~g~~~eAi~~~e~  567 (615)
T TIGR00990       513 KALALFQ--WKQDFIEAENLCEKALIID--PECDIAVATMAQLLLQQGDVDEALKLFER  567 (615)
T ss_pred             HHHHHHH--HhhhHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            1111222  4699999999999887654  43 34577788889999999999875544

>PF13041 PPR_2: PPR repeat family

Probab=99.51  E-value=3.8e-14  Score=89.57  Aligned_cols=49  Identities=43%  Similarity=0.663  Sum_probs=24.5

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHH
Q 013323          109 PDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACA  157 (445)
Q Consensus       109 p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~  157 (445)
                      ||+.+||++|++|++.|++++|.++|++|.+.|++||..||+++|++|+
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            4444555555555555555555555555555555555555555554443

>PF13041 PPR_2: PPR repeat family

Probab=99.51  E-value=4.8e-14  Score=89.13  Aligned_cols=50  Identities=22%  Similarity=0.419  Sum_probs=35.6

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMK   88 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~   88 (445)
                      ||+++||++|++|++.|++++|+++|++|.+.|++||..||+.+|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            66777777777777777777777777777777777777777777777654

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

Probab=99.46  E-value=8.8e-12  Score=118.68  Aligned_cols=252  Identities=10%  Similarity=0.076  Sum_probs=175.4

Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC
Q 013323           28 GAEEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGF  107 (445)
Q Consensus        28 ~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~  107 (445)
                      ....+...|+.|+.++|.++|.-||..|+.+.|- +|..|+-.....+...|+.++.+..+.++.+.+.           
T Consensus        12 fla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------   79 (1088)
T KOG4318|consen   12 FLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------   79 (1088)
T ss_pred             HHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------
Confidence            3456778999999999999999999999999999 9999998888889999999999999999998887           


Q ss_pred             CCCHHHHHHHHHHHHccCCHHH---HHHHHHHHH----hCCCCccHHHHHH---------------HHHHHHHcCChhhH
Q 013323          108 LPDVAVYNYLISVCGKCKNSDQ---AIRIFEEMK----KYEVKPNGQTYVC---------------LLNACAAAGQLDPV  165 (445)
Q Consensus       108 ~p~~~~~~~ll~~~~~~g~~~~---a~~~~~~m~----~~g~~p~~~~y~~---------------li~~~~~~g~~~~a  165 (445)
                      .|...||+.|+.+|.+.||+..   +.+.+....    ..|+. ...-|-.               ++.-.+-.|-++.+
T Consensus        80 ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvg-s~e~~fl~k~~c~p~~lpda~n~illlv~eglwaql  158 (1088)
T KOG4318|consen   80 EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVG-SPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQL  158 (1088)
T ss_pred             CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccC-cHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHH
Confidence            5999999999999999999755   333222221    12221 1111111               11111222222222


Q ss_pred             HHHHHHHHHcC-CCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhh
Q 013323          166 YAIVRDMTAAG-AGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAE  244 (445)
Q Consensus       166 ~~~~~~m~~~g-~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (445)
                      ++++..+.... .-|...    ++.-+...    ..-.+++........                               
T Consensus       159 lkll~~~Pvsa~~~p~~v----fLrqnv~~----ntpvekLl~~cksl~-------------------------------  199 (1088)
T KOG4318|consen  159 LKLLAKVPVSAWNAPFQV----FLRQNVVD----NTPVEKLLNMCKSLV-------------------------------  199 (1088)
T ss_pred             HHHHhhCCcccccchHHH----HHHHhccC----CchHHHHHHHHHHhh-------------------------------
Confidence            22222221100 001111    12222221    122444444433321                               


Q ss_pred             HHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCC
Q 013323          245 YVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKF  324 (445)
Q Consensus       245 ~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  324 (445)
                              -.+++.+|.+++++-.-.|+++.|..++.+|++.|++.+.+-|..|+-+   .++...+..+..-|.+.|+.
T Consensus       200 --------e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~  268 (1088)
T KOG4318|consen  200 --------EAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQ  268 (1088)
T ss_pred             --------cCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCC
Confidence                    1588899999999999999999999999999999999999888888865   88889999999999999999


Q ss_pred             CCHHHHHHHHHhHhhcCChhhH
Q 013323          325 PPAELYATLVEGAMFGYTPKGM  346 (445)
Q Consensus       325 p~~~~~~~li~~~~~~~~~~g~  346 (445)
                      |+..|+...+.    .+..+|.
T Consensus       269 p~seT~adyvi----p~l~N~~  286 (1088)
T KOG4318|consen  269 PGSETQADYVI----PQLSNGQ  286 (1088)
T ss_pred             CCcchhHHHHH----hhhcchh
Confidence            99999998887    4455443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.46  E-value=5.9e-10  Score=118.43  Aligned_cols=363  Identities=13%  Similarity=0.073  Sum_probs=232.4

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCC-CHHHHHHH------------HHHHhcCCChhHHHHHHHHHHHCC
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQP-TRDLFHSL------------IVGTMKGSRLQDTFFFRDQMKANG  106 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~l------------l~~~~~~~~~~~a~~~~~~m~~~g  106 (445)
                      +...+..+-..+.+.|++++|.+.|++..+..-.. +...|..+            -..+.+.|++++|...|++..+..
T Consensus       302 ~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~  381 (1157)
T PRK11447        302 DSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVD  381 (1157)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            67788888899999999999999999887653211 21222211            235668899999999999998864


Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcc-HHHHHH----------------------------------
Q 013323          107 FLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPN-GQTYVC----------------------------------  151 (445)
Q Consensus       107 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~y~~----------------------------------  151 (445)
                       +.+...+..+-..+...|++++|++.|++..+..  |+ ...+..                                  
T Consensus       382 -P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~--p~~~~a~~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~  458 (1157)
T PRK11447        382 -NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD--PGNTNAVRGLANLYRQQSPEKALAFIASLSASQRRSIDDIERS  458 (1157)
T ss_pred             -CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence             2456677788899999999999999999987642  22 222222                                  


Q ss_pred             --------HHHHHHHcCChhhHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccc
Q 013323          152 --------LLNACAAAGQLDPVYAIVRDMTAAGAGL-DKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSG  222 (445)
Q Consensus       152 --------li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  222 (445)
                              +...+...|++++|.+.|++..+..  | +...+..+...+.+.|+.  +.|...++.+.....-.+.. ..
T Consensus       459 l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~--P~~~~~~~~LA~~~~~~G~~--~~A~~~l~~al~~~P~~~~~-~~  533 (1157)
T PRK11447        459 LQNDRLAQQAEALENQGKWAQAAELQRQRLALD--PGSVWLTYRLAQDLRQAGQR--SQADALMRRLAQQKPNDPEQ-VY  533 (1157)
T ss_pred             hhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHcCCCCHHH-HH
Confidence                    2233456788889999998888753  4 455666777788888866  88988888876533211100 00


Q ss_pred             cccchhh-cccchhhh---cchhhhhH--HhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHH
Q 013323          223 NNAENEM-MGVSKEEL---YNLPTAEY--VHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVM  296 (445)
Q Consensus       223 ~~~~~~~-~~~~~~~~---~~~~~~~~--~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~  296 (445)
                      ....... .+...+.+   ..++....  .+..-.. ......+......+...|+.++|..+++.     .+++...+.
T Consensus       534 a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~-~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~  607 (1157)
T PRK11447        534 AYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQ-RLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDL  607 (1157)
T ss_pred             HHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHH-HHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHH
Confidence            0000000 00001111   00000000  0000000 00011223456678888999999998872     234556677


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCc-chhhHHHHH
Q 013323          297 QNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSP-RMGSDLLLV  374 (445)
Q Consensus       297 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~-~~~~~ll~~  374 (445)
                      .+-..+.+.|++++|.+.|+...+.. +.+...+..+..    .|...|+ ++|.+.++...+.  .|+. .....+-.+
T Consensus       608 ~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~----~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~~~la~~  680 (1157)
T PRK11447        608 TLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIE----VDIAQGDLAAARAQLAKLPAT--ANDSLNTQRRVALA  680 (1157)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH----HHHHCCCHHHHHHHHHHHhcc--CCCChHHHHHHHHH
Confidence            78889999999999999999998863 225666666666    5677888 9999999987764  3433 344444555


Q ss_pred             hhcccCCChhhHHHHHHHHHHCCC--CC---CHHHHHHHHhhhhccCCCCCCCchh
Q 013323          375 AAGEKSGGYTTANYIWDLMQARKI--TP---SLPAVEAYYNGLKDREVPADDPRLV  425 (445)
Q Consensus       375 ~~~~~~g~~~~A~~~~~~m~~~~~--~p---~~~~~~~l~~~~~~~~~~~~a~~~l  425 (445)
                      +.  ..|++++|..++++.....-  .|   +...+..+...+.+.|.+++|...+
T Consensus       681 ~~--~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y  734 (1157)
T PRK11447        681 WA--ALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETY  734 (1157)
T ss_pred             HH--hCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            55  89999999999999986432  22   2234544556677778877777643

>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=99.43  E-value=1.4e-09  Score=108.28  Aligned_cols=297  Identities=11%  Similarity=0.015  Sum_probs=192.3

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHH
Q 013323           79 FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA  158 (445)
Q Consensus        79 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~  158 (445)
                      +...-..+.+.|+++.|...|++..+.  .|+...|..+-.+|.+.|++++|++.++...+.. +.+...|..+-.+|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            445556788899999999999998874  5888899999999999999999999999988753 2246688889999999


Q ss_pred             cCChhhHHHHHHHHHHcC-C---------------------------C----CCHHHHHHHHHH----------------
Q 013323          159 AGQLDPVYAIVRDMTAAG-A---------------------------G----LDKFCYAGLITA----------------  190 (445)
Q Consensus       159 ~g~~~~a~~~~~~m~~~g-~---------------------------~----p~~~~~~~li~~----------------  190 (445)
                      .|++++|..-|......+ .                           .    |...........                
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  286 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNEL  286 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhccccc
Confidence            999999987664432211 0                           0    111111111100                


Q ss_pred             -------HH----------ccCCCchHHHHHHHHHHHHhcCCcccccccccc---chhhcccchhhhcchhhhhHHhhhc
Q 013323          191 -------HT----------NKIPRADDTATKIIELVEQSKGWSSVETSGNNA---ENEMMGVSKEELYNLPTAEYVHRRG  250 (445)
Q Consensus       191 -------~~----------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~  250 (445)
                             +.          ..+  ..+.+...++.........+........   .....+...+++..+....      
T Consensus       287 ~~~~~~~~~~l~~~~~e~~~~~--~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal------  358 (615)
T TIGR00990       287 DEETGNGQLQLGLKSPESKADE--SYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSI------  358 (615)
T ss_pred             ccccccchHHHHHHHHHhhhhh--hHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH------
Confidence                   00          011  2477888888776543211100000000   0001111111111111000      


Q ss_pred             CcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCC-HHH
Q 013323          251 GFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPP-AEL  329 (445)
Q Consensus       251 g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~  329 (445)
                      ...+.+...|..+...+...|++++|...++...+.. +.+..+|..+...+...|++++|...|+...+.  .|+ ...
T Consensus       359 ~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~~~~  435 (615)
T TIGR00990       359 ELDPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDFIFS  435 (615)
T ss_pred             HcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccCHHH
Confidence            0113335577778888888999999999999887642 225677888888899999999999999988775  343 334


Q ss_pred             HHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHC
Q 013323          330 YATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQAR  396 (445)
Q Consensus       330 ~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~  396 (445)
                      +..+-.    .+.+.|. +.|...|++..+.. +-++..+..+-..+.  ..|++++|...|++....
T Consensus       436 ~~~la~----~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~--~~g~~~~A~~~~~~Al~l  496 (615)
T TIGR00990       436 HIQLGV----TQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLL--DQNKFDEAIEKFDTAIEL  496 (615)
T ss_pred             HHHHHH----HHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHH--HccCHHHHHHHHHHHHhc
Confidence            433333    4667777 99999999887653 224566666666666  899999999999987753

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.39  E-value=5.2e-09  Score=106.39  Aligned_cols=155  Identities=10%  Similarity=-0.000  Sum_probs=83.8

Q ss_pred             HHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 013323           46 TVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCK  125 (445)
Q Consensus        46 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g  125 (445)
                      -.+......|+.++|++++....... +.+...+..+-.++.+.|++++|..+|++..+.. +.+...+..+...+...|
T Consensus        20 d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g   97 (765)
T PRK10049         20 DWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAG   97 (765)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCC
Confidence            34455556666666666666665411 2334446666666666666666666666665542 223445556666666666


Q ss_pred             CHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHH
Q 013323          126 NSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKI  205 (445)
Q Consensus       126 ~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~  205 (445)
                      ++++|...+++..... +.+.. +..+...+...|+.++|+..+++..+..- -+...+..+..++...+..  +.|...
T Consensus        98 ~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P-~~~~~~~~la~~l~~~~~~--e~Al~~  172 (765)
T PRK10049         98 QYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAP-QTQQYPTEYVQALRNNRLS--APALGA  172 (765)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCh--HHHHHH
Confidence            6666666666665541 12333 55566666666666666666666666421 1233333344444444433  444444


Q ss_pred             HH
Q 013323          206 IE  207 (445)
Q Consensus       206 ~~  207 (445)
                      ++
T Consensus       173 l~  174 (765)
T PRK10049        173 ID  174 (765)
T ss_pred             HH
Confidence            43

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.39  E-value=1.2e-09  Score=102.33  Aligned_cols=280  Identities=9%  Similarity=-0.011  Sum_probs=176.0

Q ss_pred             cCcHhHHHHHHHHHHHCCCCCCHHH-HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHH--HHHHHHHccCCHHHH
Q 013323           54 QRRFFLLRDVYDDMMLDGVQPTRDL-FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYN--YLISVCGKCKNSDQA  130 (445)
Q Consensus        54 ~~~~~~a~~~~~~m~~~g~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~--~ll~~~~~~g~~~~a  130 (445)
                      .|+++.|.+.+..-.+..  ++... |.....+..+.|+.+.|.+.+.++.+.  .|+....-  .....+...|+++.|
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHH
Confidence            488998887777654432  22222 333344457889999999999998874  35544333  335677888999999


Q ss_pred             HHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHH-------HHHHHHHHHHccCCCchHHHH
Q 013323          131 IRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKF-------CYAGLITAHTNKIPRADDTAT  203 (445)
Q Consensus       131 ~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-------~~~~li~~~~~~~~~~~~~a~  203 (445)
                      ...+++..+.. +-+...+..+...|.+.|++++|.+++..+.+.+..++..       +|..++.......  +.+...
T Consensus       173 l~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~--~~~~l~  249 (398)
T PRK10747        173 RHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQ--GSEGLK  249 (398)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhc--CHHHHH
Confidence            99999988765 2357788888999999999999999999998876543221       1222222211111  113333


Q ss_pred             HHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHH
Q 013323          204 KIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEML  283 (445)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  283 (445)
                      ++++.+.+.                                        .+.+......+..++...|+.++|.++++..
T Consensus       250 ~~w~~lp~~----------------------------------------~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~  289 (398)
T PRK10747        250 RWWKNQSRK----------------------------------------TRHQVALQVAMAEHLIECDDHDTAQQIILDG  289 (398)
T ss_pred             HHHHhCCHH----------------------------------------HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            333332221                                        1345556677777778888888888887776


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHH-HHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCC
Q 013323          284 KKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAE-LYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNI  361 (445)
Q Consensus       284 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~  361 (445)
                      .+.  .||....  ++.+.+..++.+++.+..+...+.  .|+.. .+..+=.    .+.+.+. ++|.+.|+...+.  
T Consensus       290 l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~--~P~~~~l~l~lgr----l~~~~~~~~~A~~~le~al~~--  357 (398)
T PRK10747        290 LKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQ--HGDTPLLWSTLGQ----LLMKHGEWQEASLAFRAALKQ--  357 (398)
T ss_pred             Hhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHhh--CCCCHHHHHHHHH----HHHHCCCHHHHHHHHHHHHhc--
Confidence            653  3444211  233444557777777777777665  33333 3333333    3455665 7788888777764  


Q ss_pred             CCCcchhhHHHHHhhcccCCChhhHHHHHHHHH
Q 013323          362 FLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQ  394 (445)
Q Consensus       362 ~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~  394 (445)
                      .|+..++..+-..+.  +.|+.++|..++++-.
T Consensus       358 ~P~~~~~~~La~~~~--~~g~~~~A~~~~~~~l  388 (398)
T PRK10747        358 RPDAYDYAWLADALD--RLHKPEEAAAMRRDGL  388 (398)
T ss_pred             CCCHHHHHHHHHHHH--HcCCHHHHHHHHHHHH
Confidence            367777666666666  7788888877777654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.38  E-value=5.9e-09  Score=105.98  Aligned_cols=369  Identities=11%  Similarity=-0.014  Sum_probs=217.7

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLI  118 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  118 (445)
                      .+...+..+...+.+.|++++|.++|++..+.. +.+...+..+...+...|+.++|...+++..+.. +.+.. +..+-
T Consensus        47 ~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la  123 (765)
T PRK10049         47 LPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALA  123 (765)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHH
Confidence            445568889999999999999999999987652 2346667778888899999999999999998863 33455 88888


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCH------HHHHHHHHHHH
Q 013323          119 SVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDK------FCYAGLITAHT  192 (445)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~------~~~~~li~~~~  192 (445)
                      .++...|+.++|+..+++..+... -+...+..+...+...+..++|+..++....   .|+.      ......+....
T Consensus       124 ~~l~~~g~~~~Al~~l~~al~~~P-~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~  199 (765)
T PRK10049        124 YVYKRAGRHWDELRAMTQALPRAP-QTQQYPTEYVQALRNNRLSAPALGAIDDANL---TPAEKRDLEADAAAELVRLSF  199 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCChHHHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhc
Confidence            899999999999999999988532 2455566677788888888888888775543   2221      01111122111


Q ss_pred             ccCCC------chHHHHHHHHHHHHhcCCcccc-cccccc-----chhhcccchhhhcchhhhhHHhhhcCcccCchhHH
Q 013323          193 NKIPR------ADDTATKIIELVEQSKGWSSVE-TSGNNA-----ENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVY  260 (445)
Q Consensus       193 ~~~~~------~~~~a~~~~~~~~~~~~~~~~~-~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~  260 (445)
                      ..+..      ..+.|...++.+.....-.+.. ......     ..+......+.....   .......+...|+. .-
T Consensus       200 ~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~---~~~ll~~~~~~P~~-a~  275 (765)
T PRK10049        200 MPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISE---YQRLKAEGQIIPPW-AQ  275 (765)
T ss_pred             ccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHH---HHHhhccCCCCCHH-HH
Confidence            11110      0134555555555431111100 000000     000000000111100   01111111101221 11


Q ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCC-----------CCCC
Q 013323          261 HVAFHACAELKDVQAMETLLEMLKKDRKSP---DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSE-----------KFPP  326 (445)
Q Consensus       261 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----------~~p~  326 (445)
                      ..+..++...|++++|...++.+.+..-..   .......+..++...|++++|.++++.+....           -.|+
T Consensus       276 ~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~  355 (765)
T PRK10049        276 RWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPN  355 (765)
T ss_pred             HHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCC
Confidence            124557888888888888888876532111   13445666677888888888888888887652           1123


Q ss_pred             HH---HHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCC-
Q 013323          327 AE---LYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPS-  401 (445)
Q Consensus       327 ~~---~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~-  401 (445)
                      ..   .+..+..    .+...|+ ++|+++++++.... +-+...+..+...+.  +.|++++|+..+++.....  |+ 
T Consensus       356 ~~~~~a~~~~a~----~l~~~g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~--~~g~~~~A~~~l~~al~l~--Pd~  426 (765)
T PRK10049        356 DDWLQGQSLLSQ----VAKYSNDLPQAEMRARELAYNA-PGNQGLRIDYASVLQ--ARGWPRAAENELKKAEVLE--PRN  426 (765)
T ss_pred             chHHHHHHHHHH----HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH--hcCCHHHHHHHHHHHHhhC--CCC
Confidence            21   2222222    3556677 88888888887654 234445555555555  8888888888888777533  55 


Q ss_pred             HHHHHHHHhhhhccCCCCCCCchhhh
Q 013323          402 LPAVEAYYNGLKDREVPADDPRLVVV  427 (445)
Q Consensus       402 ~~~~~~l~~~~~~~~~~~~a~~~l~~  427 (445)
                      ...+......+.+.|..++|..++..
T Consensus       427 ~~l~~~~a~~al~~~~~~~A~~~~~~  452 (765)
T PRK10049        427 INLEVEQAWTALDLQEWRQMDVLTDD  452 (765)
T ss_pred             hHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            33334444455666666666655433

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.37  E-value=4.2e-09  Score=105.53  Aligned_cols=366  Identities=11%  Similarity=0.029  Sum_probs=219.5

Q ss_pred             HHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 013323           46 TVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCK  125 (445)
Q Consensus        46 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g  125 (445)
                      .++..+...|+.++|+..+++.... -..+......+...+...|++++|.++|+++.+.. +-+...+..+...+...+
T Consensus        73 dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~  150 (822)
T PRK14574         73 DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAG  150 (822)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcC
Confidence            6777777778888888888777511 11122222333446677788888888888887764 223566667777788888


Q ss_pred             CHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHH
Q 013323          126 NSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKI  205 (445)
Q Consensus       126 ~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~  205 (445)
                      +.++|++.+++....  .|+...+-.++..+...++..+|++.++++.+.. +-+...+..+..++.+.|-.  ..|.++
T Consensus       151 q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~--~~a~~l  225 (822)
T PRK14574        151 RGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIV--EPALRL  225 (822)
T ss_pred             CHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCc--HHHHHH
Confidence            888888888887764  4555555334333333455555888888887763 22456666677777776643  334433


Q ss_pred             HHHHHHhcCCccccccc-----cccchhhcc----cchhhhcchh-----hhhHHhhhcCcccCchhHH----HHHHHHH
Q 013323          206 IELVEQSKGWSSVETSG-----NNAENEMMG----VSKEELYNLP-----TAEYVHRRGGFLSRLLTVY----HVAFHAC  267 (445)
Q Consensus       206 ~~~~~~~~~~~~~~~~~-----~~~~~~~~~----~~~~~~~~~~-----~~~~~~~~~g~~~~~~~~~----~~li~~~  267 (445)
                      ..   +...|-......     ..+..+..+    ....+-+...     .........+..++....|    -=.+-++
T Consensus       226 ~~---~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL  302 (822)
T PRK14574        226 AK---ENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGAL  302 (822)
T ss_pred             HH---hCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHH
Confidence            32   222111100000     000000000    0000000000     0011111111112221222    2356667


Q ss_pred             HhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCC-----CCCCHHHHHHHHHhHhhcCC
Q 013323          268 AELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSE-----KFPPAELYATLVEGAMFGYT  342 (445)
Q Consensus       268 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----~~p~~~~~~~li~~~~~~~~  342 (445)
                      ...++..++.+.++.|...+.+...++-..+.++|...+++++|..+|..+....     ..++......|.-    +|.
T Consensus       303 ~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~y----A~l  378 (822)
T PRK14574        303 LVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYY----SLN  378 (822)
T ss_pred             HHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHH----HHH
Confidence            8888999999999999988876667788889999999999999999999987652     1223333456666    678


Q ss_pred             hhhH-HHHHHHHHHHHhCCC-----------CCCc--chhhH-HHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHH
Q 013323          343 PKGM-QLAQDTLVNMNSRNI-----------FLSP--RMGSD-LLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEA  407 (445)
Q Consensus       343 ~~g~-~~a~~~~~~m~~~~~-----------~p~~--~~~~~-ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~  407 (445)
                      ..+. ++|..+++++.+.-.           .||+  ..+.. ++..+.  ..|+..+|++.++++... -+-|......
T Consensus       379 d~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~--~~gdl~~Ae~~le~l~~~-aP~n~~l~~~  455 (822)
T PRK14574        379 ESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLV--ALNDLPTAQKKLEDLSST-APANQNLRIA  455 (822)
T ss_pred             hcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHH--HcCCHHHHHHHHHHHHHh-CCCCHHHHHH
Confidence            8888 999999999987321           1222  12222 233334  899999999999999643 2446666777


Q ss_pred             HHhhhhccCCCCCCCchhhhh
Q 013323          408 YYNGLKDREVPADDPRLVVVS  428 (445)
Q Consensus       408 l~~~~~~~~~~~~a~~~l~~~  428 (445)
                      +-+.+...|.+.+|...++..
T Consensus       456 ~A~v~~~Rg~p~~A~~~~k~a  476 (822)
T PRK14574        456 LASIYLARDLPRKAEQELKAV  476 (822)
T ss_pred             HHHHHHhcCCHHHHHHHHHHH
Confidence            777788888888888766553

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

Probab=99.37  E-value=4.4e-12  Score=113.33  Aligned_cols=259  Identities=11%  Similarity=0.041  Sum_probs=92.5

Q ss_pred             HHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHH-HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 013323           46 TVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDL-FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKC  124 (445)
Q Consensus        46 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  124 (445)
                      .+-..+.+.|++++|+++++.-....-+|+... |..+-..+...++.+.|.+.++.+...+- -+...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~-~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDK-ANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccc-ccc
Confidence            446677788999999998865444432344443 44455566678889999999998887653 256667777777 688


Q ss_pred             CCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcC-CCCCHHHHHHHHHHHHccCCCchHHHH
Q 013323          125 KNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAG-AGLDKFCYAGLITAHTNKIPRADDTAT  203 (445)
Q Consensus       125 g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~li~~~~~~~~~~~~~a~  203 (445)
                      +++++|.++++..-+.  .++...+...+..+.+.++++++..+++.+.... .+++...|...-..+.+.|+.  +.|.
T Consensus        91 ~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~--~~A~  166 (280)
T PF13429_consen   91 GDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDP--DKAL  166 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHH--HHHH
T ss_pred             cccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCH--HHHH
Confidence            8889998888776554  2566777888888888999999999988877532 345666677777777777754  7777


Q ss_pred             HHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHH
Q 013323          204 KIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEML  283 (445)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  283 (445)
                      ..++...+..                                        |.|....+.++..+...|+.+++..++...
T Consensus       167 ~~~~~al~~~----------------------------------------P~~~~~~~~l~~~li~~~~~~~~~~~l~~~  206 (280)
T PF13429_consen  167 RDYRKALELD----------------------------------------PDDPDARNALAWLLIDMGDYDEAREALKRL  206 (280)
T ss_dssp             HHHHHHHHH-----------------------------------------TT-HHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHcC----------------------------------------CCCHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence            7777766542                                        445667777788888888888877777776


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHH
Q 013323          284 KKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNM  356 (445)
Q Consensus       284 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m  356 (445)
                      .+.. +.|...+..+..+|...|+.++|..+|+...... +.|+.....+-.    .+...|. ++|.++..+.
T Consensus       207 ~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~----~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  207 LKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYAD----ALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHH----HHT---------------
T ss_pred             HHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-cccccccccccc----cccccccccccccccccc
Confidence            6543 3455566777778888888888888888876642 225555555555    4677777 7777776654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.35  E-value=4.6e-09  Score=111.75  Aligned_cols=351  Identities=11%  Similarity=0.016  Sum_probs=218.9

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC--------CCC
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGF--------LPD  110 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~--------~p~  110 (445)
                      .+...+..+-..+...|++++|.+.|++..+.. +.+...+..+...+. .++.++|..+++.+....-        ...
T Consensus       383 ~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~  460 (1157)
T PRK11447        383 TDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQ  460 (1157)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhh
Confidence            345666677788888888888888888887643 223445555555553 4567888877766543210        011


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHH
Q 013323          111 VAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLIT  189 (445)
Q Consensus       111 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  189 (445)
                      ...+..+...+...|++++|.+.|++..+..  | +...+..+...|.+.|++++|...|++..+..- .+...+..+..
T Consensus       461 ~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~--P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P-~~~~~~~a~al  537 (1157)
T PRK11447        461 NDRLAQQAEALENQGKWAQAAELQRQRLALD--PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKP-NDPEQVYAYGL  537 (1157)
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHH
Confidence            2346677888889999999999999988753  4 456777888899999999999999999887431 13333333333


Q ss_pred             HHHccCCCchHHHHHHHHHHHHhcCCccccccc----cccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHH
Q 013323          190 AHTNKIPRADDTATKIIELVEQSKGWSSVETSG----NNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFH  265 (445)
Q Consensus       190 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~  265 (445)
                      .+...++.  +.+...++.+.... ++......    .........................+.   .+.+...+..+-.
T Consensus       538 ~l~~~~~~--~~Al~~l~~l~~~~-~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~---~p~~~~~~~~La~  611 (1157)
T PRK11447        538 YLSGSDRD--RAALAHLNTLPRAQ-WNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ---QPPSTRIDLTLAD  611 (1157)
T ss_pred             HHHhCCCH--HHHHHHHHhCCchh-cChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh---CCCCchHHHHHHH
Confidence            34445544  67777766654321 11100000    000000000000000000000011111   1455566777888


Q ss_pred             HHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCC-HHHHHHHHHhHhhcCChh
Q 013323          266 ACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPP-AELYATLVEGAMFGYTPK  344 (445)
Q Consensus       266 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~  344 (445)
                      .+.+.|+.++|...++...+.. +.+...+..+...|...|+.++|.+.++...+.  .|+ ...+..+-.    .+...
T Consensus       612 ~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~~~la~----~~~~~  684 (1157)
T PRK11447        612 WAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDSLNTQRRVAL----AWAAL  684 (1157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCChHHHHHHHH----HHHhC
Confidence            8999999999999999988742 236778889999999999999999999987764  333 333333333    45677


Q ss_pred             hH-HHHHHHHHHHHhCCCCCCc-----chhhHHHHHhhcccCCChhhHHHHHHHHH-HCCCCCC----HHHHHHHH
Q 013323          345 GM-QLAQDTLVNMNSRNIFLSP-----RMGSDLLLVAAGEKSGGYTTANYIWDLMQ-ARKITPS----LPAVEAYY  409 (445)
Q Consensus       345 g~-~~a~~~~~~m~~~~~~p~~-----~~~~~ll~~~~~~~~g~~~~A~~~~~~m~-~~~~~p~----~~~~~~l~  409 (445)
                      |+ ++|.++++++....-...+     ..+..+...+.  ..|++++|...|++.. ..|+.|+    ..++..+.
T Consensus       685 g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~--~~G~~~~A~~~y~~Al~~~~~~~~~p~~~~~~~~l~  758 (1157)
T PRK11447        685 GDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEA--QTGQPQQALETYKDAMVASGITPTRPQDNDTFTRLT  758 (1157)
T ss_pred             CCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHH--HcCCHHHHHHHHHHHHhhcCCCCCCCCCchHHHHHh
Confidence            87 9999999998875422112     23333344444  8999999999999886 3455432    33455444

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

Probab=99.26  E-value=6.3e-11  Score=105.88  Aligned_cols=157  Identities=17%  Similarity=0.114  Sum_probs=75.2

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCC-CHHHHHHHHH
Q 013323          258 TVYHVAFHACAELKDVQAMETLLEMLKKD-RKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFP-PAELYATLVE  335 (445)
Q Consensus       258 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~  335 (445)
                      ..+..++..+.+.++++++..+++.+... ...++...|..+...+.+.|+.++|.+.|+...+.  .| |......++.
T Consensus       111 ~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~P~~~~~~~~l~~  188 (280)
T PF13429_consen  111 RYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL--DPDDPDARNALAW  188 (280)
T ss_dssp             -------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH---TT-HHHHHHHHH
T ss_pred             chhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHH
Confidence            34445555566666666666666665532 22345555666666666667777777666666654  23 3445555555


Q ss_pred             hHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhc
Q 013323          336 GAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKD  414 (445)
Q Consensus       336 ~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~  414 (445)
                          .+...|. +++.++++...+.. +.|+..+..+-.++.  ..|+.++|...|++..+.. +.|+.+...+.+.+..
T Consensus       189 ----~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~--~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~  260 (280)
T PF13429_consen  189 ----LLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYL--QLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQ  260 (280)
T ss_dssp             ----HHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHH--HHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT-
T ss_pred             ----HHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhc--ccccccccccccccccccc-cccccccccccccccc
Confidence                3455555 55666666655543 345555555555555  6667777777776655421 2355556666666666


Q ss_pred             cCCCCCCCch
Q 013323          415 REVPADDPRL  424 (445)
Q Consensus       415 ~~~~~~a~~~  424 (445)
                      .|..++|..+
T Consensus       261 ~g~~~~A~~~  270 (280)
T PF13429_consen  261 AGRKDEALRL  270 (280)
T ss_dssp             ----------
T ss_pred             cccccccccc
Confidence            7766666654

>TIGR00540 hemY_coli hemY protein

Probab=99.26  E-value=1.6e-08  Score=95.24  Aligned_cols=129  Identities=8%  Similarity=-0.026  Sum_probs=82.8

Q ss_pred             HHHHHHHH--hcCcHhHHHHHHHHHHHCCCCCCHHH-HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCH--HHHHHHHH
Q 013323           45 NTVVTSLT--SQRRFFLLRDVYDDMMLDGVQPTRDL-FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDV--AVYNYLIS  119 (445)
Q Consensus        45 ~~li~~~~--~~~~~~~a~~~~~~m~~~g~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~  119 (445)
                      ..+..+..  ..|+++.|.+.+....+.  .|+... +-..-.+..+.|+.+.|.+.+++..+..  |+.  .+--....
T Consensus        86 ~~~~~glla~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~  161 (409)
T TIGR00540        86 KQTEEALLKLAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTR  161 (409)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHH
Confidence            33444433  357788888777665554  344333 3333455666788888888887776543  333  23333466


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCC
Q 013323          120 VCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAG  178 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~  178 (445)
                      .+...|+++.|...++.+.+.. +-+...+..+...+...|++++|.+.+..+.+.++.
T Consensus       162 l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~  219 (409)
T TIGR00540       162 ILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF  219 (409)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC
Confidence            6677788888888888877754 224566777778888888888888888888777643

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.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.26  E-value=1.1e-08  Score=95.86  Aligned_cols=283  Identities=9%  Similarity=0.002  Sum_probs=204.2

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHH--HHHHHHHHcCChhhH
Q 013323           89 GSRLQDTFFFRDQMKANGFLPDVAV-YNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYV--CLLNACAAAGQLDPV  165 (445)
Q Consensus        89 ~~~~~~a~~~~~~m~~~g~~p~~~~-~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~--~li~~~~~~g~~~~a  165 (445)
                      .|+++.|.+.+....+..  +++.. |-....+..+.|+++.|...+.++.+.  .|+...+.  .....+...|++++|
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHH
Confidence            699999998888766642  22333 333344557899999999999999874  45654433  335688899999999


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhH
Q 013323          166 YAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEY  245 (445)
Q Consensus       166 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  245 (445)
                      ...++++.+.. +-+...+..+...|.+.|+.  +.+..++..+.+....++-.                 ..       
T Consensus       173 l~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw--~~a~~~l~~l~k~~~~~~~~-----------------~~-------  225 (398)
T PRK10747        173 RHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAW--SSLLDILPSMAKAHVGDEEH-----------------RA-------  225 (398)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhH--HHHHHHHHHHHHcCCCCHHH-----------------HH-------
Confidence            99999998875 33577888888999998866  99999999998765321100                 00       


Q ss_pred             HhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCC
Q 013323          246 VHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFP  325 (445)
Q Consensus       246 ~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  325 (445)
                              ......|..++.......+.+...++++.+-+. .+.+......+..++...|+.++|.+++++..+.  .|
T Consensus       226 --------~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~  294 (398)
T PRK10747        226 --------MLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QY  294 (398)
T ss_pred             --------HHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CC
Confidence                    000123444555555555667777777765432 3457778888999999999999999999988874  44


Q ss_pred             CHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCc-chhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHH
Q 013323          326 PAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSP-RMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLP  403 (445)
Q Consensus       326 ~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  403 (445)
                      +.......      +....+. +++.+..+...+..  |+. .....+-..|.  +.|++++|.+.|+...+  ..|+..
T Consensus       295 ~~~l~~l~------~~l~~~~~~~al~~~e~~lk~~--P~~~~l~l~lgrl~~--~~~~~~~A~~~le~al~--~~P~~~  362 (398)
T PRK10747        295 DERLVLLI------PRLKTNNPEQLEKVLRQQIKQH--GDTPLLWSTLGQLLM--KHGEWQEASLAFRAALK--QRPDAY  362 (398)
T ss_pred             CHHHHHHH------hhccCCChHHHHHHHHHHHhhC--CCCHHHHHHHHHHHH--HCCCHHHHHHHHHHHHh--cCCCHH
Confidence            55332222      3344566 88999999988765  444 44555666666  99999999999999986  469999


Q ss_pred             HHHHHHhhhhccCCCCCCCchh
Q 013323          404 AVEAYYNGLKDREVPADDPRLV  425 (445)
Q Consensus       404 ~~~~l~~~~~~~~~~~~a~~~l  425 (445)
                      ++..+...+.+.|..++|..+.
T Consensus       363 ~~~~La~~~~~~g~~~~A~~~~  384 (398)
T PRK10747        363 DYAWLADALDRLHKPEEAAAMR  384 (398)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999999998886543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.25  E-value=2.1e-08  Score=100.60  Aligned_cols=327  Identities=11%  Similarity=0.003  Sum_probs=190.0

Q ss_pred             HHHhcCcHhHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 013323           50 SLTSQRRFFLLRDVYDDMMLDGVQPTR--DLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNS  127 (445)
Q Consensus        50 ~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  127 (445)
                      ...+.|+++.|++.|++..+..  |+.  ..+ .++..+...|+.++|...++..... -.......-.+...+...|++
T Consensus        43 i~~r~Gd~~~Al~~L~qaL~~~--P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly~~~gdy  118 (822)
T PRK14574         43 IRARAGDTAPVLDYLQEESKAG--PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAYRNEKRW  118 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhhC--ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHHHHcCCH
Confidence            3468999999999999998753  664  244 7788888889999999999999831 112233333445678888999


Q ss_pred             HHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHH
Q 013323          128 DQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIE  207 (445)
Q Consensus       128 ~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~  207 (445)
                      ++|.++|+++.+... -|...+..++..+...++.++|++.++.+...  .|+...+..+  ++...+......+...++
T Consensus       119 d~Aiely~kaL~~dP-~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~l--ayL~~~~~~~~~AL~~~e  193 (822)
T PRK14574        119 DQALALWQSSLKKDP-TNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTL--SYLNRATDRNYDALQASS  193 (822)
T ss_pred             HHHHHHHHHHHhhCC-CCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHH--HHHHHhcchHHHHHHHHH
Confidence            999999999988642 24667778889999999999999999999886  4666666333  443322222245777777


Q ss_pred             HHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCC
Q 013323          208 LVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDR  287 (445)
Q Consensus       208 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  287 (445)
                      .+....                                        +.+...+..++.++.+.|-...|.++...-.+ -
T Consensus       194 kll~~~----------------------------------------P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~-~  232 (822)
T PRK14574        194 EAVRLA----------------------------------------PTSEEVLKNHLEILQRNRIVEPALRLAKENPN-L  232 (822)
T ss_pred             HHHHhC----------------------------------------CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCcc-c
Confidence            766543                                        33445555666666666666666555443111 0


Q ss_pred             CCCCHHHH--HHHHHHHHhc---------CC---hhhHHHHHHHHHhC-CCCCCH-HH-HHHHHHhHhhcCChhhH-HHH
Q 013323          288 KSPDVYIV--MQNIRCYLHS---------GD---IDNGHKVFEDYICS-EKFPPA-EL-YATLVEGAMFGYTPKGM-QLA  349 (445)
Q Consensus       288 ~~p~~~~~--~~li~~~~~~---------g~---~~~a~~~~~~m~~~-~~~p~~-~~-~~~li~~~~~~~~~~g~-~~a  349 (445)
                      +.+...-.  ...+.-.++.         .+   .+.|+.-++.+... +-.|.. .. -.+.++-+. ++...|+ .++
T Consensus       233 f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~-aL~~r~r~~~v  311 (822)
T PRK14574        233 VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLG-ALLVRHQTADL  311 (822)
T ss_pred             cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHH-HHHHhhhHHHH
Confidence            11111000  0001111111         11   23344444444432 222222 11 222333222 3444444 666


Q ss_pred             HHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCC-----CCCCHHHHHHHHhhhhccCCCCCCCch
Q 013323          350 QDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARK-----ITPSLPAVEAYYNGLKDREVPADDPRL  424 (445)
Q Consensus       350 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~-----~~p~~~~~~~l~~~~~~~~~~~~a~~~  424 (445)
                      .+.++.|...+.+....+-.++..+|.  ..+.+++|..+|++.....     ..++......|+-++.+.+..++|..+
T Consensus       312 i~~y~~l~~~~~~~P~y~~~a~adayl--~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~  389 (822)
T PRK14574        312 IKEYEAMEAEGYKMPDYARRWAASAYI--DRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQF  389 (822)
T ss_pred             HHHHHHhhhcCCCCCHHHHHHHHHHHH--hcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHH
Confidence            666666666654322334445555555  6666666666666665321     122333345566666666666666666


Q ss_pred             hhhhh
Q 013323          425 VVVSR  429 (445)
Q Consensus       425 l~~~~  429 (445)
                      +....
T Consensus       390 l~~~~  394 (822)
T PRK14574        390 AVNYS  394 (822)
T ss_pred             HHHHH
Confidence            55543

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

Probab=99.25  E-value=3.2e-09  Score=98.00  Aligned_cols=296  Identities=12%  Similarity=0.054  Sum_probs=167.8

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQP-TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYL  117 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  117 (445)
                      .-..+|..+-..+-..|++++|+.+++.+.+.  +| ....|.-+-.++...|+.+.|.+.|.+..+.+  |+.....+-
T Consensus       114 q~ae~ysn~aN~~kerg~~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~  189 (966)
T KOG4626|consen  114 QGAEAYSNLANILKERGQLQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSD  189 (966)
T ss_pred             hHHHHHHHHHHHHHHhchHHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcc
Confidence            34677888999999999999999999999885  35 46678889999999999999999999888754  665544332


Q ss_pred             HH-HHHccCCHHHHHHHHHHHHhCCCCcc-HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCC-HHHHHHHHHHHHcc
Q 013323          118 IS-VCGKCKNSDQAIRIFEEMKKYEVKPN-GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLD-KFCYAGLITAHTNK  194 (445)
Q Consensus       118 l~-~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~  194 (445)
                      +. ..-..|++++|..-|.+..+.  .|. .+.|+.+-..+-..|+...|..-|++..+-  .|+ ...|-.+=..|...
T Consensus       190 lgnLlka~Grl~ea~~cYlkAi~~--qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~  265 (966)
T KOG4626|consen  190 LGNLLKAEGRLEEAKACYLKAIET--QPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEA  265 (966)
T ss_pred             hhHHHHhhcccchhHHHHHHHHhh--CCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHH
Confidence            22 222356677776666665543  233 345666666666677777777777666653  333 23344444444444


Q ss_pred             CCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHH
Q 013323          195 IPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQ  274 (445)
Q Consensus       195 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~  274 (445)
                      +..  +.|...+........-.........+.+...|...-++..-..   ..   ...+.=...|+.|-.++-..|++.
T Consensus       266 ~~~--d~Avs~Y~rAl~lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykr---al---~~~P~F~~Ay~NlanALkd~G~V~  337 (966)
T KOG4626|consen  266 RIF--DRAVSCYLRALNLRPNHAVAHGNLACIYYEQGLLDLAIDTYKR---AL---ELQPNFPDAYNNLANALKDKGSVT  337 (966)
T ss_pred             hcc--hHHHHHHHHHHhcCCcchhhccceEEEEeccccHHHHHHHHHH---HH---hcCCCchHHHhHHHHHHHhccchH
Confidence            433  4455554443322111111111111111111111111000000   00   000222346777777777778888


Q ss_pred             HHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCC-HHHHHHHHHhHhhcCChhhH-HHHHH
Q 013323          275 AMETLLEMLKKDRKSPD-VYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPP-AELYATLVEGAMFGYTPKGM-QLAQD  351 (445)
Q Consensus       275 ~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~g~-~~a~~  351 (445)
                      +|...++.....  .|+ .-..+.|-..|...|.+++|..+|....+-  .|. ...++.|-.    -|.++|. ++|..
T Consensus       338 ea~~cYnkaL~l--~p~hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~----i~kqqgnl~~Ai~  409 (966)
T KOG4626|consen  338 EAVDCYNKALRL--CPNHADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLAS----IYKQQGNLDDAIM  409 (966)
T ss_pred             HHHHHHHHHHHh--CCccHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHH----HHHhcccHHHHHH
Confidence            887777766552  343 335666777777777777777777665543  222 122333322    3455555 66666


Q ss_pred             HHHHHHh
Q 013323          352 TLVNMNS  358 (445)
Q Consensus       352 ~~~~m~~  358 (445)
                      .+++..+
T Consensus       410 ~Ykealr  416 (966)
T KOG4626|consen  410 CYKEALR  416 (966)
T ss_pred             HHHHHHh
Confidence            6665553

>TIGR00540 hemY_coli hemY protein

Probab=99.21  E-value=2.6e-08  Score=93.90  Aligned_cols=292  Identities=8%  Similarity=-0.040  Sum_probs=197.8

Q ss_pred             HHHHHHHH--hcCCChhHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHH--HHHHHH
Q 013323           79 FHSLIVGT--MKGSRLQDTFFFRDQMKANGFLPDVA-VYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQ--TYVCLL  153 (445)
Q Consensus        79 ~~~ll~~~--~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~--~y~~li  153 (445)
                      +..+..+.  ...|+++.|.+.+....+..  |+.. .+-..-.+..+.|+.+.|.+++.+..+..  |+..  .--...
T Consensus        85 ~~~~~~glla~~~g~~~~A~~~l~~~~~~~--~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a  160 (409)
T TIGR00540        85 QKQTEEALLKLAEGDYAKAEKLIAKNADHA--AEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIART  160 (409)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHhhcC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHH
Confidence            34444443  35799999999998877754  5533 33344567778899999999999987643  4442  333457


Q ss_pred             HHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccc
Q 013323          154 NACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVS  233 (445)
Q Consensus       154 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  233 (445)
                      ..+...|+++.|...++.+.+.. +-+...+..+...+...|+.  +.+.+.+..+.+.+..                  
T Consensus       161 ~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~--~~a~~~l~~l~k~~~~------------------  219 (409)
T TIGR00540       161 RILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAW--QALDDIIDNMAKAGLF------------------  219 (409)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhH--HHHHHHHHHHHHcCCC------------------
Confidence            88888999999999999999975 22567788888899998866  8899999988876321                  


Q ss_pred             hhhhcchhhhhHHhhhcCcccCchhHHH----HHHHHHHhcccHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhcC
Q 013323          234 KEELYNLPTAEYVHRRGGFLSRLLTVYH----VAFHACAELKDVQAMETLLEMLKKDR---KSPDVYIVMQNIRCYLHSG  306 (445)
Q Consensus       234 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~----~li~~~~~~g~~~~a~~~~~~m~~~~---~~p~~~~~~~li~~~~~~g  306 (445)
                                            +...+.    ..-......+..+.+...+..+.+..   .+.+...+..+...+...|
T Consensus       220 ----------------------~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g  277 (409)
T TIGR00540       220 ----------------------DDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCD  277 (409)
T ss_pred             ----------------------CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCC
Confidence                                  111111    01111122222222233444333321   1237788888999999999


Q ss_pred             ChhhHHHHHHHHHhCCCCCCHHH--HHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcc---hhhHHHHHhhcccC
Q 013323          307 DIDNGHKVFEDYICSEKFPPAEL--YATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPR---MGSDLLLVAAGEKS  380 (445)
Q Consensus       307 ~~~~a~~~~~~m~~~~~~p~~~~--~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~---~~~~ll~~~~~~~~  380 (445)
                      +.+.|.+++++..+..  ||...  +..+...   .....++ +.+.+.++...+..  |+..   ...++-..+.  +.
T Consensus       278 ~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~---~~l~~~~~~~~~~~~e~~lk~~--p~~~~~~ll~sLg~l~~--~~  348 (409)
T TIGR00540       278 DHDSAQEIIFDGLKKL--GDDRAISLPLCLPI---PRLKPEDNEKLEKLIEKQAKNV--DDKPKCCINRALGQLLM--KH  348 (409)
T ss_pred             ChHHHHHHHHHHHhhC--CCcccchhHHHHHh---hhcCCCChHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHH--Hc
Confidence            9999999999988863  33331  1122211   2233455 78888888877653  4444   3334445555  99


Q ss_pred             CChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccCCCCCCCchhh
Q 013323          381 GGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRLVV  426 (445)
Q Consensus       381 g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~l~  426 (445)
                      |++++|.+.|+........|+.+++..+...+.+.|..++|.++..
T Consensus       349 ~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~  394 (409)
T TIGR00540       349 GEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQ  394 (409)
T ss_pred             ccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999999976666678999999999999999999988876554

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.

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

Probab=99.17  E-value=4.6e-07  Score=79.85  Aligned_cols=290  Identities=13%  Similarity=0.040  Sum_probs=163.8

Q ss_pred             HHHHHHh--cCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 013323           47 VVTSLTS--QRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKC  124 (445)
Q Consensus        47 li~~~~~--~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  124 (445)
                      +..+..+  .|+|..|..+..+-.+.+-.| ...|..-..+.-+.|+.+.+-.++.+.-+..-.++..++-+........
T Consensus        88 ~~egl~~l~eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~  166 (400)
T COG3071          88 LNEGLLKLFEGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNR  166 (400)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhC
Confidence            3444433  578888888777766655433 3345555566677788888888888877753346666666777777778


Q ss_pred             CCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHccCCC
Q 013323          125 KNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDK-------FCYAGLITAHTNKIPR  197 (445)
Q Consensus       125 g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-------~~~~~li~~~~~~~~~  197 (445)
                      |+++.|..-+++..+.+- .+........++|.+.|++..+..++..|.+.|+--|.       .+|..+++-....+..
T Consensus       167 ~d~~aA~~~v~~ll~~~p-r~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~  245 (400)
T COG3071         167 RDYPAARENVDQLLEMTP-RHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGS  245 (400)
T ss_pred             CCchhHHHHHHHHHHhCc-CChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccc
Confidence            888888777777776542 35667788888888888888888888888887754332       2333333333222111


Q ss_pred             chHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHH
Q 013323          198 ADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAME  277 (445)
Q Consensus       198 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~  277 (445)
                        +.....++...+.                                        .+.++..-.+++.-+.+.|+.++|.
T Consensus       246 --~gL~~~W~~~pr~----------------------------------------lr~~p~l~~~~a~~li~l~~~~~A~  283 (400)
T COG3071         246 --EGLKTWWKNQPRK----------------------------------------LRNDPELVVAYAERLIRLGDHDEAQ  283 (400)
T ss_pred             --hHHHHHHHhccHH----------------------------------------hhcChhHHHHHHHHHHHcCChHHHH
Confidence              2212222222111                                        1233444555666666666666666


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC-CCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHH
Q 013323          278 TLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICS-EKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVN  355 (445)
Q Consensus       278 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~  355 (445)
                      ++..+-.+.+..|+..+    .-.+.+-++.+.-.+..+.-.+. +-.|  ..+.+|=.    -|.+++. .+|.+.|+.
T Consensus       284 ~~i~~~Lk~~~D~~L~~----~~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~----L~~k~~~w~kA~~~lea  353 (400)
T COG3071         284 EIIEDALKRQWDPRLCR----LIPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGR----LALKNKLWGKASEALEA  353 (400)
T ss_pred             HHHHHHHHhccChhHHH----HHhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHH----HHHHhhHHHHHHHHHHH
Confidence            66666555555444111    12334455555555544444333 3333  33333322    2345554 666666664


Q ss_pred             HHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHH
Q 013323          356 MNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQ  394 (445)
Q Consensus       356 m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~  394 (445)
                      ..+.  .|+..+|..+-.++.  +.|+.++|..++++-.
T Consensus       354 Al~~--~~s~~~~~~la~~~~--~~g~~~~A~~~r~e~L  388 (400)
T COG3071         354 ALKL--RPSASDYAELADALD--QLGEPEEAEQVRREAL  388 (400)
T ss_pred             HHhc--CCChhhHHHHHHHHH--HcCChHHHHHHHHHHH
Confidence            4443  356666666655555  6666666666665544

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

Probab=99.14  E-value=2.8e-07  Score=78.91  Aligned_cols=292  Identities=14%  Similarity=0.073  Sum_probs=197.3

Q ss_pred             hcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCH------HHHHHHHHHHHccCC
Q 013323           53 SQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDV------AVYNYLISVCGKCKN  126 (445)
Q Consensus        53 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~------~~~~~ll~~~~~~g~  126 (445)
                      -+.+.++|.++|-+|.+.. +-+..+--+|-+.+.+.|..+.|..+.+.+.++   ||.      ...-.|-.-|...|-
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl  122 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGL  122 (389)
T ss_pred             hhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhh
Confidence            3578899999999998742 123334556778899999999999999999985   543      234456667888999


Q ss_pred             HHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHH----HHHHHHHHHccCCCchHHH
Q 013323          127 SDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFC----YAGLITAHTNKIPRADDTA  202 (445)
Q Consensus       127 ~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~----~~~li~~~~~~~~~~~~~a  202 (445)
                      +|.|+++|..+.+.|. --....-.++..|-...+|++|.++-+++.+.|-++...-    |--+-..+.-..  +.+.|
T Consensus       123 ~DRAE~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~--~~d~A  199 (389)
T COG2956         123 LDRAEDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASS--DVDRA  199 (389)
T ss_pred             hhHHHHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhh--hHHHH
Confidence            9999999999987542 2345677899999999999999999999988764433221    111211111111  23555


Q ss_pred             HHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHH
Q 013323          203 TKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEM  282 (445)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  282 (445)
                      ...+..--+..                                        +..+..--.+-......|+++.|.+.++.
T Consensus       200 ~~~l~kAlqa~----------------------------------------~~cvRAsi~lG~v~~~~g~y~~AV~~~e~  239 (389)
T COG2956         200 RELLKKALQAD----------------------------------------KKCVRASIILGRVELAKGDYQKAVEALER  239 (389)
T ss_pred             HHHHHHHHhhC----------------------------------------ccceehhhhhhHHHHhccchHHHHHHHHH
Confidence            55554433221                                        11222222344557778999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhHHHHHHHHHHHHhCCCC
Q 013323          283 LKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNIF  362 (445)
Q Consensus       283 m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~~~a~~~~~~m~~~~~~  362 (445)
                      ..+.+..--..+...|..+|...|+.++....+..+.+....++..  ..+-+-   .....|.+.|...+.+-..+  +
T Consensus       240 v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~--l~l~~l---ie~~~G~~~Aq~~l~~Ql~r--~  312 (389)
T COG2956         240 VLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADAE--LMLADL---IELQEGIDAAQAYLTRQLRR--K  312 (389)
T ss_pred             HHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccHH--HHHHHH---HHHhhChHHHHHHHHHHHhh--C
Confidence            9887655566788999999999999999999999988873333332  222221   12566776666666555554  4


Q ss_pred             CCcchhhHHHHHhh-cccCCChhhHHHHHHHHHHCCC
Q 013323          363 LSPRMGSDLLLVAA-GEKSGGYTTANYIWDLMQARKI  398 (445)
Q Consensus       363 p~~~~~~~ll~~~~-~~~~g~~~~A~~~~~~m~~~~~  398 (445)
                      |+...+..++..-. -...|.+.+....++.|....+
T Consensus       313 Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~l  349 (389)
T COG2956         313 PTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQL  349 (389)
T ss_pred             CcHHHHHHHHHhhhccccccchhhhHHHHHHHHHHHH
Confidence            88888888886443 1123456667777888875443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.10  E-value=1.6e-07  Score=96.38  Aligned_cols=230  Identities=10%  Similarity=-0.017  Sum_probs=178.7

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLIS  119 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  119 (445)
                      +...|..+-.++.. ++.++|...+.+-...  .|+......+..++...|++++|...|+.+...  +|+...+..+..
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~  550 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAAN  550 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHH
Confidence            56667777666666 8888899977777654  376554444445556899999999999998664  355566777778


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCch
Q 013323          120 VCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRAD  199 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~  199 (445)
                      .+.+.|++++|..+|++....+ +++...+..+.....+.|++++|...+++..+.  .|+...+..+-..+.+.|+.  
T Consensus       551 all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~--  625 (987)
T PRK09782        551 TAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNV--  625 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCH--
Confidence            8899999999999999998764 223333434444455669999999999999875  46788888888889999877  


Q ss_pred             HHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHH
Q 013323          200 DTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETL  279 (445)
Q Consensus       200 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~  279 (445)
                      +.|...++......                                        +.+...++.+-.++...|+.++|...
T Consensus       626 deA~~~l~~AL~l~----------------------------------------Pd~~~a~~nLG~aL~~~G~~eeAi~~  665 (987)
T PRK09782        626 PAAVSDLRAALELE----------------------------------------PNNSNYQAALGYALWDSGDIAQSREM  665 (987)
T ss_pred             HHHHHHHHHHHHhC----------------------------------------CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            88999998877642                                        55666778888889999999999999


Q ss_pred             HHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          280 LEMLKKDRKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       280 ~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      ++...+.  .| +...+..+-.++...|++++|...|+...+.
T Consensus       666 l~~AL~l--~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l  706 (987)
T PRK09782        666 LERAHKG--LPDDPALIRQLAYVNQRLDDMAATQHYARLVIDD  706 (987)
T ss_pred             HHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            9988763  45 5667888999999999999999999998875

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.09  E-value=1.6e-07  Score=81.26  Aligned_cols=96  Identities=13%  Similarity=0.070  Sum_probs=50.1

Q ss_pred             HHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHH
Q 013323           77 DLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNAC  156 (445)
Q Consensus        77 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~  156 (445)
                      ..+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...+
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~  109 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            334444555555555555555555555432 1234455555555555566666666555555432 12334455555555


Q ss_pred             HHcCChhhHHHHHHHHHH
Q 013323          157 AAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       157 ~~~g~~~~a~~~~~~m~~  174 (445)
                      ...|++++|...+++...
T Consensus       110 ~~~g~~~~A~~~~~~~~~  127 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIE  127 (234)
T ss_pred             HHcccHHHHHHHHHHHHh
Confidence            555666666655555544

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.

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.09  E-value=4e-07  Score=93.56  Aligned_cols=227  Identities=10%  Similarity=0.026  Sum_probs=135.5

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHH
Q 013323          110 DVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLIT  189 (445)
Q Consensus       110 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  189 (445)
                      +...|..+-.++.. ++.++|...|.+-...  .|+......+...+...|++++|...|+++...  .|+...+..+..
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~  550 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAAN  550 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHH
Confidence            45566666666665 6777777766655543  355443333344445677788887777776543  334344444455


Q ss_pred             HHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHh
Q 013323          190 AHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAE  269 (445)
Q Consensus       190 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~  269 (445)
                      ++.+.|+.  +.|...++...+..                                        +.+...+..+.....+
T Consensus       551 all~~Gd~--~eA~~~l~qAL~l~----------------------------------------P~~~~l~~~La~~l~~  588 (987)
T PRK09782        551 TAQAAGNG--AARDRWLQQAEQRG----------------------------------------LGDNALYWWLHAQRYI  588 (987)
T ss_pred             HHHHCCCH--HHHHHHHHHHHhcC----------------------------------------CccHHHHHHHHHHHHh
Confidence            55666654  66777776655431                                        1222223233333445


Q ss_pred             cccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCC-HHHHHHHHHhHhhcCChhhH-H
Q 013323          270 LKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPP-AELYATLVEGAMFGYTPKGM-Q  347 (445)
Q Consensus       270 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~g~-~  347 (445)
                      .|++++|...++...+  ..|+...|..+-..+.+.|+.++|...|+.....  .|+ ...++.+-.    .+...|. +
T Consensus       589 ~Gr~~eAl~~~~~AL~--l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~----aL~~~G~~e  660 (987)
T PRK09782        589 PGQPELALNDLTRSLN--IAPSANAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQAALGY----ALWDSGDIA  660 (987)
T ss_pred             CCCHHHHHHHHHHHHH--hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHH----HHHHCCCHH
Confidence            5788888877777665  3456667777777778888888888888777665  233 333333333    3455666 7


Q ss_pred             HHHHHHHHHHhCCCCCC-cchhhHHHHHhhcccCCChhhHHHHHHHHHH
Q 013323          348 LAQDTLVNMNSRNIFLS-PRMGSDLLLVAAGEKSGGYTTANYIWDLMQA  395 (445)
Q Consensus       348 ~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~  395 (445)
                      +|.+.+++..+..  |+ +..+..+-.++.  ..|++++|...|++..+
T Consensus       661 eAi~~l~~AL~l~--P~~~~a~~nLA~al~--~lGd~~eA~~~l~~Al~  705 (987)
T PRK09782        661 QSREMLERAHKGL--PDDPALIRQLAYVNQ--RLDDMAATQHYARLVID  705 (987)
T ss_pred             HHHHHHHHHHHhC--CCCHHHHHHHHHHHH--HCCCHHHHHHHHHHHHh
Confidence            7877777777653  33 334444444444  77888888887777764

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

Probab=99.07  E-value=3.2e-07  Score=80.85  Aligned_cols=285  Identities=12%  Similarity=0.056  Sum_probs=218.8

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHH
Q 013323           89 GSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAI  168 (445)
Q Consensus        89 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~  168 (445)
                      .|++..|++....-.+.+-. ....|-.-..+.-+.|+.+.+-.++.+..+.--.++...+-+........|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            69999999999998887743 35566777788888999999999999998863356677788888889999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhh
Q 013323          169 VRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHR  248 (445)
Q Consensus       169 ~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  248 (445)
                      .+++.+.+- -.+........+|.+.|..  .....+...+.+.+.+++...                            
T Consensus       176 v~~ll~~~p-r~~~vlrLa~r~y~~~g~~--~~ll~~l~~L~ka~~l~~~e~----------------------------  224 (400)
T COG3071         176 VDQLLEMTP-RHPEVLRLALRAYIRLGAW--QALLAILPKLRKAGLLSDEEA----------------------------  224 (400)
T ss_pred             HHHHHHhCc-CChHHHHHHHHHHHHhccH--HHHHHHHHHHHHccCCChHHH----------------------------
Confidence            999988753 3678888999999999976  888888888888765433110                            


Q ss_pred             hcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHH
Q 013323          249 RGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAE  328 (445)
Q Consensus       249 ~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  328 (445)
                          ......+|..++.-+...+..+.....|+..-.+ .+-+...-.+++.-+.++|+.++|.++..+..+++..|+  
T Consensus       225 ----~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~--  297 (400)
T COG3071         225 ----ARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR--  297 (400)
T ss_pred             ----HHHHHHHHHHHHHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh--
Confidence                0223357888888888888888877777765443 445666777888999999999999999999999887766  


Q ss_pred             HHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHH
Q 013323          329 LYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEA  407 (445)
Q Consensus       329 ~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~  407 (445)
                       ...++.     +.+-++ ..-.+..++-.+.. +-++..+.++=..|.  +.+.|.+|...|+.-.  ...|+.++|+-
T Consensus       298 -L~~~~~-----~l~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~--k~~~w~kA~~~leaAl--~~~~s~~~~~~  366 (400)
T COG3071         298 -LCRLIP-----RLRPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLAL--KNKLWGKASEALEAAL--KLRPSASDYAE  366 (400)
T ss_pred             -HHHHHh-----hcCCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHH--HhhHHHHHHHHHHHHH--hcCCChhhHHH
Confidence             334443     455555 55566665554432 123455666666666  9999999999999554  56799999999


Q ss_pred             HHhhhhccCCCCCCCc
Q 013323          408 YYNGLKDREVPADDPR  423 (445)
Q Consensus       408 l~~~~~~~~~~~~a~~  423 (445)
                      +-+++.+.|.+.+|..
T Consensus       367 la~~~~~~g~~~~A~~  382 (400)
T COG3071         367 LADALDQLGEPEEAEQ  382 (400)
T ss_pred             HHHHHHHcCChHHHHH
Confidence            9999999999987765

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

Probab=99.06  E-value=8.4e-08  Score=89.66  Aligned_cols=282  Identities=10%  Similarity=-0.018  Sum_probs=193.7

Q ss_pred             cHhHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhcCCChhHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHccCC-HHHHH
Q 013323           56 RFFLLRDVYDDMMLDGVQPTR-DLFHSLIVGTMKGSRLQDTFFFRDQMKANG--FLPDVAVYNYLISVCGKCKN-SDQAI  131 (445)
Q Consensus        56 ~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g--~~p~~~~~~~ll~~~~~~g~-~~~a~  131 (445)
                      +..+|...|....++ + +|+ .....+-.+|...+++++|+.+|+.+.+..  ..-+..+|.+.+-.+-+.=. --.|.
T Consensus       334 ~~~~A~~~~~klp~h-~-~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq  411 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-H-YNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQ  411 (638)
T ss_pred             HHHHHHHHHHhhHHh-c-CCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHH
Confidence            567888888885543 3 343 445566788999999999999999998753  12367788887765432111 11233


Q ss_pred             HHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCCCchHHHHHHHHHHH
Q 013323          132 RIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGL-DKFCYAGLITAHTNKIPRADDTATKIIELVE  210 (445)
Q Consensus       132 ~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~  210 (445)
                      .+.+.++     -.+.+|.++-++|.-.++.+.|++.|++..+-  .| ..++|+.+=+-+....+.  |.|...|..-.
T Consensus       412 ~Li~~~~-----~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~--d~a~~~fr~Al  482 (638)
T KOG1126|consen  412 DLIDTDP-----NSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEF--DKAMKSFRKAL  482 (638)
T ss_pred             HHHhhCC-----CCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHH--HhHHHHHHhhh
Confidence            3333332     35789999999999999999999999998874  34 456665554444443333  56666665433


Q ss_pred             HhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHH---HHHHHHhcccHHHHHHHHHHHHhCC
Q 013323          211 QSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHV---AFHACAELKDVQAMETLLEMLKKDR  287 (445)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~---li~~~~~~g~~~~a~~~~~~m~~~~  287 (445)
                                                                 ..|...||+   +--.|.+.++++.|+-.|+...+  
T Consensus       483 -------------------------------------------~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~--  517 (638)
T KOG1126|consen  483 -------------------------------------------GVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVE--  517 (638)
T ss_pred             -------------------------------------------cCCchhhHHHHhhhhheeccchhhHHHHHHHhhhc--
Confidence                                                       445556665   55568999999999999988766  


Q ss_pred             CCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCc
Q 013323          288 KSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSP  365 (445)
Q Consensus       288 ~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~  365 (445)
                      +.| +......+...+-+.|+.|+|+++|++.....-+-...-|...--     +...++ ++|+..++++++.  .|+.
T Consensus       518 INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~i-----l~~~~~~~eal~~LEeLk~~--vP~e  590 (638)
T KOG1126|consen  518 INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASI-----LFSLGRYVEALQELEELKEL--VPQE  590 (638)
T ss_pred             CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHH-----HHhhcchHHHHHHHHHHHHh--Ccch
Confidence            556 666777788888999999999999999887744323333332221     344455 9999999999874  5665


Q ss_pred             ch-hhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCH
Q 013323          366 RM-GSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSL  402 (445)
Q Consensus       366 ~~-~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~  402 (445)
                      .+ |..+-..|-  +.|+.+.|..-|--+.+.+-++..
T Consensus       591 s~v~~llgki~k--~~~~~~~Al~~f~~A~~ldpkg~~  626 (638)
T KOG1126|consen  591 SSVFALLGKIYK--RLGNTDLALLHFSWALDLDPKGAQ  626 (638)
T ss_pred             HHHHHHHHHHHH--HHccchHHHHhhHHHhcCCCccch
Confidence            54 444445555  899999998888888766555544

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

Probab=99.04  E-value=1.5e-06  Score=78.03  Aligned_cols=311  Identities=9%  Similarity=0.029  Sum_probs=206.1

Q ss_pred             HHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHccCC
Q 013323           49 TSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGF--LPDVAVYNYLISVCGKCKN  126 (445)
Q Consensus        49 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~ll~~~~~~g~  126 (445)
                      .++-.....+++.+-.+.....|+.-+...-+..-.+.-...|++.|+.+|+++.+...  --|..+|+.++-.--... 
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~s-  313 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKS-  313 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhH-
Confidence            45556667777877777777777744433333333344456789999999999988741  126778888775433222 


Q ss_pred             HHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCCchHHHHHH
Q 013323          127 SDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLD-KFCYAGLITAHTNKIPRADDTATKI  205 (445)
Q Consensus       127 ~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~~~~~~~a~~~  205 (445)
                         .+.++.+-...--+-.+.|..++-+-|+-.++.++|...|+...+-+  |. ...|+.+=+-|......  .+|..-
T Consensus       314 ---kLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN--p~~~~aWTLmGHEyvEmKNt--~AAi~s  386 (559)
T KOG1155|consen  314 ---KLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN--PKYLSAWTLMGHEYVEMKNT--HAAIES  386 (559)
T ss_pred             ---HHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC--cchhHHHHHhhHHHHHhccc--HHHHHH
Confidence               22222222211113456788888999999999999999999998864  44 34444444556554433  555555


Q ss_pred             HHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHh
Q 013323          206 IELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKK  285 (445)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  285 (445)
                      +....+.                                        .+.|-..|-.+-++|.-.+.+.-|.-.|++...
T Consensus       387 YRrAvdi----------------------------------------~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~  426 (559)
T KOG1155|consen  387 YRRAVDI----------------------------------------NPRDYRAWYGLGQAYEIMKMHFYALYYFQKALE  426 (559)
T ss_pred             HHHHHhc----------------------------------------CchhHHHHhhhhHHHHHhcchHHHHHHHHHHHh
Confidence            5554432                                        267778899999999999999999999988765


Q ss_pred             CCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHh----C
Q 013323          286 DRKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNS----R  359 (445)
Q Consensus       286 ~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~----~  359 (445)
                        ++| |...|.+|-.+|.+.++.++|...|......|-. +...+..|-+    .|-+-++ ++|...|++..+    .
T Consensus       427 --~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~Lak----Lye~l~d~~eAa~~yek~v~~~~~e  499 (559)
T KOG1155|consen  427 --LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLAK----LYEELKDLNEAAQYYEKYVEVSELE  499 (559)
T ss_pred             --cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHHH----HHHHHHhHHHHHHHHHHHHHHHHhh
Confidence              556 7889999999999999999999999998877533 4566777766    5677777 888888776654    3


Q ss_pred             CCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccC
Q 013323          360 NIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDRE  416 (445)
Q Consensus       360 ~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~  416 (445)
                      |..-+......+..+-.+.+.+++++|.....+... | .|..+-=++|++.+.+..
T Consensus       500 g~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~-~-~~e~eeak~LlReir~~~  554 (559)
T KOG1155|consen  500 GEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLK-G-ETECEEAKALLREIRKIQ  554 (559)
T ss_pred             cccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhc-C-CchHHHHHHHHHHHHHhc
Confidence            432222222222222224588999999766554443 3 666666677777665543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.04  E-value=3.4e-07  Score=79.19  Aligned_cols=202  Identities=12%  Similarity=0.009  Sum_probs=150.9

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLI  118 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  118 (445)
                      .....+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.++...+.. +.+...+..+.
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~  106 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYG  106 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHH
Confidence            446778888899999999999999999987753 2346678888889999999999999999998865 34567888889


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCC-CccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCC
Q 013323          119 SVCGKCKNSDQAIRIFEEMKKYEV-KPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPR  197 (445)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~m~~~g~-~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~  197 (445)
                      ..+...|++++|.+.|++...... ..+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|+.
T Consensus       107 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       107 TFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCH
Confidence            999999999999999999987532 2235567778888999999999999999988753 22345566666666666655


Q ss_pred             chHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHH
Q 013323          198 ADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAME  277 (445)
Q Consensus       198 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~  277 (445)
                        +.+...++......                                        +.+...+..+...+...|+.+.|.
T Consensus       186 --~~A~~~~~~~~~~~----------------------------------------~~~~~~~~~~~~~~~~~~~~~~a~  223 (234)
T TIGR02521       186 --KDARAYLERYQQTY----------------------------------------NQTAESLWLGIRIARALGDVAAAQ  223 (234)
T ss_pred             --HHHHHHHHHHHHhC----------------------------------------CCCHHHHHHHHHHHHHHhhHHHHH
Confidence              66776666654431                                        233344555666666677777777


Q ss_pred             HHHHHHHh
Q 013323          278 TLLEMLKK  285 (445)
Q Consensus       278 ~~~~~m~~  285 (445)
                      .+.+.+..
T Consensus       224 ~~~~~~~~  231 (234)
T TIGR02521       224 RYGAQLQK  231 (234)
T ss_pred             HHHHHHHh
Confidence            76665543

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.

>PF12854 PPR_1: PPR repeat

Probab=98.97  E-value=7.8e-10  Score=62.69  Aligned_cols=32  Identities=44%  Similarity=0.664  Sum_probs=16.8

Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 013323          106 GFLPDVAVYNYLISVCGKCKNSDQAIRIFEEM  137 (445)
Q Consensus       106 g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m  137 (445)
                      |+.||..|||+||++||+.|++++|.++|++|
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            44555555555555555555555555555554

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

Probab=98.96  E-value=3.2e-06  Score=75.75  Aligned_cols=145  Identities=17%  Similarity=0.080  Sum_probs=101.9

Q ss_pred             HHHHHHhcccHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcC
Q 013323          263 AFHACAELKDVQAMETLLEMLKKDRKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGY  341 (445)
Q Consensus       263 li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~  341 (445)
                      +...|-...+...|.+++...  ..+.| |....+.|-..|-+.|+-..|++.+-+--+ -++-+..|...|-.    -|
T Consensus       564 ianiye~led~aqaie~~~q~--~slip~dp~ilskl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~a----yy  636 (840)
T KOG2003|consen  564 IANIYELLEDPAQAIELLMQA--NSLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAA----YY  636 (840)
T ss_pred             HHHHHHHhhCHHHHHHHHHHh--cccCCCCHHHHHHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHH----HH
Confidence            333344444444555444332  23444 677888888999999999988887654222 23446777777765    45


Q ss_pred             ChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccCCC
Q 013323          342 TPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVP  418 (445)
Q Consensus       342 ~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~  418 (445)
                      ..... +++...|++.-  -++|+.+-|..++..|. .+.|++++|..+|+.. .+.++-|......|++-+...|..
T Consensus       637 idtqf~ekai~y~ekaa--liqp~~~kwqlmiasc~-rrsgnyqka~d~yk~~-hrkfpedldclkflvri~~dlgl~  710 (840)
T KOG2003|consen  637 IDTQFSEKAINYFEKAA--LIQPNQSKWQLMIASCF-RRSGNYQKAFDLYKDI-HRKFPEDLDCLKFLVRIAGDLGLK  710 (840)
T ss_pred             HhhHHHHHHHHHHHHHH--hcCccHHHHHHHHHHHH-HhcccHHHHHHHHHHH-HHhCccchHHHHHHHHHhccccch
Confidence            66666 88998888754  36899999999998884 7889999999999988 456777888888888776666644

>PF12854 PPR_1: PPR repeat

Probab=98.95  E-value=9.8e-10  Score=62.29  Aligned_cols=34  Identities=24%  Similarity=0.413  Sum_probs=29.0

Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 013323          286 DRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYI  319 (445)
Q Consensus       286 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  319 (445)
                      .|+.||..|||+||.+||+.|++++|.++|++|.
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            3788888899999999999999999988888873

>PRK12370 invasion protein regulator; Provisional

Probab=98.95  E-value=2.6e-06  Score=83.59  Aligned_cols=81  Identities=7%  Similarity=-0.062  Sum_probs=34.5

Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHH
Q 013323           92 LQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRD  171 (445)
Q Consensus        92 ~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~  171 (445)
                      +++|...+++..+.+ +-+...+..+-..+...|++++|...|++..+.+ +.+...|..+-..+...|++++|...+++
T Consensus       320 ~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~  397 (553)
T PRK12370        320 MIKAKEHAIKATELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINE  397 (553)
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            444444444444432 1133344444444444444444444444444332 11233344444444444444444444444


Q ss_pred             HHH
Q 013323          172 MTA  174 (445)
Q Consensus       172 m~~  174 (445)
                      ..+
T Consensus       398 Al~  400 (553)
T PRK12370        398 CLK  400 (553)
T ss_pred             HHh
Confidence            444

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

Probab=98.94  E-value=3.3e-07  Score=85.11  Aligned_cols=351  Identities=13%  Similarity=0.056  Sum_probs=182.4

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 013323           44 YNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGK  123 (445)
Q Consensus        44 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  123 (445)
                      -..|.+-..+.|++.+|++--...-+.+ ..+....-.+-.++.+..+.+....--....+. .+.-..+|..+-+.+-.
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~-~~q~ae~ysn~aN~~ke  128 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRK-NPQGAEAYSNLANILKE  128 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhc-cchHHHHHHHHHHHHHH
Confidence            3456677778889988887655554432 122223333334455555555544333332222 12356789999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHc-cCCCchHH
Q 013323          124 CKNSDQAIRIFEEMKKYEVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTN-KIPRADDT  201 (445)
Q Consensus       124 ~g~~~~a~~~~~~m~~~g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~-~~~~~~~~  201 (445)
                      .|++++|+.+|+.+.+.  +| ....|..+-.++...|+.+.|.+.|.+..+-  .|+.....+-+.-+.+ .|+.  .+
T Consensus       129 rg~~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl--~e  202 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRL--EE  202 (966)
T ss_pred             hchHHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhccc--ch
Confidence            99999999999999885  34 4778999999999999999999999888874  4666554443333322 3443  44


Q ss_pred             HHHHH-HHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCc-hhHHHHHHHHHHhcccHHHHHHH
Q 013323          202 ATKII-ELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRL-LTVYHVAFHACAELKDVQAMETL  279 (445)
Q Consensus       202 a~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~-~~~~~~li~~~~~~g~~~~a~~~  279 (445)
                      +...+ +.++....+.- ..  +...-.+.  ...+++.-.....   +.-.+.|+ ...|-.+-..|...+.++.|..-
T Consensus       203 a~~cYlkAi~~qp~fAi-aw--snLg~~f~--~~Gei~~aiq~y~---eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~  274 (966)
T KOG4626|consen  203 AKACYLKAIETQPCFAI-AW--SNLGCVFN--AQGEIWLAIQHYE---EAVKLDPNFLDAYINLGNVYKEARIFDRAVSC  274 (966)
T ss_pred             hHHHHHHHHhhCCceee-ee--hhcchHHh--hcchHHHHHHHHH---HhhcCCCcchHHHhhHHHHHHHHhcchHHHHH
Confidence            44444 33333321110 00  00000000  0000110000000   00000111 12333344444444444444444


Q ss_pred             HHHHHhCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCC-CHHHHHHHHHhHhhcCChhhH-HHHHHHHHHH
Q 013323          280 LEMLKKDRKSPD-VYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFP-PAELYATLVEGAMFGYTPKGM-QLAQDTLVNM  356 (445)
Q Consensus       280 ~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m  356 (445)
                      +.....  .+|+ ...|..+-..|-..|.+|-|...|++..+.  .| =...|+.|-.    ++...|. .+|...+.+.
T Consensus       275 Y~rAl~--lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~Nlan----ALkd~G~V~ea~~cYnka  346 (966)
T KOG4626|consen  275 YLRALN--LRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLAN----ALKDKGSVTEAVDCYNKA  346 (966)
T ss_pred             HHHHHh--cCCcchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHH----HHHhccchHHHHHHHHHH
Confidence            443322  3443 334555555555666666666666655544  12 2345555555    4455565 6666666665


Q ss_pred             HhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCH-HHHHHHHhhhhccCCCCCCCc
Q 013323          357 NSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSL-PAVEAYYNGLKDREVPADDPR  423 (445)
Q Consensus       357 ~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~  423 (445)
                      ..... -.+...+.|-..+.  ..|.+++|..+|..-.+  +.|.- ...+-|-.-|...|..++|+.
T Consensus       347 L~l~p-~hadam~NLgni~~--E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~  409 (966)
T KOG4626|consen  347 LRLCP-NHADAMNNLGNIYR--EQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIM  409 (966)
T ss_pred             HHhCC-ccHHHHHHHHHHHH--HhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHH
Confidence            55431 12234444555555  66666666666655442  33332 234445555566666666554

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

Probab=98.90  E-value=7.8e-06  Score=79.39  Aligned_cols=356  Identities=14%  Similarity=0.064  Sum_probs=198.3

Q ss_pred             HHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHH
Q 013323           50 SLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQ  129 (445)
Q Consensus        50 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~  129 (445)
                      .+.-.|++++|.+++.+..+.. +-+...|-.|-..|-+.|+.+.+...+=-.-..+ +-|...|-.+-....+.|.++.
T Consensus       148 ~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~q  225 (895)
T KOG2076|consen  148 NLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQ  225 (895)
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHH
Confidence            3333488888888888877653 2355667777778888887777766553333322 3456777777777777777777


Q ss_pred             HHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHH----HHHHHHHHccCCCchHHHHHH
Q 013323          130 AIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCY----AGLITAHTNKIPRADDTATKI  205 (445)
Q Consensus       130 a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~----~~li~~~~~~~~~~~~~a~~~  205 (445)
                      |.-.|.+..+.. +++...+--=+..|-+.|+...|...|.++....-+.|..-+    ..+++.+...++.  +.|.+.
T Consensus       226 A~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~--e~a~~~  302 (895)
T KOG2076|consen  226 ARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNER--ERAAKA  302 (895)
T ss_pred             HHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHH--HHHHHH
Confidence            777777776653 234444445556667777777777777777664321122222    2223334444333  444444


Q ss_pred             HHHHHHh-cCCccccccccccchhhcc-cchhhhcchhhhhH----------------------HhhhcCcccCchhHHH
Q 013323          206 IELVEQS-KGWSSVETSGNNAENEMMG-VSKEELYNLPTAEY----------------------VHRRGGFLSRLLTVYH  261 (445)
Q Consensus       206 ~~~~~~~-~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~----------------------~~~~~g~~~~~~~~~~  261 (445)
                      ++.-... ...........++...+.. ....+...+.....                      ....+....++..++ 
T Consensus       303 le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~-  381 (895)
T KOG2076|consen  303 LEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVI-  381 (895)
T ss_pred             HHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhH-
Confidence            4332221 1111111111111111000 00000000000000                      000000112333331 


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhh
Q 013323          262 VAFHACAELKDVQAMETLLEMLKKDRKSP--DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMF  339 (445)
Q Consensus       262 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  339 (445)
                      -++-++.+.+..+...-+..-+.+..+.|  +...|.-+..+|...|++..|+++|..+......-+...|-.+-.|   
T Consensus       382 rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c---  458 (895)
T KOG2076|consen  382 RLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARC---  458 (895)
T ss_pred             hHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHH---
Confidence            23334455555566665666666555444  5568889999999999999999999999988544467777777774   


Q ss_pred             cCChhhH-HHHHHHHHHHHhCCCCCCc-chhhHHHHHhhcccCCChhhHHHHHHHHHH--------CCCCCCHHHHHHHH
Q 013323          340 GYTPKGM-QLAQDTLVNMNSRNIFLSP-RMGSDLLLVAAGEKSGGYTTANYIWDLMQA--------RKITPSLPAVEAYY  409 (445)
Q Consensus       340 ~~~~~g~-~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~--------~~~~p~~~~~~~l~  409 (445)
                       |...|. +.|.+.++......  |+. ..-..|-..+-  +.|+.|+|.+++..|..        .++.|.....-...
T Consensus       459 -~~~l~e~e~A~e~y~kvl~~~--p~~~D~Ri~Lasl~~--~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~  533 (895)
T KOG2076|consen  459 -YMELGEYEEAIEFYEKVLILA--PDNLDARITLASLYQ--QLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRC  533 (895)
T ss_pred             -HHHHhhHHHHHHHHHHHHhcC--CCchhhhhhHHHHHH--hcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHH
Confidence             566777 99999999988753  332 22233334344  89999999999999652        23445554443344


Q ss_pred             hhhhccCCCC
Q 013323          410 NGLKDREVPA  419 (445)
Q Consensus       410 ~~~~~~~~~~  419 (445)
                      +-+.+.|+.+
T Consensus       534 d~l~~~gk~E  543 (895)
T KOG2076|consen  534 DILFQVGKRE  543 (895)
T ss_pred             HHHHHhhhHH
Confidence            4445555443

>PRK12370 invasion protein regulator; Provisional

Probab=98.88  E-value=2.3e-06  Score=84.00  Aligned_cols=266  Identities=10%  Similarity=-0.031  Sum_probs=176.6

Q ss_pred             CCHHHHHHHHHHHhc-----CCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHH---------ccCCHHHHHHHHHHHH
Q 013323           74 PTRDLFHSLIVGTMK-----GSRLQDTFFFRDQMKANGFLPD-VAVYNYLISVCG---------KCKNSDQAIRIFEEMK  138 (445)
Q Consensus        74 p~~~~~~~ll~~~~~-----~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~---------~~g~~~~a~~~~~~m~  138 (445)
                      .+...|...+.+-..     .+++++|...|++..+..  |+ ...|..+-.++.         ..+++++|...+++..
T Consensus       254 ~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld--P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al  331 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS--PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKAT  331 (553)
T ss_pred             CChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            355667777766422     245789999999998754  54 445555554443         2345889999999998


Q ss_pred             hCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccc
Q 013323          139 KYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSV  218 (445)
Q Consensus       139 ~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  218 (445)
                      +.+ +-+...|..+-..+...|++++|...|++..+.+ +.+...+..+-..+...|+.  +.|...++...+..     
T Consensus       332 ~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~--~eAi~~~~~Al~l~-----  402 (553)
T PRK12370        332 ELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQL--EEALQTINECLKLD-----  402 (553)
T ss_pred             hcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCH--HHHHHHHHHHHhcC-----
Confidence            764 2357788888888899999999999999998864 22456677777788888876  88999998877642     


Q ss_pred             cccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCC-CHHHHHH
Q 013323          219 ETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSP-DVYIVMQ  297 (445)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~  297 (445)
                                                         +.+...+..+...+...|++++|...+++..+.. .| +...+..
T Consensus       403 -----------------------------------P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~  446 (553)
T PRK12370        403 -----------------------------------PTRAAAGITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSM  446 (553)
T ss_pred             -----------------------------------CCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHH
Confidence                                               2222233334445666899999999998876543 34 3445666


Q ss_pred             HHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhHHHHHHHHHHHHhCC-CCCCcchhhHHHHHhh
Q 013323          298 NIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRN-IFLSPRMGSDLLLVAA  376 (445)
Q Consensus       298 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~  376 (445)
                      +-.++...|+.++|.+.+..+...  .|+.......+..   .|...| +.+...++.+.+.. -.|...-+..++  +.
T Consensus       447 la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~---~~~~~g-~~a~~~l~~ll~~~~~~~~~~~~~~~~--~~  518 (553)
T PRK12370        447 QVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYA---EYCQNS-ERALPTIREFLESEQRIDNNPGLLPLV--LV  518 (553)
T ss_pred             HHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHH---HHhccH-HHHHHHHHHHHHHhhHhhcCchHHHHH--HH
Confidence            778888999999999999887654  3444433333332   345555 46666666655432 223333333333  33


Q ss_pred             cccCCChhhHHHHHHHHHHCC
Q 013323          377 GEKSGGYTTANYIWDLMQARK  397 (445)
Q Consensus       377 ~~~~g~~~~A~~~~~~m~~~~  397 (445)
                        -.|+-+.+... +++.+.+
T Consensus       519 --~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        519 --AHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             --HHhhhHHHHHH-HHhhccc
Confidence              57777777555 8887654

>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=98.85  E-value=8.1e-06  Score=77.84  Aligned_cols=303  Identities=11%  Similarity=0.071  Sum_probs=193.1

Q ss_pred             HHHHhcCcHhHHHHHHHHHHHCCCCCCHHH-HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHcc--
Q 013323           49 TSLTSQRRFFLLRDVYDDMMLDGVQPTRDL-FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVY-NYLISVCGKC--  124 (445)
Q Consensus        49 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~-~~ll~~~~~~--  124 (445)
                      ..+...|++++|++.++.-.+  .-+|..+ +...-..+.+.|+.++|..+|..+.+.+  |+-..| ..+..+..-.  
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~--~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEK--QILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhh--hCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcc
Confidence            455788999999999977433  3356555 5566778899999999999999999987  665555 4455544222  


Q ss_pred             ---CCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCCh-hhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchH
Q 013323          125 ---KNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQL-DPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADD  200 (445)
Q Consensus       125 ---g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~-~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~  200 (445)
                         .+.+....+|+++...  -|.......+.-.+.....+ ..+...+..+..+|+++   +|+.+-.-|....+.  +
T Consensus        88 ~~~~~~~~~~~~y~~l~~~--yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~--~  160 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEK--YPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKA--A  160 (517)
T ss_pred             cccccHHHHHHHHHHHHHh--CccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHH--H
Confidence               2578888999988764  25444444443333332333 33556667777888653   344444444433222  4


Q ss_pred             HHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHH--HHHHHHHHhcccHHHHHH
Q 013323          201 TATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVY--HVAFHACAELKDVQAMET  278 (445)
Q Consensus       201 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~li~~~~~~g~~~~a~~  278 (445)
                      ....++..+..............                         ....-+|....|  ..+-..|-..|++++|.+
T Consensus       161 ~i~~l~~~~~~~l~~~~~~~~~~-------------------------~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~  215 (517)
T PF12569_consen  161 IIESLVEEYVNSLESNGSFSNGD-------------------------DEEKEPPSTLLWTLYFLAQHYDYLGDYEKALE  215 (517)
T ss_pred             HHHHHHHHHHHhhcccCCCCCcc-------------------------ccccCCchHHHHHHHHHHHHHHHhCCHHHHHH
Confidence            44455544433211110000000                         000114444334  556677889999999999


Q ss_pred             HHHHHHhCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHH
Q 013323          279 LLEMLKKDRKSPD-VYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNM  356 (445)
Q Consensus       279 ~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m  356 (445)
                      ..+...+.  .|+ +..|..-...+-+.|++++|.+.++..+..... |-..-+...+    .+.++|. ++|.+++...
T Consensus       216 ~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aK----y~LRa~~~e~A~~~~~~F  288 (517)
T PF12569_consen  216 YIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAK----YLLRAGRIEEAEKTASLF  288 (517)
T ss_pred             HHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHH----HHHHCCCHHHHHHHHHhh
Confidence            99988774  565 557888888999999999999999999887443 4555555555    4567788 9999999999


Q ss_pred             HhCCCCCCcchh------hHHHHHhhcccCCChhhHHHHHHHHH
Q 013323          357 NSRNIFLSPRMG------SDLLLVAAGEKSGGYTTANYIWDLMQ  394 (445)
Q Consensus       357 ~~~~~~p~~~~~------~~ll~~~~~~~~g~~~~A~~~~~~m~  394 (445)
                      .+.+..|....+      --+=.+-++.+.|++..|.+.|....
T Consensus       289 tr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~  332 (517)
T PF12569_consen  289 TREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVL  332 (517)
T ss_pred             cCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            887764433222      11212222559999999988776665

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 [], [].

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

Probab=98.80  E-value=1.7e-05  Score=68.22  Aligned_cols=265  Identities=14%  Similarity=0.117  Sum_probs=183.9

Q ss_pred             HHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHH------HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013323           46 TVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDL------FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLIS  119 (445)
Q Consensus        46 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~------~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  119 (445)
                      +|=+.|-+.|.++.|+++...+.+.   ||...      .-.|-.-|...|-++.|+++|..+.+.|- --.....-|+.
T Consensus        74 tLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~e-fa~~AlqqLl~  149 (389)
T COG2956          74 TLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEGE-FAEGALQQLLN  149 (389)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcchh-hhHHHHHHHHH
Confidence            4557788899999999999998875   54322      22333446778999999999999988652 34567788999


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCcc----HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHH-HHHHcc
Q 013323          120 VCGKCKNSDQAIRIFEEMKKYEVKPN----GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLI-TAHTNK  194 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~~g~~p~----~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li-~~~~~~  194 (445)
                      .|-...+|++|.++-+++...|-.+.    ...|.-+-..+.-..+++.|...+.+..+..  |+.+--+.++ +.....
T Consensus       150 IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~--~~cvRAsi~lG~v~~~~  227 (389)
T COG2956         150 IYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQAD--KKCVRASIILGRVELAK  227 (389)
T ss_pred             HHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhC--ccceehhhhhhHHHHhc
Confidence            99999999999999999987654443    3457777777778889999999999888763  3333333333 334455


Q ss_pred             CCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHH
Q 013323          195 IPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQ  274 (445)
Q Consensus       195 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~  274 (445)
                      |+.  +.+.+.++.+.+.+.                                       .--..+...+..+|...|+.+
T Consensus       228 g~y--~~AV~~~e~v~eQn~---------------------------------------~yl~evl~~L~~~Y~~lg~~~  266 (389)
T COG2956         228 GDY--QKAVEALERVLEQNP---------------------------------------EYLSEVLEMLYECYAQLGKPA  266 (389)
T ss_pred             cch--HHHHHHHHHHHHhCh---------------------------------------HHHHHHHHHHHHHHHHhCCHH
Confidence            655  888888888776531                                       112345778999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHH
Q 013323          275 AMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTL  353 (445)
Q Consensus       275 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~  353 (445)
                      +....+..+.+....++..  ..+-..-....-.+.|...+.+-...  +|+...+..||+.-+ +-+..|. .+.+.++
T Consensus       267 ~~~~fL~~~~~~~~g~~~~--l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l-~daeeg~~k~sL~~l  341 (389)
T COG2956         267 EGLNFLRRAMETNTGADAE--LMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHL-ADAEEGRAKESLDLL  341 (389)
T ss_pred             HHHHHHHHHHHccCCccHH--HHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhh-ccccccchhhhHHHH
Confidence            9999999887754333332  22222223334455565555544443  699999999998433 3344555 6677778


Q ss_pred             HHHHhCCCC
Q 013323          354 VNMNSRNIF  362 (445)
Q Consensus       354 ~~m~~~~~~  362 (445)
                      +.|....++
T Consensus       342 r~mvge~l~  350 (389)
T COG2956         342 RDMVGEQLR  350 (389)
T ss_pred             HHHHHHHHh
Confidence            888765544

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

Probab=98.78  E-value=3.2e-06  Score=79.36  Aligned_cols=264  Identities=11%  Similarity=0.021  Sum_probs=191.6

Q ss_pred             hhHHHHHHHHHhcCcHhHHHHHHHHHHHCC--CCCCHHHHHHHHHHHhcCCChhHHHHHHHH-HHHCCCCCCHHHHHHHH
Q 013323           42 SEYNTVVTSLTSQRRFFLLRDVYDDMMLDG--VQPTRDLFHSLIVGTMKGSRLQDTFFFRDQ-MKANGFLPDVAVYNYLI  118 (445)
Q Consensus        42 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~-m~~~g~~p~~~~~~~ll  118 (445)
                      +...-+=.+|...+++++|..+|+..++..  ..-+...|.+.+.=+-+    +-++..+.+ +.+.. +-.+.+|-++-
T Consensus       354 wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~Laq~Li~~~-~~sPesWca~G  428 (638)
T KOG1126|consen  354 WVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSYLAQDLIDTD-PNSPESWCALG  428 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHHHHHHHHhhC-CCCcHHHHHhc
Confidence            344455578888999999999999998742  11256678887765432    222222222 22222 34678999999


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHH---HHHHcc
Q 013323          119 SVCGKCKNSDQAIRIFEEMKKYEVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLI---TAHTNK  194 (445)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li---~~~~~~  194 (445)
                      ++|.-.++.+.|++.|++..+.  .| ...+|+.+-.-+.....+|+|...|+....    .|+..|+++-   ..|.+.
T Consensus       429 NcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~----~~~rhYnAwYGlG~vy~Kq  502 (638)
T KOG1126|consen  429 NCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALG----VDPRHYNAWYGLGTVYLKQ  502 (638)
T ss_pred             chhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhc----CCchhhHHHHhhhhheecc
Confidence            9999999999999999999874  45 678999998889999999999999987765    5778888765   346677


Q ss_pred             CCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHH
Q 013323          195 IPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQ  274 (445)
Q Consensus       195 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~  274 (445)
                      ++.  +.|+-.|+......                                        +.+.+....+...+-+.|+.+
T Consensus       503 ek~--e~Ae~~fqkA~~IN----------------------------------------P~nsvi~~~~g~~~~~~k~~d  540 (638)
T KOG1126|consen  503 EKL--EFAEFHFQKAVEIN----------------------------------------PSNSVILCHIGRIQHQLKRKD  540 (638)
T ss_pred             chh--hHHHHHHHhhhcCC----------------------------------------ccchhHHhhhhHHHHHhhhhh
Confidence            666  77777777655432                                        566667777777888899999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHH
Q 013323          275 AMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTL  353 (445)
Q Consensus       275 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~  353 (445)
                      +|.+++++.....-+ |...--.-...+...++.++|++.++++++-  .|+..+...|+.-   .|.+-|. +.|+.-|
T Consensus       541 ~AL~~~~~A~~ld~k-n~l~~~~~~~il~~~~~~~eal~~LEeLk~~--vP~es~v~~llgk---i~k~~~~~~~Al~~f  614 (638)
T KOG1126|consen  541 KALQLYEKAIHLDPK-NPLCKYHRASILFSLGRYVEALQELEELKEL--VPQESSVFALLGK---IYKRLGNTDLALLHF  614 (638)
T ss_pred             HHHHHHHHHHhcCCC-CchhHHHHHHHHHhhcchHHHHHHHHHHHHh--CcchHHHHHHHHH---HHHHHccchHHHHhh
Confidence            999999987654322 3333333466677889999999999999874  5666555555542   5778887 9999999


Q ss_pred             HHHHhCCCCCC
Q 013323          354 VNMNSRNIFLS  364 (445)
Q Consensus       354 ~~m~~~~~~p~  364 (445)
                      ..+.+.+-++.
T Consensus       615 ~~A~~ldpkg~  625 (638)
T KOG1126|consen  615 SWALDLDPKGA  625 (638)
T ss_pred             HHHhcCCCccc
Confidence            88887664433

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

Probab=98.76  E-value=9.2e-06  Score=72.90  Aligned_cols=276  Identities=10%  Similarity=0.002  Sum_probs=179.7

Q ss_pred             HHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHH--HHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC
Q 013323           49 TSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLI--VGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKN  126 (445)
Q Consensus        49 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll--~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  126 (445)
                      --+.++|+++.|.++++-+.+..-+.-...-+.|-  ..+--..++..|.+.-+...... .-+....+.--+...-.|+
T Consensus       427 ~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd  505 (840)
T KOG2003|consen  427 GELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGD  505 (840)
T ss_pred             HHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCc
Confidence            35678899999999998887654333222222222  22222446777777666655432 1122222222223345789


Q ss_pred             HHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHH
Q 013323          127 SDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKII  206 (445)
Q Consensus       127 ~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~  206 (445)
                      +++|.++|++....+-.-....||+=+ .+-..|++++|++.|-.+..- +.-+..+...+-.-|-...+  +..+.+++
T Consensus       506 ~dka~~~ykeal~ndasc~ealfnigl-t~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led--~aqaie~~  581 (840)
T KOG2003|consen  506 LDKAAEFYKEALNNDASCTEALFNIGL-TAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLED--PAQAIELL  581 (840)
T ss_pred             HHHHHHHHHHHHcCchHHHHHHHHhcc-cHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhC--HHHHHHHH
Confidence            999999999998754333333444333 355678999999999877542 11233333333333332221  12222222


Q ss_pred             HHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhC
Q 013323          207 ELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKD  286 (445)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  286 (445)
                      -.                                        ....++.|+.+.+-+-..|-+.|+-..|.+.+-.-.+ 
T Consensus       582 ~q----------------------------------------~~slip~dp~ilskl~dlydqegdksqafq~~ydsyr-  620 (840)
T KOG2003|consen  582 MQ----------------------------------------ANSLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR-  620 (840)
T ss_pred             HH----------------------------------------hcccCCCCHHHHHHHHHHhhcccchhhhhhhhhhccc-
Confidence            22                                        1133477888999999999999999999887755332 


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCc
Q 013323          287 RKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSP  365 (445)
Q Consensus       287 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~  365 (445)
                      -++.|..|..-|-.-|....=++++..+|+...  -+.|+..-|..+|..|   +.+.|. ++|++++++..++ ++-|.
T Consensus       621 yfp~nie~iewl~ayyidtqf~ekai~y~ekaa--liqp~~~kwqlmiasc---~rrsgnyqka~d~yk~~hrk-fpedl  694 (840)
T KOG2003|consen  621 YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAA--LIQPNQSKWQLMIASC---FRRSGNYQKAFDLYKDIHRK-FPEDL  694 (840)
T ss_pred             ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH--hcCccHHHHHHHHHHH---HHhcccHHHHHHHHHHHHHh-Cccch
Confidence            245588898888888899999999999998653  3789999999999864   467788 9999999997654 56688


Q ss_pred             chhhHHHHHhh
Q 013323          366 RMGSDLLLVAA  376 (445)
Q Consensus       366 ~~~~~ll~~~~  376 (445)
                      .+...|++.|.
T Consensus       695 dclkflvri~~  705 (840)
T KOG2003|consen  695 DCLKFLVRIAG  705 (840)
T ss_pred             HHHHHHHHHhc
Confidence            88888888876

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

Probab=98.73  E-value=3.7e-05  Score=74.90  Aligned_cols=352  Identities=11%  Similarity=0.002  Sum_probs=207.6

Q ss_pred             HHHHhcCC---CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCC
Q 013323           30 EEYARRNY---ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANG  106 (445)
Q Consensus        30 ~~~~~~~~---~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g  106 (445)
                      .++....+   ..+...|-.|-..|-+.|+.+++...+-..-. -.+-|..-|..+-....+.|+++.|.-.|....+..
T Consensus       159 ~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAH-L~p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~  237 (895)
T KOG2076|consen  159 EEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAH-LNPKDYELWKRLADLSEQLGNINQARYCYSRAIQAN  237 (895)
T ss_pred             HHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHh-cCCCChHHHHHHHHHHHhcccHHHHHHHHHHHHhcC
Confidence            44444444   34567788888889999998888876654432 233466778888888888888999999998888865


Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcc----HHHHHHHHHHHHHcCChhhHHHHHHHHHHcC-CCCCH
Q 013323          107 FLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPN----GQTYVCLLNACAAAGQLDPVYAIVRDMTAAG-AGLDK  181 (445)
Q Consensus       107 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~----~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~  181 (445)
                       +++...+=-=...|-+.|+...|..-|.++.+..-+.|    ..+--.+++.+...++.+.|.+.++.....+ -..+.
T Consensus       238 -p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~  316 (895)
T KOG2076|consen  238 -PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASL  316 (895)
T ss_pred             -CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccc
Confidence             24444444456677888888888888888877532222    2333345666666777788888777766532 12223


Q ss_pred             HHHHHHHHHHHccCCCchHHHHHHHHHHHH--------------------------hcCCccccccccccchhhcccchh
Q 013323          182 FCYAGLITAHTNKIPRADDTATKIIELVEQ--------------------------SKGWSSVETSGNNAENEMMGVSKE  235 (445)
Q Consensus       182 ~~~~~li~~~~~~~~~~~~~a~~~~~~~~~--------------------------~~~~~~~~~~~~~~~~~~~~~~~~  235 (445)
                      .+++.+...+.+....  +.+.........                          ....+..+.......-+..-...+
T Consensus       317 ed~ni~ael~l~~~q~--d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~L~~~e  394 (895)
T KOG2076|consen  317 EDLNILAELFLKNKQS--DKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVHLKERE  394 (895)
T ss_pred             cHHHHHHHHHHHhHHH--HHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhcccccc
Confidence            3333333333322211  222222222221                          011111111100111111111111


Q ss_pred             hhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHH
Q 013323          236 ELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVF  315 (445)
Q Consensus       236 ~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  315 (445)
                      ....+........  -.+..+...|.-+..++...|++.+|..++..+......-+..+|-.+-.+|-..|..+.|.+.|
T Consensus       395 ~~e~ll~~l~~~n--~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y  472 (895)
T KOG2076|consen  395 LLEALLHFLVEDN--VWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFY  472 (895)
T ss_pred             hHHHHHHHHHHhc--CChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHH
Confidence            1111111111100  00134556788899999999999999999999987655556888999999999999999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHh--------CCCCCCcchhhHHHHHhhcccCCChhhH
Q 013323          316 EDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNS--------RNIFLSPRMGSDLLLVAAGEKSGGYTTA  386 (445)
Q Consensus       316 ~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~--------~~~~p~~~~~~~ll~~~~~~~~g~~~~A  386 (445)
                      +.....    .+.++.+.|.- ..-+.+.|. ++|.+++..+..        .+..|+...-......+.  +.|+.++=
T Consensus       473 ~kvl~~----~p~~~D~Ri~L-asl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~--~~gk~E~f  545 (895)
T KOG2076|consen  473 EKVLIL----APDNLDARITL-ASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILF--QVGKREEF  545 (895)
T ss_pred             HHHHhc----CCCchhhhhhH-HHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHH--HhhhHHHH
Confidence            998876    22333333321 113577787 999999998652        122333333333333444  78888876


Q ss_pred             HHHHHHHH
Q 013323          387 NYIWDLMQ  394 (445)
Q Consensus       387 ~~~~~~m~  394 (445)
                      ..+-..|.
T Consensus       546 i~t~~~Lv  553 (895)
T KOG2076|consen  546 INTASTLV  553 (895)
T ss_pred             HHHHHHHH
Confidence            55555554

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

Probab=98.70  E-value=0.00024  Score=67.09  Aligned_cols=360  Identities=9%  Similarity=0.039  Sum_probs=219.8

Q ss_pred             hHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013323           43 EYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCG  122 (445)
Q Consensus        43 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  122 (445)
                      +|+.--..|.+.+.++-|..+|....+. ++-+...|......--..|..++...+|+.....- +-....|-...+-+.
T Consensus       518 tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w  595 (913)
T KOG0495|consen  518 TWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKW  595 (913)
T ss_pred             HHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHH
Confidence            3444444555555555556666555443 22244456555555556667777777777766542 223444555556666


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHH
Q 013323          123 KCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTA  202 (445)
Q Consensus       123 ~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a  202 (445)
                      ..|++..|..++.+.-+..-. +...|-+-+..-..+.+++.|..+|.+....+  |+..+|..-+....-.+..  +.+
T Consensus       596 ~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~s--gTeRv~mKs~~~er~ld~~--eeA  670 (913)
T KOG0495|consen  596 KAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSIS--GTERVWMKSANLERYLDNV--EEA  670 (913)
T ss_pred             hcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhccC--CcchhhHHHhHHHHHhhhH--HHH
Confidence            678888888888777665322 56678888888888888888888888776643  5555554444333333333  677


Q ss_pred             HHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccC-chhHHHHHHHHHHhcccHHHHHHHHH
Q 013323          203 TKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSR-LLTVYHVAFHACAELKDVQAMETLLE  281 (445)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~  281 (445)
                      .++++...+.  ++...     -..++.|+..+....+...-.....+-...| .+..|-.+...=-+.|.+-.|..+++
T Consensus       671 ~rllEe~lk~--fp~f~-----Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ild  743 (913)
T KOG0495|consen  671 LRLLEEALKS--FPDFH-----KLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILD  743 (913)
T ss_pred             HHHHHHHHHh--CCchH-----HHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHH
Confidence            7777654432  11111     1223333333333333222222222111123 33455555555566778899999998


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCC
Q 013323          282 MLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRN  360 (445)
Q Consensus       282 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~  360 (445)
                      .-.-.+ +-|...|-..|.+-.+.|+.+.|..+.....+. ++-+...|..-|.    -..+.++ ......+++.    
T Consensus       744 rarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~----le~~~~rkTks~DALkkc----  813 (913)
T KOG0495|consen  744 RARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSSGLLWAEAIW----LEPRPQRKTKSIDALKKC----  813 (913)
T ss_pred             HHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCccchhHHHHHH----hccCcccchHHHHHHHhc----
Confidence            766543 347788999999999999999999888877765 4446667777776    3344444 4444443332    


Q ss_pred             CCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCC-HHHHHHHHhhhhccCCCCCCCchhhhhhcc
Q 013323          361 IFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPS-LPAVEAYYNGLKDREVPADDPRLVVVSRAY  431 (445)
Q Consensus       361 ~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~l~~~~~~  431 (445)
                       .-|+.....+-..+.  ...++++|.+-|.+-.+.+  || -.+|.-++.-..+.|..++-..++..|-.+
T Consensus       814 -e~dphVllaia~lfw--~e~k~~kar~Wf~Ravk~d--~d~GD~wa~fykfel~hG~eed~kev~~~c~~~  880 (913)
T KOG0495|consen  814 -EHDPHVLLAIAKLFW--SEKKIEKAREWFERAVKKD--PDNGDAWAWFYKFELRHGTEEDQKEVLKKCETA  880 (913)
T ss_pred             -cCCchhHHHHHHHHH--HHHHHHHHHHHHHHHHccC--CccchHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence             246676666666666  7889999999998887644  33 345666677778888888888888887553

>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=98.62  E-value=2e-05  Score=75.23  Aligned_cols=283  Identities=12%  Similarity=0.118  Sum_probs=161.4

Q ss_pred             HHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHH-Hc---
Q 013323           84 VGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACA-AA---  159 (445)
Q Consensus        84 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~-~~---  159 (445)
                      ..+...|+.++|++.++.-.+. +..........-..+.+.|+.++|..+|..+.+.+  |+...|-..+..+. -.   
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhccc
Confidence            3445566777776666553332 22223444555566666677777777777666653  44444444333333 11   


Q ss_pred             --CChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhh
Q 013323          160 --GQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEEL  237 (445)
Q Consensus       160 --g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  237 (445)
                        .+.+...++|+++...-  |......-+.-.+.. |    +......+....                          
T Consensus        89 ~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~-g----~~F~~~~~~yl~--------------------------  135 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLE-G----DEFKERLDEYLR--------------------------  135 (517)
T ss_pred             ccccHHHHHHHHHHHHHhC--ccccchhHhhcccCC-H----HHHHHHHHHHHH--------------------------
Confidence              13445555666555442  333332222211211 1    112222111111                          


Q ss_pred             cchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhC----C----------CCCCH--HHHHHHHHH
Q 013323          238 YNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKD----R----------KSPDV--YIVMQNIRC  301 (445)
Q Consensus       238 ~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~----------~~p~~--~~~~~li~~  301 (445)
                              ..-+.|+    +.+|+.+-..|....+..-..+++......    +          -.|..  .++.-+-..
T Consensus       136 --------~~l~Kgv----PslF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqh  203 (517)
T PF12569_consen  136 --------PQLRKGV----PSLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQH  203 (517)
T ss_pred             --------HHHhcCC----chHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHH
Confidence                    0111122    235777777777666666666666665432    1          12444  355666778


Q ss_pred             HHhcCChhhHHHHHHHHHhCCCCCC-HHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhccc
Q 013323          302 YLHSGDIDNGHKVFEDYICSEKFPP-AELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEK  379 (445)
Q Consensus       302 ~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  379 (445)
                      |-..|++++|+++.+..+++  .|+ +..|.+--+    .+-+.|+ ++|.+.++..+..+. -|...-+-....+.  +
T Consensus       204 yd~~g~~~~Al~~Id~aI~h--tPt~~ely~~Kar----ilKh~G~~~~Aa~~~~~Ar~LD~-~DRyiNsK~aKy~L--R  274 (517)
T PF12569_consen  204 YDYLGDYEKALEYIDKAIEH--TPTLVELYMTKAR----ILKHAGDLKEAAEAMDEARELDL-ADRYINSKCAKYLL--R  274 (517)
T ss_pred             HHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHH----HHHHCCCHHHHHHHHHHHHhCCh-hhHHHHHHHHHHHH--H
Confidence            88999999999999998887  344 444444444    4678898 999999999988774 24444444444444  9


Q ss_pred             CCChhhHHHHHHHHHHCCCCCCHHH--HHHH------HhhhhccCCCCCCCc
Q 013323          380 SGGYTTANYIWDLMQARKITPSLPA--VEAY------YNGLKDREVPADDPR  423 (445)
Q Consensus       380 ~g~~~~A~~~~~~m~~~~~~p~~~~--~~~l------~~~~~~~~~~~~a~~  423 (445)
                      +|++++|.+++....+.+..|-...  ..++      -+++.+.|....|..
T Consensus       275 a~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk  326 (517)
T PF12569_consen  275 AGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALK  326 (517)
T ss_pred             CCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            9999999999999987776443322  2222      356777777766664

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 [], [].

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.59  E-value=3.7e-05  Score=72.61  Aligned_cols=245  Identities=14%  Similarity=0.083  Sum_probs=171.7

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHC-----CC-CCCHHH-HHHHHHHHhcCCChhHHHHHHHHHHHC-----C--
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLD-----GV-QPTRDL-FHSLIVGTMKGSRLQDTFFFRDQMKAN-----G--  106 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g~-~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~-----g--  106 (445)
                      ..+...+-..|...|+++.|..++++-.+.     |. -|...+ .+.+-..|...+++.+|..+|+++...     |  
T Consensus       199 ~~~~~~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  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            344556889999999999999999887653     21 233333 333556778899999999999998642     2  


Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh-----CCC-CccH-HHHHHHHHHHHHcCChhhHHHHHHHHHHc---C
Q 013323          107 FLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKK-----YEV-KPNG-QTYVCLLNACAAAGQLDPVYAIVRDMTAA---G  176 (445)
Q Consensus       107 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~-----~g~-~p~~-~~y~~li~~~~~~g~~~~a~~~~~~m~~~---g  176 (445)
                      .+.-..+++.|-..|.+.|++++|...+++..+     .|. .|.. .-++.+...|+..+++++|..+++...+.   -
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            112245778888899999999888877765432     121 2222 34677888899999999999999876542   1


Q ss_pred             CCCC----HHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCc
Q 013323          177 AGLD----KFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGF  252 (445)
Q Consensus       177 ~~p~----~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~  252 (445)
                      +.++    ..+++.+-..|.+.|+.  +.|..+++...+...-.                                ..+.
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~--~ea~~~~k~ai~~~~~~--------------------------------~~~~  404 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKY--KEAEELYKKAIQILREL--------------------------------LGKK  404 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcch--hHHHHHHHHHHHHHHhc--------------------------------ccCc
Confidence            2222    46788888899999988  88988888766532100                                0001


Q ss_pred             ccCchhHHHHHHHHHHhcccHHHHHHHHHHHHh----CC-CCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 013323          253 LSRLLTVYHVAFHACAELKDVQAMETLLEMLKK----DR-KSPD-VYIVMQNIRCYLHSGDIDNGHKVFEDYI  319 (445)
Q Consensus       253 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~~-~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~  319 (445)
                      ..-....++.+-..|.+.++.++|.++|.+-..    .| -.|+ ..+|..|...|...|+++.|.++.+...
T Consensus       405 ~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  405 DYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             ChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            112234577788888888889988888875432    23 2333 4589999999999999999999988776

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

Probab=98.57  E-value=5.6e-05  Score=68.29  Aligned_cols=239  Identities=10%  Similarity=0.054  Sum_probs=174.5

Q ss_pred             HHhcCCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCC--CCHHHHHHHHHHHhcCCChhH-HHHHHHHHHHCCCC
Q 013323           32 YARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQ--PTRDLFHSLIVGTMKGSRLQD-TFFFRDQMKANGFL  108 (445)
Q Consensus        32 ~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~--p~~~~~~~ll~~~~~~~~~~~-a~~~~~~m~~~g~~  108 (445)
                      ....|+.-+...=+-.-.+.-...++++|..+|+++.+...-  -|..+|..++-.--....+.- |..++ ..  ..  
T Consensus       253 l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~-~i--dK--  327 (559)
T KOG1155|consen  253 LSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVS-NI--DK--  327 (559)
T ss_pred             HHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHH-Hh--cc--
Confidence            344555555555455555566788999999999999887311  166678877755433222221 11111 11  12  


Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHH
Q 013323          109 PDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLI  188 (445)
Q Consensus       109 p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  188 (445)
                      --+.|..++-+-|+-.++.++|..+|++..+.+- .....|+.+-.-|....+...|.+.++...+-. +-|-..|-.+=
T Consensus       328 yR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp-~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLG  405 (559)
T KOG1155|consen  328 YRPETCCIIANYYSLRSEHEKAVMYFKRALKLNP-KYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLG  405 (559)
T ss_pred             CCccceeeehhHHHHHHhHHHHHHHHHHHHhcCc-chhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhh
Confidence            3346777888889999999999999999987642 346789999999999999999999999998853 34667777777


Q ss_pred             HHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHH
Q 013323          189 TAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACA  268 (445)
Q Consensus       189 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~  268 (445)
                      .+|.-.+..  .-+.-.|+.....                                        .+.|...|.+|-.+|.
T Consensus       406 QaYeim~Mh--~YaLyYfqkA~~~----------------------------------------kPnDsRlw~aLG~CY~  443 (559)
T KOG1155|consen  406 QAYEIMKMH--FYALYYFQKALEL----------------------------------------KPNDSRLWVALGECYE  443 (559)
T ss_pred             HHHHHhcch--HHHHHHHHHHHhc----------------------------------------CCCchHHHHHHHHHHH
Confidence            777665533  4455555554432                                        2678899999999999


Q ss_pred             hcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 013323          269 ELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYIC  320 (445)
Q Consensus       269 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  320 (445)
                      +.++.++|.+-|......| ..+...|..|-..|-+.++.++|-+.|+.-.+
T Consensus       444 kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  444 KLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            9999999999999887655 34668899999999999999999999987665

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

Probab=98.55  E-value=0.00034  Score=63.64  Aligned_cols=352  Identities=12%  Similarity=0.062  Sum_probs=209.6

Q ss_pred             HHHHHHhcCC--CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHC
Q 013323           28 GAEEYARRNY--ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN  105 (445)
Q Consensus        28 ~~~~~~~~~~--~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  105 (445)
                      |+.+...+++  .|+..+|++.|..=.+-+.++.|..+++...-.  -|+..+|......=-++|+...+.++|+...+.
T Consensus       159 gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie~  236 (677)
T KOG1915|consen  159 GARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIEF  236 (677)
T ss_pred             HHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            5555666654  799999999999999999999999999998764  499999998888888899999999888877653


Q ss_pred             -CC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC------------------------C------------------
Q 013323          106 -GF-LPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKY------------------------E------------------  141 (445)
Q Consensus       106 -g~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~------------------------g------------------  141 (445)
                       |- .-+...|++.-.-=.++..++.|.-+|+-....                        |                  
T Consensus       237 ~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~  316 (677)
T KOG1915|consen  237 LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVS  316 (677)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHH
Confidence             10 011122222222222233333333333221110                        1                  


Q ss_pred             -CCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCH-------HHHHHHHHHHH-ccCCCchHHHHHHHHHHHHh
Q 013323          142 -VKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDK-------FCYAGLITAHT-NKIPRADDTATKIIELVEQS  212 (445)
Q Consensus       142 -~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-------~~~~~li~~~~-~~~~~~~~~a~~~~~~~~~~  212 (445)
                       -+.|-.+|--.+..--..|+.+...++|+..... ++|-.       .+|--+=-++. ...--+.+..+++++...+.
T Consensus       317 ~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l  395 (677)
T KOG1915|consen  317 KNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL  395 (677)
T ss_pred             hCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence             1235566666777777778888888888888765 34411       12222211221 11111336666676655441


Q ss_pred             cCCccccccccccchhhcccchhhhcchhhhhHHhhh-cCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCC-
Q 013323          213 KGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRR-GGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSP-  290 (445)
Q Consensus       213 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-  290 (445)
                         .+.....-.-.-++.+...-.-.++..+-..+.. -|. .|...+|..-|..=.+.+.++.+..+++...+-  .| 
T Consensus       396 ---IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~-cPK~KlFk~YIelElqL~efDRcRkLYEkfle~--~Pe  469 (677)
T KOG1915|consen  396 ---IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGK-CPKDKLFKGYIELELQLREFDRCRKLYEKFLEF--SPE  469 (677)
T ss_pred             ---cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhcc-CCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhc--ChH
Confidence               1100000000001111110000111111111111 133 667778888888888889999999999998874  45 


Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHhC-CCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchh
Q 013323          291 DVYIVMQNIRCYLHSGDIDNGHKVFEDYICS-EKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMG  368 (445)
Q Consensus       291 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~  368 (445)
                      |..+|......-...|+.+.|..+|+...+. ........|.+.|+    --...|. +.|..+++.+.+..-  ...+|
T Consensus       470 ~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYId----FEi~~~E~ekaR~LYerlL~rt~--h~kvW  543 (677)
T KOG1915|consen  470 NCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYID----FEIEEGEFEKARALYERLLDRTQ--HVKVW  543 (677)
T ss_pred             hhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhh----hhhhcchHHHHHHHHHHHHHhcc--cchHH
Confidence            6678888877778899999999999988877 34445566666666    3456666 999999999987652  33344


Q ss_pred             hHHHHHh---hcccCC-----------ChhhHHHHHHHHH
Q 013323          369 SDLLLVA---AGEKSG-----------GYTTANYIWDLMQ  394 (445)
Q Consensus       369 ~~ll~~~---~~~~~g-----------~~~~A~~~~~~m~  394 (445)
                      .+...--   +-.+.|           .+..|..+|++..
T Consensus       544 isFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn  583 (677)
T KOG1915|consen  544 ISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERAN  583 (677)
T ss_pred             HhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHH
Confidence            4333211   111233           5667888887765

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

Probab=98.53  E-value=0.001  Score=63.11  Aligned_cols=354  Identities=10%  Similarity=0.025  Sum_probs=193.1

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHH----HHHCCCCCCHHHHHHHHHHHHc
Q 013323           48 VTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQ----MKANGFLPDVAVYNYLISVCGK  123 (445)
Q Consensus        48 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~----m~~~g~~p~~~~~~~ll~~~~~  123 (445)
                      ..++++...++.|..+++..++. ++.+...|.+.-..=-.+|+.+...++.+.    +...|+..+..-|-.=-..|-.
T Consensus       413 wlAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~  491 (913)
T KOG0495|consen  413 WLALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACED  491 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhh
Confidence            45666777777788888877553 666777777777777777888877777664    4456777777777776677777


Q ss_pred             cCCHHHHHHHHHHHHhCCCCcc--HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHH
Q 013323          124 CKNSDQAIRIFEEMKKYEVKPN--GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDT  201 (445)
Q Consensus       124 ~g~~~~a~~~~~~m~~~g~~p~--~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~  201 (445)
                      .|..--+..+......-|+.-.  ..||...-..|.+.+.++-|..+|....+- ++-+...|......--..|..  +.
T Consensus       492 agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~--Es  568 (913)
T KOG0495|consen  492 AGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTR--ES  568 (913)
T ss_pred             cCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcH--HH
Confidence            7777777777776666555432  356777777777777777777777666653 122344444444333333433  55


Q ss_pred             HHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHH
Q 013323          202 ATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLE  281 (445)
Q Consensus       202 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  281 (445)
                      ...+++.....-.-...............+. ..+...+....+.     ..+.+..+|-+.+..-..+..++.|..+|.
T Consensus       569 l~Allqkav~~~pkae~lwlM~ake~w~agd-v~~ar~il~~af~-----~~pnseeiwlaavKle~en~e~eraR~lla  642 (913)
T KOG0495|consen  569 LEALLQKAVEQCPKAEILWLMYAKEKWKAGD-VPAARVILDQAFE-----ANPNSEEIWLAAVKLEFENDELERARDLLA  642 (913)
T ss_pred             HHHHHHHHHHhCCcchhHHHHHHHHHHhcCC-cHHHHHHHHHHHH-----hCCCcHHHHHHHHHHhhccccHHHHHHHHH
Confidence            5555554333211000000000000000000 0000011111110     113455677777777777778888888887


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCC
Q 013323          282 MLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRN  360 (445)
Q Consensus       282 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~  360 (445)
                      ....  ..|+..+|.--+..--..++.++|.+++++..+.  .|+-.-+-.++.-   -+-+.++ +.|.+.|..=.+. 
T Consensus       643 kar~--~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQ---i~e~~~~ie~aR~aY~~G~k~-  714 (913)
T KOG0495|consen  643 KARS--ISGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQ---IEEQMENIEMAREAYLQGTKK-  714 (913)
T ss_pred             HHhc--cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhH---HHHHHHHHHHHHHHHHhcccc-
Confidence            6554  4566666666666666677778888877766554  3333332222211   1233333 4454444332221 


Q ss_pred             CCCCcc-hhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccCCCCCCCc
Q 013323          361 IFLSPR-MGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPR  423 (445)
Q Consensus       361 ~~p~~~-~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  423 (445)
                       -|+.. .|-.+...--  +.|.+-+|..+|++-+-++ +-+...|-..|+.=.+.|..+.|..
T Consensus       715 -cP~~ipLWllLakleE--k~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~  774 (913)
T KOG0495|consen  715 -CPNSIPLWLLLAKLEE--KDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAEL  774 (913)
T ss_pred             -CCCCchHHHHHHHHHH--HhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHH
Confidence             23333 3333333333  6667777777777665443 2344555566666566666666555

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

Probab=98.52  E-value=0.00062  Score=63.25  Aligned_cols=307  Identities=12%  Similarity=-0.015  Sum_probs=163.1

Q ss_pred             hHHHHHHHHHhcCcHhHHHHHHHHHHHCC-CCCCHHHH-HHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013323           43 EYNTVVTSLTSQRRFFLLRDVYDDMMLDG-VQPTRDLF-HSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISV  120 (445)
Q Consensus        43 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~p~~~~~-~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  120 (445)
                      .|..+-..+...|+.+.+...+....+.. ..++...- ......+...|+.++|.+++++..+.. +.|...++. ...
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~   85 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLG   85 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHH
Confidence            34444455555677777666655544321 12232221 122234566789999999999887753 233444442 222


Q ss_pred             HH----ccCCHHHHHHHHHHHHhCCCCcc-HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC
Q 013323          121 CG----KCKNSDQAIRIFEEMKKYEVKPN-GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKI  195 (445)
Q Consensus       121 ~~----~~g~~~~a~~~~~~m~~~g~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~  195 (445)
                      +.    ..+..+.+.+.++.  ..+..|+ ......+...+...|++++|...+++..+.. +.+...+..+-..+...|
T Consensus        86 ~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g  162 (355)
T cd05804          86 AFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQG  162 (355)
T ss_pred             HHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcC
Confidence            22    23445555555554  1222333 3444556677788899999999999988864 234555666666777777


Q ss_pred             CCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHH
Q 013323          196 PRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQA  275 (445)
Q Consensus       196 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~  275 (445)
                      +.  +.+...++.........+                                    ......|..+...+...|+.++
T Consensus       163 ~~--~eA~~~l~~~l~~~~~~~------------------------------------~~~~~~~~~la~~~~~~G~~~~  204 (355)
T cd05804         163 RF--KEGIAFMESWRDTWDCSS------------------------------------MLRGHNWWHLALFYLERGDYEA  204 (355)
T ss_pred             CH--HHHHHHHHhhhhccCCCc------------------------------------chhHHHHHHHHHHHHHCCCHHH
Confidence            65  777777776543210000                                    1112345567777888888888


Q ss_pred             HHHHHHHHHhCCC-CCCHHHH-H--HHHHHHHhcCChhhHHHHHHHHHh---CCCCCCHHHHHHHHHhHhhcCChhhH-H
Q 013323          276 METLLEMLKKDRK-SPDVYIV-M--QNIRCYLHSGDIDNGHKVFEDYIC---SEKFPPAELYATLVEGAMFGYTPKGM-Q  347 (445)
Q Consensus       276 a~~~~~~m~~~~~-~p~~~~~-~--~li~~~~~~g~~~~a~~~~~~m~~---~~~~p~~~~~~~li~~~~~~~~~~g~-~  347 (445)
                      |..+++....... .+..... +  .++.-+...|..+.+.++ +.+..   .........+..+..+.  ++...|. +
T Consensus       205 A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w-~~~~~~~~~~~~~~~~~~~~~~~a~--~~~~~~~~~  281 (355)
T cd05804         205 ALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRW-EDLADYAAWHFPDHGLAFNDLHAAL--ALAGAGDKD  281 (355)
T ss_pred             HHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHH-HHHHHHHHhhcCcccchHHHHHHHH--HHhcCCCHH
Confidence            8888888753321 1222211 1  233334444544444333 22211   11111112222222211  4566665 7


Q ss_pred             HHHHHHHHHHhCCCC------CCcchhhHHHHHhhcccCCChhhHHHHHHHHHH
Q 013323          348 LAQDTLVNMNSRNIF------LSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQA  395 (445)
Q Consensus       348 ~a~~~~~~m~~~~~~------p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~  395 (445)
                      .|..+++.+......      ....+-..++.+..+...|++++|...+.+-..
T Consensus       282 ~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~  335 (355)
T cd05804         282 ALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRD  335 (355)
T ss_pred             HHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            788888777653322      111222334444445578888888888777653

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.

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

Probab=98.51  E-value=8.9e-05  Score=69.71  Aligned_cols=338  Identities=14%  Similarity=0.126  Sum_probs=198.2

Q ss_pred             HHHHHhcCCC--CC--hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----------------
Q 013323           29 AEEYARRNYA--NN--ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMK----------------   88 (445)
Q Consensus        29 ~~~~~~~~~~--p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----------------   88 (445)
                      -....+.|+.  +|  ...|++|...|.+.|.++.|.++|++-.+.-  .+..-|..+.++|++                
T Consensus       232 vdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~  309 (835)
T KOG2047|consen  232 VDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFEESCVAAKMELADEE  309 (835)
T ss_pred             HHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHHHHHHHHHHhhhhhc
Confidence            3455566653  34  4579999999999999999999998876542  344456666666542                


Q ss_pred             CC------ChhHHHHHHHHHHHCCC-----------CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCc------c
Q 013323           89 GS------RLQDTFFFRDQMKANGF-----------LPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKP------N  145 (445)
Q Consensus        89 ~~------~~~~a~~~~~~m~~~g~-----------~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p------~  145 (445)
                      .+      +++-...-|+.+...+-           +-++..|..-+..+  .|+..+-...|.+.... +.|      -
T Consensus       310 ~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l~--e~~~~~~i~tyteAv~~-vdP~ka~Gs~  386 (835)
T KOG2047|consen  310 SGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKLY--EGNAAEQINTYTEAVKT-VDPKKAVGSP  386 (835)
T ss_pred             ccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhhhh--cCChHHHHHHHHHHHHc-cCcccCCCCh
Confidence            11      23334445555544321           12344555544443  56777778888877653 222      2


Q ss_pred             HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCcccccccccc
Q 013323          146 GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNA  225 (445)
Q Consensus       146 ~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  225 (445)
                      ...|..+-.-|-+.|+++.|..+|++..+-..+ .+.-...+--.++.. ....+.....+..|.+.-..+....     
T Consensus       387 ~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~-~v~dLa~vw~~waem-Elrh~~~~~Al~lm~~A~~vP~~~~-----  459 (835)
T KOG2047|consen  387 GTLWVEFAKLYENNGDLDDARVIFEKATKVPYK-TVEDLAEVWCAWAEM-ELRHENFEAALKLMRRATHVPTNPE-----  459 (835)
T ss_pred             hhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCcc-chHHHHHHHHHHHHH-HHhhhhHHHHHHHHHhhhcCCCchh-----
Confidence            356889999999999999999999999886553 332223332233221 1111333333334443322221100     


Q ss_pred             chhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 013323          226 ENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHS  305 (445)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  305 (445)
                      .....+..       +..       ..+..+...|...++.--..|-++....+++.+.+..+.......| ...-+-.+
T Consensus       460 ~~~yd~~~-------pvQ-------~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTPqii~N-yAmfLEeh  524 (835)
T KOG2047|consen  460 LEYYDNSE-------PVQ-------ARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQIIIN-YAMFLEEH  524 (835)
T ss_pred             hhhhcCCC-------cHH-------HHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHH-HHHHHHhh
Confidence            00000000       000       0013344567766666666778888899999988876554444433 12223456


Q ss_pred             CChhhHHHHHHHHHhCCCCCCH-HHHHHHHHhHhhcCChhhHHHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChh
Q 013323          306 GDIDNGHKVFEDYICSEKFPPA-ELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYT  384 (445)
Q Consensus       306 g~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~~~~~g~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~  384 (445)
                      .-+++++++|++=+..=..|++ ..|+..+.-++.-|.....+.|..+|++..+ |.+|...-+-.++-+-.-.+.|...
T Consensus       525 ~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar  603 (835)
T KOG2047|consen  525 KYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLAR  603 (835)
T ss_pred             HHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHH
Confidence            6688888888764444222333 4677777655555665556999999999998 6666655544444433334668888


Q ss_pred             hHHHHHHHHH
Q 013323          385 TANYIWDLMQ  394 (445)
Q Consensus       385 ~A~~~~~~m~  394 (445)
                      .|+.++++..
T Consensus       604 ~amsiyerat  613 (835)
T KOG2047|consen  604 HAMSIYERAT  613 (835)
T ss_pred             HHHHHHHHHH
Confidence            8888888753

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.51  E-value=6.6e-05  Score=70.98  Aligned_cols=207  Identities=16%  Similarity=0.095  Sum_probs=125.3

Q ss_pred             HHHHHHHHHHhcCCChhHHHHHHHHHHHC-----CC-CCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHhC-----C-CC
Q 013323           77 DLFHSLIVGTMKGSRLQDTFFFRDQMKAN-----GF-LPDVA-VYNYLISVCGKCKNSDQAIRIFEEMKKY-----E-VK  143 (445)
Q Consensus        77 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----g~-~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~m~~~-----g-~~  143 (445)
                      .+...+-..|...|+++.|..+++...+.     |. .|... ..+.+-..|...+++++|..+|+++..-     | ..
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            35666888899999999999999887653     21 13332 3444667788889999999999887631     2 12


Q ss_pred             c-cHHHHHHHHHHHHHcCChhhHHHHHHHHHH-----cCC-CCCHHH-HHHHHHHHHccCCCchHHHHHHHHHHHHhcCC
Q 013323          144 P-NGQTYVCLLNACAAAGQLDPVYAIVRDMTA-----AGA-GLDKFC-YAGLITAHTNKIPRADDTATKIIELVEQSKGW  215 (445)
Q Consensus       144 p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~-----~g~-~p~~~~-~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~  215 (445)
                      | -..+++.|-..|.+.|++++|...++...+     .|. .|.+.. ++.+...+...++.  +.+..++....+.-. 
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~--Eea~~l~q~al~i~~-  356 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEY--EEAKKLLQKALKIYL-  356 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcch--hHHHHHHHHHHHHHH-
Confidence            2 245677777889999999988888777643     122 233322 33334445555544  666666654332110 


Q ss_pred             ccccccccccchhhcccchhhhcchhhhhHHhhhcCccc-CchhHHHHHHHHHHhcccHHHHHHHHHHHHhC------CC
Q 013323          216 SSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLS-RLLTVYHVAFHACAELKDVQAMETLLEMLKKD------RK  288 (445)
Q Consensus       216 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~~  288 (445)
                                                      ...|... --..+++.+-..|-..|++++|.++++.....      +.
T Consensus       357 --------------------------------~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~  404 (508)
T KOG1840|consen  357 --------------------------------DAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKK  404 (508)
T ss_pred             --------------------------------hhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCc
Confidence                                            0001101 12346777777777777777777777755431      11


Q ss_pred             CCC-HHHHHHHHHHHHhcCChhhHHHHHHHH
Q 013323          289 SPD-VYIVMQNIRCYLHSGDIDNGHKVFEDY  318 (445)
Q Consensus       289 ~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m  318 (445)
                      .+. ...++.|-..|.+.+++++|.++|.+-
T Consensus       405 ~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~  435 (508)
T KOG1840|consen  405 DYGVGKPLNQLAEAYEELKKYEEAEQLFEEA  435 (508)
T ss_pred             ChhhhHHHHHHHHHHHHhcccchHHHHHHHH
Confidence            222 345666777777777777777776653

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.47  E-value=2.8e-07  Score=53.03  Aligned_cols=34  Identities=24%  Similarity=0.503  Sum_probs=27.8

Q ss_pred             hhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCC
Q 013323           42 SEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPT   75 (445)
Q Consensus        42 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~   75 (445)
                      .+||++|.+|++.|++++|.++|++|.+.|++||
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            3688888888888888888888888888888887

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.

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.47  E-value=0.00031  Score=63.13  Aligned_cols=219  Identities=14%  Similarity=0.031  Sum_probs=142.8

Q ss_pred             cCcHhHHHHHHHHHHHCC-CCCC--HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHH
Q 013323           54 QRRFFLLRDVYDDMMLDG-VQPT--RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQA  130 (445)
Q Consensus        54 ~~~~~~a~~~~~~m~~~g-~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a  130 (445)
                      .+..+.++.-+.++.... ..|+  ...|..+-..+.+.|+.++|...|++..+.. +.+...|+.+-..+...|++++|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            456677777777777532 3333  2346666667888999999999999998865 24578999999999999999999


Q ss_pred             HHHHHHHHhCCCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHH
Q 013323          131 IRIFEEMKKYEVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELV  209 (445)
Q Consensus       131 ~~~~~~m~~~g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~  209 (445)
                      ...|+...+.  .| +..+|..+...+...|++++|.+.|+...+..  |+..............+  +.+.|...++..
T Consensus       118 ~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~--~~~~A~~~l~~~  191 (296)
T PRK11189        118 YEAFDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKL--DPKQAKENLKQR  191 (296)
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccC--CHHHHHHHHHHH
Confidence            9999999874  34 36678888888889999999999999988753  44322111111122233  337777777543


Q ss_pred             HHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhC-C-
Q 013323          210 EQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKD-R-  287 (445)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~-  287 (445)
                      ....                                        .++...+ .+.  ....|+...+ +.+..+.+. . 
T Consensus       192 ~~~~----------------------------------------~~~~~~~-~~~--~~~lg~~~~~-~~~~~~~~~~~~  227 (296)
T PRK11189        192 YEKL----------------------------------------DKEQWGW-NIV--EFYLGKISEE-TLMERLKAGATD  227 (296)
T ss_pred             HhhC----------------------------------------CccccHH-HHH--HHHccCCCHH-HHHHHHHhcCCC
Confidence            3210                                        1111111 122  2224444333 244444321 1 


Q ss_pred             ---CCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCC
Q 013323          288 ---KSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEK  323 (445)
Q Consensus       288 ---~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  323 (445)
                         +.| ....|..+-..+.+.|++++|...|+...+.+.
T Consensus       228 ~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~  267 (296)
T PRK11189        228 NTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNV  267 (296)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence               112 234688888899999999999999999887653

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

Probab=98.44  E-value=1.6e-05  Score=68.47  Aligned_cols=231  Identities=9%  Similarity=0.019  Sum_probs=173.9

Q ss_pred             HHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHc
Q 013323           45 NTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVY-NYLISVCGK  123 (445)
Q Consensus        45 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~-~~ll~~~~~  123 (445)
                      +-+-.+|.+.|...+|...|+.-.+.  .|-..||..|-++|-+-.+.+.|+.++.+-.+.  -|-.+|| .-.-+.+-.
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHH
Confidence            46678999999999999988876654  477889999999999999999999999988775  2555554 446667777


Q ss_pred             cCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHH
Q 013323          124 CKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTAT  203 (445)
Q Consensus       124 ~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~  203 (445)
                      .++.++|.++|+...+.. ..+.+....+-.+|.-.+++|-|+..|+.+.+-|+. +...|..+--.|.-.+..  |.+.
T Consensus       303 m~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~--D~~L  378 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQI--DLVL  378 (478)
T ss_pred             HHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcch--hhhH
Confidence            899999999999987753 236677777888888899999999999999999976 666777666666666655  6677


Q ss_pred             HHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHH
Q 013323          204 KIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEML  283 (445)
Q Consensus       204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  283 (445)
                      .-|++....-.-+                                     ..-..+|-.+-......||+..|.+-|...
T Consensus       379 ~sf~RAlstat~~-------------------------------------~~aaDvWYNlg~vaV~iGD~nlA~rcfrla  421 (478)
T KOG1129|consen  379 PSFQRALSTATQP-------------------------------------GQAADVWYNLGFVAVTIGDFNLAKRCFRLA  421 (478)
T ss_pred             HHHHHHHhhccCc-------------------------------------chhhhhhhccceeEEeccchHHHHHHHHHH
Confidence            7777655432110                                     011123444555566679999999999877


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          284 KKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       284 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      ..+. .-+...+|.|--.-.+.|+++.|..++......
T Consensus       422 L~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  422 LTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             hccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            6543 235668888888888999999999999877654

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.43  E-value=3.7e-07  Score=52.12  Aligned_cols=33  Identities=21%  Similarity=0.370  Sum_probs=24.7

Q ss_pred             hhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCC
Q 013323           42 SEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQP   74 (445)
Q Consensus        42 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p   74 (445)
                      .+||.+|.+|++.|+++.|.++|++|++.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            567777777777777777777777777777766

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.43  E-value=4e-07  Score=52.39  Aligned_cols=33  Identities=30%  Similarity=0.534  Sum_probs=20.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcc
Q 013323          113 VYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPN  145 (445)
Q Consensus       113 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~  145 (445)
                      +||++|++|++.|++++|.++|++|.+.|++||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            456666666666666666666666666666555

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.

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

Probab=98.42  E-value=4.6e-05  Score=65.78  Aligned_cols=238  Identities=11%  Similarity=0.006  Sum_probs=178.3

Q ss_pred             CCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHH
Q 013323           71 GVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYV  150 (445)
Q Consensus        71 g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~  150 (445)
                      |...|-.-=+.+-+.|.+.|...+|.+.|+.-.+..  |-+.||-.|-++|-+...++.|+.+|.+-.+.  .|-.+||-
T Consensus       218 ~~~~dwwWk~Q~gkCylrLgm~r~AekqlqssL~q~--~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l  293 (478)
T KOG1129|consen  218 GCTLDWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQF--PHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYL  293 (478)
T ss_pred             cchHhHHHHHHHHHHHHHhcChhhhHHHHHHHhhcC--CchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhh
Confidence            333444444677789999999999999999888763  77889999999999999999999999988764  56666654


Q ss_pred             -HHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhh
Q 013323          151 -CLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEM  229 (445)
Q Consensus       151 -~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~  229 (445)
                       -+.+.+-..++.++|.++|+...+.. ..++.....+-..|.-.+..  +.|...+.++.+-+.               
T Consensus       294 ~g~ARi~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~P--E~AlryYRRiLqmG~---------------  355 (478)
T KOG1129|consen  294 LGQARIHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNP--EMALRYYRRILQMGA---------------  355 (478)
T ss_pred             hhhHHHHHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCCh--HHHHHHHHHHHHhcC---------------
Confidence             46667777899999999999988753 23555666666677766655  999999999988653               


Q ss_pred             cccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHH--HHHHHHHHHHhcCC
Q 013323          230 MGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVY--IVMQNIRCYLHSGD  307 (445)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~--~~~~li~~~~~~g~  307 (445)
                                               -+...|+.+--+|.-.++++.+.--|......--.|+..  +|-.|-......|+
T Consensus       356 -------------------------~speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD  410 (478)
T KOG1129|consen  356 -------------------------QSPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGD  410 (478)
T ss_pred             -------------------------CChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccc
Confidence                                     344567777777888888999888887766543344432  45556666778999


Q ss_pred             hhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCC
Q 013323          308 IDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRN  360 (445)
Q Consensus       308 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~  360 (445)
                      +..|.+.|+....++-. ....++.|--    --.+.|+ +.|..++.......
T Consensus       411 ~nlA~rcfrlaL~~d~~-h~ealnNLav----L~~r~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  411 FNLAKRCFRLALTSDAQ-HGEALNNLAV----LAARSGDILGARSLLNAAKSVM  459 (478)
T ss_pred             hHHHHHHHHHHhccCcc-hHHHHHhHHH----HHhhcCchHHHHHHHHHhhhhC
Confidence            99999999988877433 3445555433    2377888 99999999877653

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

Probab=98.40  E-value=0.0006  Score=63.42  Aligned_cols=276  Identities=8%  Similarity=0.020  Sum_probs=170.6

Q ss_pred             HhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhH
Q 013323           86 TMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPV  165 (445)
Q Consensus        86 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a  165 (445)
                      |-..+++.+..++++...+.. ++....+..=|.++...|+..+-..+=.+|.+.- +-.+.+|-++---|...|..++|
T Consensus       254 ~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~k~seA  331 (611)
T KOG1173|consen  254 LYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIGKYSEA  331 (611)
T ss_pred             HHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHhcCcHHH
Confidence            344566666666666666543 3444455555556666666555554445554431 22355666666666666667777


Q ss_pred             HHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhh
Q 013323          166 YAIVRDMTAAGAGLD-KFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAE  244 (445)
Q Consensus       166 ~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (445)
                      .+.|.+...-.  |. ...|-..-+.|+-.+..  |.+...+-...+.                                
T Consensus       332 Rry~SKat~lD--~~fgpaWl~fghsfa~e~Eh--dQAmaaY~tAarl--------------------------------  375 (611)
T KOG1173|consen  332 RRYFSKATTLD--PTFGPAWLAFGHSFAGEGEH--DQAMAAYFTAARL--------------------------------  375 (611)
T ss_pred             HHHHHHHhhcC--ccccHHHHHHhHHhhhcchH--HHHHHHHHHHHHh--------------------------------
Confidence            66666554421  11 22233333334433332  4444333332221                                


Q ss_pred             HHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhC--
Q 013323          245 YVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICS--  321 (445)
Q Consensus       245 ~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--  321 (445)
                        +  .|...|..  |  +---|.+.+..+.|.++|.....  +-| |..+++-+--..-..+.+.+|..+|......  
T Consensus       376 --~--~G~hlP~L--Y--lgmey~~t~n~kLAe~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik  445 (611)
T KOG1173|consen  376 --M--PGCHLPSL--Y--LGMEYMRTNNLKLAEKFFKQALA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIK  445 (611)
T ss_pred             --c--cCCcchHH--H--HHHHHHHhccHHHHHHHHHHHHh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhh
Confidence              0  12223322  2  23347788999999999987654  556 6677777766677789999999999987633  


Q ss_pred             CCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCC
Q 013323          322 EKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITP  400 (445)
Q Consensus       322 ~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p  400 (445)
                      .+-+...+|..++.-+-++|.+.+. ++|+..+++..... +-+..++.++-..+.  ..|+++.|...|.+-.  .+.|
T Consensus       446 ~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~--llgnld~Aid~fhKaL--~l~p  520 (611)
T KOG1173|consen  446 SVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYH--LLGNLDKAIDHFHKAL--ALKP  520 (611)
T ss_pred             hccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHH--HhcChHHHHHHHHHHH--hcCC
Confidence            2223333566666655557788888 99999999988765 346777777766666  9999999999998766  6889


Q ss_pred             CHHHHHHHHhhhhc
Q 013323          401 SLPAVEAYYNGLKD  414 (445)
Q Consensus       401 ~~~~~~~l~~~~~~  414 (445)
                      +..+.+.++.-+.+
T Consensus       521 ~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  521 DNIFISELLKLAIE  534 (611)
T ss_pred             ccHHHHHHHHHHHH
Confidence            99888888865544

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.40  E-value=4.4e-07  Score=51.82  Aligned_cols=32  Identities=44%  Similarity=0.843  Sum_probs=14.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCc
Q 013323          113 VYNYLISVCGKCKNSDQAIRIFEEMKKYEVKP  144 (445)
Q Consensus       113 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p  144 (445)
                      +||++|.+|++.|+++.|.++|++|.+.|++|
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

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

Probab=98.38  E-value=0.00052  Score=63.76  Aligned_cols=302  Identities=11%  Similarity=-0.034  Sum_probs=171.1

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCC-CCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHH
Q 013323           79 FHSLIVGTMKGSRLQDTFFFRDQMKANG-FLPDVA-VYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNAC  156 (445)
Q Consensus        79 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g-~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~  156 (445)
                      |..+-..+...|+.+.+.+.+....+.. -.++.. ........+...|++++|.+++++..+.. +.|...+.. ...+
T Consensus         9 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~~   86 (355)
T cd05804           9 HAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLGA   86 (355)
T ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHHH
Confidence            4444455556677777766666655432 122322 22223334567899999999999987652 223444443 2233


Q ss_pred             HHc----CChhhHHHHHHHHHHcCCCCCH-HHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcc
Q 013323          157 AAA----GQLDPVYAIVRDMTAAGAGLDK-FCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMG  231 (445)
Q Consensus       157 ~~~----g~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  231 (445)
                      ...    +..+.+.+.+..  ..+..|+. .....+-..+...|+.  +.+...++......                  
T Consensus        87 ~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~~--~~A~~~~~~al~~~------------------  144 (355)
T cd05804          87 FGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQY--DRAEEAARRALELN------------------  144 (355)
T ss_pred             HHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCCH--HHHHHHHHHHHhhC------------------
Confidence            333    444445544443  22233443 3333444566677765  88888888776542                  


Q ss_pred             cchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCC-CCCH--HHHHHHHHHHHhcCCh
Q 013323          232 VSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRK-SPDV--YIVMQNIRCYLHSGDI  308 (445)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~~--~~~~~li~~~~~~g~~  308 (445)
                                            +.+...+..+-..+...|++++|...++...+..- .|+.  ..|..+...+...|++
T Consensus       145 ----------------------p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~  202 (355)
T cd05804         145 ----------------------PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDY  202 (355)
T ss_pred             ----------------------CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCH
Confidence                                  44566778888889999999999999998776421 2333  3455788889999999


Q ss_pred             hhHHHHHHHHHhCCC-CCCHHHH-HH---HHHhHhhcCChhhH-HHHHH---HHHHHHhCCCCCCcchhhHHHHHhhccc
Q 013323          309 DNGHKVFEDYICSEK-FPPAELY-AT---LVEGAMFGYTPKGM-QLAQD---TLVNMNSRNIFLSPRMGSDLLLVAAGEK  379 (445)
Q Consensus       309 ~~a~~~~~~m~~~~~-~p~~~~~-~~---li~~~~~~~~~~g~-~~a~~---~~~~m~~~~~~p~~~~~~~ll~~~~~~~  379 (445)
                      ++|.++|+....... .+..... +.   +..     +...|. ..+..   +...-.. ........+..+..++.+..
T Consensus       203 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-----~~~~g~~~~~~~w~~~~~~~~~-~~~~~~~~~~~~~~a~~~~~  276 (355)
T cd05804         203 EAALAIYDTHIAPSAESDPALDLLDAASLLWR-----LELAGHVDVGDRWEDLADYAAW-HFPDHGLAFNDLHAALALAG  276 (355)
T ss_pred             HHHHHHHHHHhccccCCChHHHHhhHHHHHHH-----HHhcCCCChHHHHHHHHHHHHh-hcCcccchHHHHHHHHHHhc
Confidence            999999999864422 1222211 11   111     122221 11111   1111111 11112233443444444559


Q ss_pred             CCChhhHHHHHHHHHHCCCC------CCHHHHHHHHhh--hhccCCCCCCCchhhhhhccc
Q 013323          380 SGGYTTANYIWDLMQARKIT------PSLPAVEAYYNG--LKDREVPADDPRLVVVSRAYD  432 (445)
Q Consensus       380 ~g~~~~A~~~~~~m~~~~~~------p~~~~~~~l~~~--~~~~~~~~~a~~~l~~~~~~~  432 (445)
                      .|+.+.|..+++.+......      ....+-..++.+  +...|..++|.+++.......
T Consensus       277 ~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         277 AGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             CCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            99999999999999752221      111222233444  457888889988766654433

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.

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

Probab=98.37  E-value=7.5e-06  Score=59.15  Aligned_cols=73  Identities=21%  Similarity=0.394  Sum_probs=34.5

Q ss_pred             HHhcCCChhHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHccC--------CHHHHHHHHHHHHhCCCCccHHHHHHHHHH
Q 013323           85 GTMKGSRLQDTFFFRDQMKANGF-LPDVAVYNYLISVCGKCK--------NSDQAIRIFEEMKKYEVKPNGQTYVCLLNA  155 (445)
Q Consensus        85 ~~~~~~~~~~a~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~g--------~~~~a~~~~~~m~~~g~~p~~~~y~~li~~  155 (445)
                      -|...+++.....+|+.+++.|+ .|++.+||.++.+.++..        ++-..+.+|+.|...+++|+..||+.++..
T Consensus        34 ~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~~  113 (120)
T PF08579_consen   34 SCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLGS  113 (120)
T ss_pred             HHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHH
Confidence            33344455555555555555554 445555555554444322        122344445555555555555555555544


Q ss_pred             HH
Q 013323          156 CA  157 (445)
Q Consensus       156 ~~  157 (445)
                      +.
T Consensus       114 Ll  115 (120)
T PF08579_consen  114 LL  115 (120)
T ss_pred             HH
Confidence            43

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 [, , ].

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

Probab=98.36  E-value=0.001  Score=65.87  Aligned_cols=310  Identities=10%  Similarity=0.043  Sum_probs=160.6

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHC---CCCCCHH-----H--HHHHHHHHhcCCChhHHHHHHHHHHHCCCC
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLD---GVQPTRD-----L--FHSLIVGTMKGSRLQDTFFFRDQMKANGFL  108 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---g~~p~~~-----~--~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~  108 (445)
                      +-+...|.+-......|+++.|.+.|+.-...   ...+|..     |  ||. -...-..++.+.|.++|..+.+..  
T Consensus       450 ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNl-arl~E~l~~~~~A~e~Yk~Ilkeh--  526 (1018)
T KOG2002|consen  450 IPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNL-ARLLEELHDTEVAEEMYKSILKEH--  526 (1018)
T ss_pred             CCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHH-HHHHHhhhhhhHHHHHHHHHHHHC--
Confidence            45555566666666666666666666655443   1122221     1  221 112223346666666666666532  


Q ss_pred             CCH-HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcC-CCCCHHHHHH
Q 013323          109 PDV-AVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAG-AGLDKFCYAG  186 (445)
Q Consensus       109 p~~-~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~  186 (445)
                      |+- ..|--+....-..+...+|..++....+.+ ..|+..++.+-..+.....+..|.+-|+...+.- ..+|+++.-+
T Consensus       527 p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~Yslia  605 (1018)
T KOG2002|consen  527 PGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIA  605 (1018)
T ss_pred             chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHH
Confidence            331 122222211112244556666666555432 2344455555556666666666666555554431 1244444433


Q ss_pred             HHHHHHcc----CCCc------hHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCc
Q 013323          187 LITAHTNK----IPRA------DDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRL  256 (445)
Q Consensus       187 li~~~~~~----~~~~------~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~  256 (445)
                      |=+.|...    .+..      .+.|.++|..+.+..                                        +.|
T Consensus       606 LGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d----------------------------------------pkN  645 (1018)
T KOG2002|consen  606 LGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND----------------------------------------PKN  645 (1018)
T ss_pred             hhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC----------------------------------------cch
Confidence            33322211    1100      122333333322221                                        344


Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC-CCCCCHHHHHHHHH
Q 013323          257 LTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICS-EKFPPAELYATLVE  335 (445)
Q Consensus       257 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~  335 (445)
                      ...=|-+--.++..|++..|..||....+... -+.-+|-.+-..|...|++-.|.++|+...+. .-.-+....+.|-+
T Consensus       646 ~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lar  724 (1018)
T KOG2002|consen  646 MYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLAR  724 (1018)
T ss_pred             hhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHH
Confidence            44455556667778888888888888877543 23345666788888888888888888876655 43445555555555


Q ss_pred             hHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhh----------------cccCCChhhHHHHHHHHHHCC
Q 013323          336 GAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAA----------------GEKSGGYTTANYIWDLMQARK  397 (445)
Q Consensus       336 ~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~----------------~~~~g~~~~A~~~~~~m~~~~  397 (445)
                          ++-+.|. .++.+.+.........-..+.||..+...-                ....+..+.|.++|..|...+
T Consensus       725 ----a~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~  799 (1018)
T KOG2002|consen  725 ----AWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNG  799 (1018)
T ss_pred             ----HHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence                5666666 777776666555433222233443321111                113456677888888887543

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

Probab=98.36  E-value=0.00066  Score=69.55  Aligned_cols=129  Identities=6%  Similarity=0.011  Sum_probs=57.2

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPT-----RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYN  115 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~  115 (445)
                      ...|-..|....+.+..+.|.+++++.... |.+.     ...|.++++.---.|.-+...++|++..+..  -...+|.
T Consensus      1458 Si~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~~ 1534 (1710)
T KOG1070|consen 1458 SILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVHL 1534 (1710)
T ss_pred             chHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHHH
Confidence            334444455555555555555555444331 1111     1134444444444444444455555544431  1123344


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhC-CCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          116 YLISVCGKCKNSDQAIRIFEEMKKY-EVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       116 ~ll~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      .|...|.+.+..++|.++|+.|.+. |  -....|...+..+.+..+-+.|..++.+..+
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~ 1592 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALK 1592 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            4555555555555555555555432 2  2334444455555554444445554444433

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.35  E-value=0.00068  Score=60.96  Aligned_cols=201  Identities=9%  Similarity=0.000  Sum_probs=138.8

Q ss_pred             hhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHH
Q 013323           42 SEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLP-DVAVYNYLISV  120 (445)
Q Consensus        42 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~  120 (445)
                      ..|..+-..+.+.|+++.|...|++..+.. +.+...|+.+-..+...|++++|...|+...+..  | +..+|..+..+
T Consensus        65 ~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~--P~~~~a~~~lg~~  141 (296)
T PRK11189         65 QLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELD--PTYNYAYLNRGIA  141 (296)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHH
Confidence            446666677889999999999999988754 2356789999999999999999999999999854  5 46788888899


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchH
Q 013323          121 CGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADD  200 (445)
Q Consensus       121 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~  200 (445)
                      +...|++++|.+.|+...+.  .|+..........+...++.++|...|++..... .|+...+ .+...  ..|+.  .
T Consensus       142 l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~~~~~~~-~~~~~--~lg~~--~  213 (296)
T PRK11189        142 LYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKL-DKEQWGW-NIVEF--YLGKI--S  213 (296)
T ss_pred             HHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-CccccHH-HHHHH--HccCC--C
Confidence            99999999999999998875  3543322222333445678999999997755432 3332222 22222  23443  2


Q ss_pred             HHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHH
Q 013323          201 TATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLL  280 (445)
Q Consensus       201 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~  280 (445)
                      .. ..++.+.....-...                                 ..+.....|..+-..+.+.|+.++|...|
T Consensus       214 ~~-~~~~~~~~~~~~~~~---------------------------------l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~  259 (296)
T PRK11189        214 EE-TLMERLKAGATDNTE---------------------------------LAERLCETYFYLAKYYLSLGDLDEAAALF  259 (296)
T ss_pred             HH-HHHHHHHhcCCCcHH---------------------------------HHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            22 244443321100000                                 00223457888999999999999999999


Q ss_pred             HHHHhCC
Q 013323          281 EMLKKDR  287 (445)
Q Consensus       281 ~~m~~~~  287 (445)
                      +......
T Consensus       260 ~~Al~~~  266 (296)
T PRK11189        260 KLALANN  266 (296)
T ss_pred             HHHHHhC
Confidence            9988654

>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=98.34  E-value=3.5e-05  Score=68.36  Aligned_cols=223  Identities=12%  Similarity=0.030  Sum_probs=118.8

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHH
Q 013323           44 YNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLP-DVAVYNYLISVCG  122 (445)
Q Consensus        44 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~  122 (445)
                      .--+.+++.-.|+.+.++   .+..... .|.......+...+...++-+.+..-+++.......+ +....-..-..+.
T Consensus        38 ~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~  113 (290)
T PF04733_consen   38 DFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILF  113 (290)
T ss_dssp             HHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHH
Confidence            344566777777765433   4443333 5666665555554544344455544444433333222 2222222224456


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHc--cCCCchH
Q 013323          123 KCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTN--KIPRADD  200 (445)
Q Consensus       123 ~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~--~~~~~~~  200 (445)
                      ..|++++|++++..-      .+.......+..+.+.++++.|.+.++.|.+..  .| .+...+..++..  .|.....
T Consensus       114 ~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD-~~l~qLa~awv~l~~g~e~~~  184 (290)
T PF04733_consen  114 HEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--ED-SILTQLAEAWVNLATGGEKYQ  184 (290)
T ss_dssp             CCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CC-HHHHHHHHHHHHHHHTTTCCC
T ss_pred             HcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--Cc-HHHHHHHHHHHHHHhCchhHH
Confidence            678888888777642      356667778888888888888888888887653  23 333334444332  2222235


Q ss_pred             HHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHH
Q 013323          201 TATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLL  280 (445)
Q Consensus       201 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~  280 (445)
                      .|..+|+.+.+..                                        .++..+.+.+..+....|++++|..++
T Consensus       185 ~A~y~f~El~~~~----------------------------------------~~t~~~lng~A~~~l~~~~~~eAe~~L  224 (290)
T PF04733_consen  185 DAFYIFEELSDKF----------------------------------------GSTPKLLNGLAVCHLQLGHYEEAEELL  224 (290)
T ss_dssp             HHHHHHHHHHCCS------------------------------------------SHHHHHHHHHHHHHCT-HHHHHHHH
T ss_pred             HHHHHHHHHHhcc----------------------------------------CCCHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            6666666655431                                        344555666666666677777777766


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCh-hhHHHHHHHHHh
Q 013323          281 EMLKKDRKSPDVYIVMQNIRCYLHSGDI-DNGHKVFEDYIC  320 (445)
Q Consensus       281 ~~m~~~~~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~  320 (445)
                      .+..+.. +-|..+...+|......|+. +.+.+.+..+..
T Consensus       225 ~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  225 EEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             HHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             HHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            6654332 12344555566666666655 445556665554

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.

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

Probab=98.33  E-value=6.9e-06  Score=59.33  Aligned_cols=80  Identities=15%  Similarity=0.332  Sum_probs=69.8

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHCCC-CCCHHHHHHHHHHHhcCC--------ChhHHHHHHHHHHHCCCCCCHHHH
Q 013323           44 YNTVVTSLTSQRRFFLLRDVYDDMMLDGV-QPTRDLFHSLIVGTMKGS--------RLQDTFFFRDQMKANGFLPDVAVY  114 (445)
Q Consensus        44 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~m~~~g~~p~~~~~  114 (445)
                      -...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        .+...+.+|++|...+++|+..||
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etY  107 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHH
Confidence            34567777888999999999999999999 999999999999877542        355678899999999999999999


Q ss_pred             HHHHHHHHc
Q 013323          115 NYLISVCGK  123 (445)
Q Consensus       115 ~~ll~~~~~  123 (445)
                      |.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            999998765

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 [, , ].

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

Probab=98.29  E-value=0.0015  Score=64.69  Aligned_cols=140  Identities=4%  Similarity=-0.027  Sum_probs=74.0

Q ss_pred             HHhcCCCCChhhHH--HHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCC----ChhHHHHHHHHHHHC
Q 013323           32 YARRNYANNASEYN--TVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGS----RLQDTFFFRDQMKAN  105 (445)
Q Consensus        32 ~~~~~~~p~~~~~~--~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~----~~~~a~~~~~~m~~~  105 (445)
                      |......|+-+.++  -+-..+...|+.+.+...|+...+.. +-+..|..+|-..|+..+    ..+.|..++....+.
T Consensus       331 ~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~  409 (1018)
T KOG2002|consen  331 MESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQ  409 (1018)
T ss_pred             HHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhc
Confidence            34444456654443  34567777888888888887776642 223445555555555443    334444444444432


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHH----HHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          106 GFLPDVAVYNYLISVCGKCKNSDQAIRIFEE----MKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       106 g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~----m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      - +.|...|-.+-..+-. +++-.++.+|..    +...+-.+..+..|.+-......|++++|...|+....
T Consensus       410 ~-~~d~~a~l~laql~e~-~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~  480 (1018)
T KOG2002|consen  410 T-PVDSEAWLELAQLLEQ-TDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALG  480 (1018)
T ss_pred             c-cccHHHHHHHHHHHHh-cChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhh
Confidence            2 2344455444444433 333333444432    23334445566666666666666666666666666544

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.26  E-value=0.00066  Score=58.10  Aligned_cols=294  Identities=14%  Similarity=0.083  Sum_probs=178.4

Q ss_pred             hhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHH-HH
Q 013323           42 SEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQP-TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYL-IS  119 (445)
Q Consensus        42 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l-l~  119 (445)
                      .-+++.|.-+.+..++++|.+++....+..  | +......|-..|-...++..|-..|+++...-  |...-|..- -.
T Consensus        11 Geftaviy~lI~d~ry~DaI~~l~s~~Er~--p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY~AQ   86 (459)
T KOG4340|consen   11 GEFTAVVYRLIRDARYADAIQLLGSELERS--PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLYQAQ   86 (459)
T ss_pred             CchHHHHHHHHHHhhHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHHH
Confidence            346777888888999999999988776653  4 67777888888888899999999999988753  554444321 23


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHH--cCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCC
Q 013323          120 VCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA--AGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPR  197 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~--~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~  197 (445)
                      .+-+.+.+..|+++...|...   |+...-..-+.+..+  .+++..+..+.++....|   +..+.+..---..+.|..
T Consensus        87 SLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqy  160 (459)
T KOG4340|consen   87 SLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQY  160 (459)
T ss_pred             HHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccH
Confidence            445667788888888888752   333333333333333  567777777777665433   111111111112344544


Q ss_pred             chHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHH
Q 013323          198 ADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAME  277 (445)
Q Consensus       198 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~  277 (445)
                        +.|.+-|+...+.+++++                                       ...||..+..|.+ |+.+.|.
T Consensus       161 --EaAvqkFqaAlqvsGyqp---------------------------------------llAYniALaHy~~-~qyasAL  198 (459)
T KOG4340|consen  161 --EAAVQKFQAALQVSGYQP---------------------------------------LLAYNLALAHYSS-RQYASAL  198 (459)
T ss_pred             --HHHHHHHHHHHhhcCCCc---------------------------------------hhHHHHHHHHHhh-hhHHHHH
Confidence              677777766665554432                                       2358777766654 7778888


Q ss_pred             HHHHHHHhCCCC-------------CCHH--------HHHHHHHH-------HHhcCChhhHHHHHHHHHhC-CCCCCHH
Q 013323          278 TLLEMLKKDRKS-------------PDVY--------IVMQNIRC-------YLHSGDIDNGHKVFEDYICS-EKFPPAE  328 (445)
Q Consensus       278 ~~~~~m~~~~~~-------------p~~~--------~~~~li~~-------~~~~g~~~~a~~~~~~m~~~-~~~p~~~  328 (445)
                      +...++.+.|++             ||+.        .-+.++.+       +.+.|+.+.|.+.+.+|..+ .-..|+.
T Consensus       199 k~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPv  278 (459)
T KOG4340|consen  199 KHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPV  278 (459)
T ss_pred             HHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCch
Confidence            888888776652             2211        12333333       35678888898888888765 4455666


Q ss_pred             HHHHHHHhHhhcCChhhHHHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHH
Q 013323          329 LYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQ  394 (445)
Q Consensus       329 ~~~~li~~~~~~~~~~g~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~  394 (445)
                      |...+--.-  .-.+-+.  ..+-+.-+.+.+. ..+.||..++..|+  |..-++.|-.++.+=.
T Consensus       279 TLHN~Al~n--~~~~p~~--g~~KLqFLL~~nP-fP~ETFANlLllyC--KNeyf~lAADvLAEn~  337 (459)
T KOG4340|consen  279 TLHNQALMN--MDARPTE--GFEKLQFLLQQNP-FPPETFANLLLLYC--KNEYFDLAADVLAENA  337 (459)
T ss_pred             hhhHHHHhc--ccCCccc--cHHHHHHHHhcCC-CChHHHHHHHHHHh--hhHHHhHHHHHHhhCc
Confidence            665543210  1122222  1222222333332 34568888777665  8888888888876543

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

Probab=98.25  E-value=2.3e-05  Score=72.31  Aligned_cols=125  Identities=8%  Similarity=0.045  Sum_probs=108.9

Q ss_pred             CCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHH
Q 013323           70 DGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN--GFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQ  147 (445)
Q Consensus        70 ~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  147 (445)
                      .+.+.+......+++.+....+++.+..++-.....  ....-..|..++|+.|.+.|..+.++.+++.=...|+-||..
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~  139 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNF  139 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChh
Confidence            455667888999999999999999999999888865  333334566799999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 013323          148 TYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNK  194 (445)
Q Consensus       148 ~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  194 (445)
                      |+|.+|..+.+.|++..|.++..+|...+...+..|+...+.+|.+.
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            99999999999999999999999999887777888888888877765

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 [].

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

Probab=98.23  E-value=0.004  Score=56.96  Aligned_cols=131  Identities=14%  Similarity=0.136  Sum_probs=90.7

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHH
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRD-LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNY  116 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  116 (445)
                      ..+...|-..+.+=.++..+..|..+|+.....  -|-+. .|-..+..=-..|++..|.++|+.-.+  ..|+...|++
T Consensus       104 ~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ymEE~LgNi~gaRqiferW~~--w~P~eqaW~s  179 (677)
T KOG1915|consen  104 YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYMEEMLGNIAGARQIFERWME--WEPDEQAWLS  179 (677)
T ss_pred             cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHHHHHhcccHHHHHHHHHHHc--CCCcHHHHHH
Confidence            456666666777777777888888888776653  23322 233334444455788888888877665  3588888888


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          117 LISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       117 ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      .|+.=.+-..++.|..+|++..-  +.|+..+|--...-=-+.|+...+..+|....+
T Consensus       180 fI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie  235 (677)
T KOG1915|consen  180 FIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIE  235 (677)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            88887777888888888887765  357777777777777777777777777776655

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

Probab=98.22  E-value=0.0043  Score=57.00  Aligned_cols=53  Identities=4%  Similarity=-0.063  Sum_probs=34.4

Q ss_pred             HHHHhcCcHhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCChhHHHHHHHHHH
Q 013323           49 TSLTSQRRFFLLRDVYDDMMLDGVQPT-RDLFHSLIVGTMKGSRLQDTFFFRDQMK  103 (445)
Q Consensus        49 ~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~  103 (445)
                      .-|.++|++++|+..|.+-...  .|| ..-|...-.+|...|+|+.+.+-=....
T Consensus       123 N~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkAL  176 (606)
T KOG0547|consen  123 NKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKAL  176 (606)
T ss_pred             hhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHh
Confidence            4566777888888888877663  466 4556666666677777776655443333

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

Probab=98.19  E-value=2e-05  Score=72.67  Aligned_cols=124  Identities=17%  Similarity=0.132  Sum_probs=107.3

Q ss_pred             CCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHC--CCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHH
Q 013323           36 NYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLD--GVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAV  113 (445)
Q Consensus        36 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~  113 (445)
                      ....+......+++.+....+++.+..++-..+..  ....-..|.+++++.|.+.|..+.+..++..=...|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            33556667777888888888999999999988875  3333345678999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHc
Q 013323          114 YNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAA  159 (445)
Q Consensus       114 ~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~  159 (445)
                      +|.||+.+.+.|++..|.++...|...+...+..|+...+.+|.+-
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            9999999999999999999999998888778888988888888776

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 [].

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.18  E-value=0.00061  Score=58.32  Aligned_cols=292  Identities=10%  Similarity=-0.035  Sum_probs=177.3

Q ss_pred             HHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHH-HHHH
Q 013323           77 DLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVC-LLNA  155 (445)
Q Consensus        77 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~-li~~  155 (445)
                      .-+.+.+..+.+..+++.|.+++..-.++. +.+....+.|-.+|-+..++..|-.-|+++...  .|-..-|.. -...
T Consensus        11 Geftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQS   87 (459)
T KOG4340|consen   11 GEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQS   87 (459)
T ss_pred             CchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHH
Confidence            345666666777788888888888777764 126677777888888888888888888888764  455544443 2345


Q ss_pred             HHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchh
Q 013323          156 CAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKE  235 (445)
Q Consensus       156 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  235 (445)
                      +-+.+.+..|+.+...|...   |+...-..-+.+-.+-...+.-.++.+.+....                        
T Consensus        88 LY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~------------------------  140 (459)
T KOG4340|consen   88 LYKACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPS------------------------  140 (459)
T ss_pred             HHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccC------------------------
Confidence            56677788888887777653   222222222222222211122334444433221                        


Q ss_pred             hhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChhhHHHH
Q 013323          236 ELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKD-RKSPDVYIVMQNIRCYLHSGDIDNGHKV  314 (445)
Q Consensus       236 ~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~  314 (445)
                                        ..+..+.+..-...-+.|+++.|.+-|+...+. |..| ...||.-+ +..+.|+.+.|++.
T Consensus       141 ------------------en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqp-llAYniAL-aHy~~~qyasALk~  200 (459)
T KOG4340|consen  141 ------------------ENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQP-LLAYNLAL-AHYSSRQYASALKH  200 (459)
T ss_pred             ------------------CCccchhccchheeeccccHHHHHHHHHHHHhhcCCCc-hhHHHHHH-HHHhhhhHHHHHHH
Confidence                              112223333334456789999999999987765 5555 55677544 45567899999999


Q ss_pred             HHHHHhCCCC-------------CCHH--------HHHHHHHhHh---hcCChhhH-HHHHHHHHHHHhC-CCCCCcchh
Q 013323          315 FEDYICSEKF-------------PPAE--------LYATLVEGAM---FGYTPKGM-QLAQDTLVNMNSR-NIFLSPRMG  368 (445)
Q Consensus       315 ~~~m~~~~~~-------------p~~~--------~~~~li~~~~---~~~~~~g~-~~a~~~~~~m~~~-~~~p~~~~~  368 (445)
                      ..++.++|++             ||+.        +-+.++.++-   .-+.+.|. +.|.+-+-+|.-+ .-..|++|.
T Consensus       201 iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTL  280 (459)
T KOG4340|consen  201 ISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTL  280 (459)
T ss_pred             HHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhh
Confidence            9999987762             3322        2344444321   12345555 7788888888533 345688888


Q ss_pred             hHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccCCCCCCC
Q 013323          369 SDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDP  422 (445)
Q Consensus       369 ~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  422 (445)
                      ..+...-.   .+++.+..+-+.-+....- -..+||.-++--||+....+-|.
T Consensus       281 HN~Al~n~---~~~p~~g~~KLqFLL~~nP-fP~ETFANlLllyCKNeyf~lAA  330 (459)
T KOG4340|consen  281 HNQALMNM---DARPTEGFEKLQFLLQQNP-FPPETFANLLLLYCKNEYFDLAA  330 (459)
T ss_pred             hHHHHhcc---cCCccccHHHHHHHHhcCC-CChHHHHHHHHHHhhhHHHhHHH
Confidence            77765553   4555444444444444332 35678888888888876655444

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

Probab=98.17  E-value=2.2e-06  Score=47.64  Aligned_cols=29  Identities=34%  Similarity=0.520  Sum_probs=15.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 013323          113 VYNYLISVCGKCKNSDQAIRIFEEMKKYE  141 (445)
Q Consensus       113 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g  141 (445)
                      +||++|++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555555555555555555555555444

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.

>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=98.13  E-value=4.7e-05  Score=62.30  Aligned_cols=101  Identities=21%  Similarity=0.232  Sum_probs=66.9

Q ss_pred             CCHHHHHHHHHHHh-----cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC----------------CHHHHHH
Q 013323           74 PTRDLFHSLIVGTM-----KGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCK----------------NSDQAIR  132 (445)
Q Consensus        74 p~~~~~~~ll~~~~-----~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g----------------~~~~a~~  132 (445)
                      .|..+|..++..+.     +.|..+-....+..|.+-|+.-|..+|+.||+.+=+..                +-+-|++
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            46667777766665     34777777788888888888888888888888776522                2345666


Q ss_pred             HHHHHHhCCCCccHHHHHHHHHHHHHcCCh-hhHHHHHHHHHH
Q 013323          133 IFEEMKKYEVKPNGQTYVCLLNACAAAGQL-DPVYAIVRDMTA  174 (445)
Q Consensus       133 ~~~~m~~~g~~p~~~~y~~li~~~~~~g~~-~~a~~~~~~m~~  174 (445)
                      ++++|...|+.||..|+..+++.+++.+.. .+...++-.|.+
T Consensus       125 lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rmmYWmpk  167 (228)
T PF06239_consen  125 LLEQMENNGVMPDKETEQMLLNIFGRKSHPMKKYRRMMYWMPK  167 (228)
T ss_pred             HHHHHHHcCCCCcHHHHHHHHHHhccccHHHHHHHHHHHHHHH
Confidence            777777777777777777777777665543 334444444433

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

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

Probab=98.12  E-value=3.9e-06  Score=46.60  Aligned_cols=31  Identities=23%  Similarity=0.459  Sum_probs=22.0

Q ss_pred             hhHHHHHHHHHhcCcHhHHHHHHHHHHHCCC
Q 013323           42 SEYNTVVTSLTSQRRFFLLRDVYDDMMLDGV   72 (445)
Q Consensus        42 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~   72 (445)
                      ++||++|++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3677777777777777777777777776653

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.

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

Probab=98.09  E-value=0.004  Score=51.59  Aligned_cols=162  Identities=12%  Similarity=-0.061  Sum_probs=105.1

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013323           44 YNTVVTSLTSQRRFFLLRDVYDDMMLDGVQP-TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCG  122 (445)
Q Consensus        44 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  122 (445)
                      .--|--.|.+.|+...|..-+++-.+..  | +..+|..+-..|-+.|..+.|.+-|+...+.. +-+..+.|..-..+|
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~D--Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHD--PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            3345567777888888888887777653  4 34467777777788888888888888777654 234566777777777


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHH
Q 013323          123 KCKNSDQAIRIFEEMKKYEVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDT  201 (445)
Q Consensus       123 ~~g~~~~a~~~~~~m~~~g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~  201 (445)
                      ..|++++|...|++-.....-| -..||..+.-+..+.|+.+.|.+.|++-.+..- -...+.-.+.....+.|+.  ..
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp-~~~~~~l~~a~~~~~~~~y--~~  191 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDP-QFPPALLELARLHYKAGDY--AP  191 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCc-CCChHHHHHHHHHHhcccc--hH
Confidence            7888888888887776642212 255777777777788888888888877766421 1223344444444455544  44


Q ss_pred             HHHHHHHHHH
Q 013323          202 ATKIIELVEQ  211 (445)
Q Consensus       202 a~~~~~~~~~  211 (445)
                      |...++....
T Consensus       192 Ar~~~~~~~~  201 (250)
T COG3063         192 ARLYLERYQQ  201 (250)
T ss_pred             HHHHHHHHHh
Confidence            5555555444

>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=98.08  E-value=7.3e-05  Score=66.38  Aligned_cols=248  Identities=10%  Similarity=0.041  Sum_probs=117.3

Q ss_pred             HHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHH
Q 013323           51 LTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQA  130 (445)
Q Consensus        51 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a  130 (445)
                      +.=.|++..++.-.+ .....-+.+......+.+++...|..+.+   ..++.+.. .|.......+...+....+-+.+
T Consensus        11 ~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~v---l~ei~~~~-~~~l~av~~la~y~~~~~~~e~~   85 (290)
T PF04733_consen   11 QFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSV---LSEIKKSS-SPELQAVRLLAEYLSSPSDKESA   85 (290)
T ss_dssp             HHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHH---HHHS-TTS-SCCCHHHHHHHHHHCTSTTHHCH
T ss_pred             HHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHH---HHHhccCC-ChhHHHHHHHHHHHhCccchHHH
Confidence            334566666664444 22221112233444555666666665543   33443333 45555554444333322333444


Q ss_pred             HHHHHHHHhCCCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHH
Q 013323          131 IRIFEEMKKYEVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELV  209 (445)
Q Consensus       131 ~~~~~~m~~~g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~  209 (445)
                      ..-+++....+..+ +.......-..+...|++++|++++..-      .+.......+..+.+.++.  +.|.+.++.|
T Consensus        86 l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~--dlA~k~l~~~  157 (290)
T PF04733_consen   86 LEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRP--DLAEKELKNM  157 (290)
T ss_dssp             HHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-H--HHHHHHHHHH
T ss_pred             HHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCH--HHHHHHHHHH
Confidence            44333333222221 2222222223344467777777766532      2455555666666666665  6677777766


Q ss_pred             HHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHh----cccHHHHHHHHHHHHh
Q 013323          210 EQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAE----LKDVQAMETLLEMLKK  285 (445)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~  285 (445)
                      .+..                                         .| .+...+..++..    .+.+.+|..+|+++.+
T Consensus       158 ~~~~-----------------------------------------eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~  195 (290)
T PF04733_consen  158 QQID-----------------------------------------ED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSD  195 (290)
T ss_dssp             HCCS-----------------------------------------CC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC
T ss_pred             HhcC-----------------------------------------Cc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHh
Confidence            6431                                         12 122223333322    2346777777777654


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH--HHHHHHHHHHHhC
Q 013323          286 DRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM--QLAQDTLVNMNSR  359 (445)
Q Consensus       286 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~--~~a~~~~~~m~~~  359 (445)
                      . ..++..+.|.+..++...|++++|.+++.+.....-. ++.+...++.+    ....|.  +.+.+.+.++...
T Consensus       196 ~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~-~~d~LaNliv~----~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  196 K-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN-DPDTLANLIVC----SLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             C-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC-HHHHHHHHHHH----HHHTT-TCHHHHHHHHHCHHH
T ss_pred             c-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC-CHHHHHHHHHH----HHHhCCChhHHHHHHHHHHHh
Confidence            3 4556667777777777777777777777765544221 33333334331    222232  4556666666553

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.

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

Probab=98.07  E-value=0.00059  Score=69.91  Aligned_cols=236  Identities=10%  Similarity=0.062  Sum_probs=163.4

Q ss_pred             HHHHHHHHHHHhCCCCcc-HHHHHHHHHHHHHcCChhhHHHHHHHHHHc-CCCCC---HHHHHHHHHHHHccCCCchHHH
Q 013323          128 DQAIRIFEEMKKYEVKPN-GQTYVCLLNACAAAGQLDPVYAIVRDMTAA-GAGLD---KFCYAGLITAHTNKIPRADDTA  202 (445)
Q Consensus       128 ~~a~~~~~~m~~~g~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~---~~~~~~li~~~~~~~~~~~~~a  202 (445)
                      +.|.++-+....   .|| +..|-.-|.-....++.++|.++.++.... ++.-.   ...|.++++.-...|.  .+..
T Consensus      1442 esaeDferlvrs---sPNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~--eesl 1516 (1710)
T KOG1070|consen 1442 ESAEDFERLVRS---SPNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGT--EESL 1516 (1710)
T ss_pred             cCHHHHHHHHhc---CCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCc--HHHH
Confidence            345554444443   244 567888888889999999999999888764 23222   2345555554444443  3788


Q ss_pred             HHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHH
Q 013323          203 TKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEM  282 (445)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  282 (445)
                      .++|++..+-                                         ......|..|..-|.+.+..++|-++++.
T Consensus      1517 ~kVFeRAcqy-----------------------------------------cd~~~V~~~L~~iy~k~ek~~~A~ell~~ 1555 (1710)
T KOG1070|consen 1517 KKVFERACQY-----------------------------------------CDAYTVHLKLLGIYEKSEKNDEADELLRL 1555 (1710)
T ss_pred             HHHHHHHHHh-----------------------------------------cchHHHHHHHHHHHHHhhcchhHHHHHHH
Confidence            8899887763                                         22335688899999999999999999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCC
Q 013323          283 LKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNI  361 (445)
Q Consensus       283 m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~  361 (445)
                      |.++ +.-...+|...+..+.+..+-+.|..++.+..+.  -|...+...+=... .--.+.|+ +.+..+|+...... 
T Consensus      1556 m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfA-qLEFk~GDaeRGRtlfEgll~ay- 1630 (1710)
T KOG1070|consen 1556 MLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFA-QLEFKYGDAERGRTLFEGLLSAY- 1630 (1710)
T ss_pred             HHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHH-HHHhhcCCchhhHHHHHHHHhhC-
Confidence            9875 2256678888899999999999999999887765  23322222221110 02356777 88999999887764 


Q ss_pred             CCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHH--HHHHHHhhhhccC
Q 013323          362 FLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLP--AVEAYYNGLKDRE  416 (445)
Q Consensus       362 ~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~--~~~~l~~~~~~~~  416 (445)
                      +--...|+..|.+-.  ++|+.+.++.+|++....++.|-.-  .|..+++-=.+.|
T Consensus      1631 PKRtDlW~VYid~ei--k~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~G 1685 (1710)
T KOG1070|consen 1631 PKRTDLWSVYIDMEI--KHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHG 1685 (1710)
T ss_pred             ccchhHHHHHHHHHH--ccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcC
Confidence            224578999999998  9999999999999999888877543  3444444333334

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

Probab=98.04  E-value=0.0015  Score=59.77  Aligned_cols=226  Identities=13%  Similarity=0.035  Sum_probs=161.3

Q ss_pred             hcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 013323           53 SQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIR  132 (445)
Q Consensus        53 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~  132 (445)
                      -.|+.-.|.+-|+...+..-.++ ..|..+-.+|.+..+.++.++.|+...+.+ +-|..+|..--..+.-.+++++|..
T Consensus       338 L~g~~~~a~~d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~a  415 (606)
T KOG0547|consen  338 LKGDSLGAQEDFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIA  415 (606)
T ss_pred             hcCCchhhhhhHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHH
Confidence            35777888888888877543333 227777888999999999999999998865 2356677777777777889999999


Q ss_pred             HHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHh
Q 013323          133 IFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQS  212 (445)
Q Consensus       133 ~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~  212 (445)
                      =|++.....- -+...|--+--+.-|.+++++++..|++.+++ ++-.+.+|+..-..+...++.  +.|.+.++.....
T Consensus       416 DF~Kai~L~p-e~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqF--d~A~k~YD~ai~L  491 (606)
T KOG0547|consen  416 DFQKAISLDP-ENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQF--DKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHHhhcCh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhH--HHHHHHHHHHHhh
Confidence            9999887431 23555666666667889999999999999886 444577888888888887766  8898888876654


Q ss_pred             cCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHH-HHHHHHHHhcccHHHHHHHHHHHHhCCCCC-
Q 013323          213 KGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVY-HVAFHACAELKDVQAMETLLEMLKKDRKSP-  290 (445)
Q Consensus       213 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-  290 (445)
                      ..-...+                                  ..+...+ +-.+-.+.-.+++..|.++++...+  +.| 
T Consensus       492 E~~~~~~----------------------------------~v~~~plV~Ka~l~~qwk~d~~~a~~Ll~KA~e--~Dpk  535 (606)
T KOG0547|consen  492 EPREHLI----------------------------------IVNAAPLVHKALLVLQWKEDINQAENLLRKAIE--LDPK  535 (606)
T ss_pred             ccccccc----------------------------------cccchhhhhhhHhhhchhhhHHHHHHHHHHHHc--cCch
Confidence            3211100                                  0111111 1111111233889999999998776  445 


Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 013323          291 DVYIVMQNIRCYLHSGDIDNGHKVFEDYIC  320 (445)
Q Consensus       291 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  320 (445)
                      ....|..|-..-...|++++|+++|++-..
T Consensus       536 ce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  536 CEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            445788899999999999999999997654

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

Probab=98.03  E-value=0.0058  Score=54.94  Aligned_cols=149  Identities=9%  Similarity=-0.034  Sum_probs=89.5

Q ss_pred             HHHHhcccHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCCh
Q 013323          265 HACAELKDVQAMETLLEMLKKDRKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTP  343 (445)
Q Consensus       265 ~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~  343 (445)
                      ..+...+++++|.--|.....  +.| +...|.-|+..|...|++.+|.-+-+...+. ..-+..+.+.+ .+.......
T Consensus       342 ~lL~~~~R~~~A~IaFR~Aq~--Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~-g~~V~~~dp  417 (564)
T KOG1174|consen  342 RLLIALERHTQAVIAFRTAQM--LAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLF-GTLVLFPDP  417 (564)
T ss_pred             HHHHhccchHHHHHHHHHHHh--cchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhh-cceeeccCc
Confidence            345667788888877777654  454 6778888999998888888887766654443 12233333322 111114555


Q ss_pred             hhHHHHHHHHHHHHhCCCCCCcc-hhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccCCCCCCC
Q 013323          344 KGMQLAQDTLVNMNSRNIFLSPR-MGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDP  422 (445)
Q Consensus       344 ~g~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  422 (445)
                      .++++|.+++++-...  .|+.. ..+.+...+.  ..|..+.++.++++-..  ..||...-+.|-+-+.-.+.+.+++
T Consensus       418 ~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~--~Eg~~~D~i~LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am  491 (564)
T KOG1174|consen  418 RMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQ--VEGPTKDIIKLLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAM  491 (564)
T ss_pred             hhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHH--hhCccchHHHHHHHHHh--hccccHHHHHHHHHHHHhhhHHHHH
Confidence            6668888877765543  24322 2222333343  77888888888877653  4567666666655555555554444


Q ss_pred             c
Q 013323          423 R  423 (445)
Q Consensus       423 ~  423 (445)
                      .
T Consensus       492 ~  492 (564)
T KOG1174|consen  492 E  492 (564)
T ss_pred             H
Confidence            3

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.02  E-value=0.00039  Score=67.37  Aligned_cols=317  Identities=13%  Similarity=0.096  Sum_probs=184.2

Q ss_pred             ceeecchHHHHHHhcCC--CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHC-C--------CCCCHHHHHHHHHHHhcC
Q 013323           21 RFFVTSAGAEEYARRNY--ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLD-G--------VQPTRDLFHSLIVGTMKG   89 (445)
Q Consensus        21 ~~~~~~~~~~~~~~~~~--~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-g--------~~p~~~~~~~ll~~~~~~   89 (445)
                      .+|+. .|..+++-+.+  -.+-..|..+.+.|.+..+++-|.-.+-.|.+. |        -.|+ .+=..+--.....
T Consensus       736 Sfyvt-iG~MD~AfksI~~IkS~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieL  813 (1416)
T KOG3617|consen  736 SFYVT-IGSMDAAFKSIQFIKSDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIEL  813 (1416)
T ss_pred             eEEEE-eccHHHHHHHHHHHhhhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHH
Confidence            34444 47778877766  478889999999999999999998888887652 1        1232 2222222234567


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHH
Q 013323           90 SRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIV  169 (445)
Q Consensus        90 ~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~  169 (445)
                      |.+++|+.+|.+.+..+         .|=+.|-..|.+++|+++-+.--.--+   ..||..-..-+-..++.+.|++.|
T Consensus       814 gMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~Aleyy  881 (1416)
T KOG3617|consen  814 GMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAALEYY  881 (1416)
T ss_pred             hhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHHHHH
Confidence            89999999999888743         233455568899999988765433222   245555555556677788877777


Q ss_pred             HHHHHcCC-------------------CCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhc
Q 013323          170 RDMTAAGA-------------------GLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMM  230 (445)
Q Consensus       170 ~~m~~~g~-------------------~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  230 (445)
                      ++-....+                   ..|...|...-..+-..|+.  +.|..+++..+                    
T Consensus       882 EK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~Gem--daAl~~Y~~A~--------------------  939 (1416)
T KOG3617|consen  882 EKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEM--DAALSFYSSAK--------------------  939 (1416)
T ss_pred             HhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccch--HHHHHHHHHhh--------------------
Confidence            65321100                   01222222222222223322  33333333222                    


Q ss_pred             ccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhh
Q 013323          231 GVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDN  310 (445)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  310 (445)
                                                  -|-+++...|-.|+.++|-+|-++-      -|....-.|-+.|-..|++.+
T Consensus       940 ----------------------------D~fs~VrI~C~qGk~~kAa~iA~es------gd~AAcYhlaR~YEn~g~v~~  985 (1416)
T KOG3617|consen  940 ----------------------------DYFSMVRIKCIQGKTDKAARIAEES------GDKAACYHLARMYENDGDVVK  985 (1416)
T ss_pred             ----------------------------hhhhheeeEeeccCchHHHHHHHhc------ccHHHHHHHHHHhhhhHHHHH
Confidence                                        2556666677788888888887652      244444458888999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH----------------HHHHHHHHHHHhCCCCCCcchhhHHHHH
Q 013323          311 GHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM----------------QLAQDTLVNMNSRNIFLSPRMGSDLLLV  374 (445)
Q Consensus       311 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~----------------~~a~~~~~~m~~~~~~p~~~~~~~ll~~  374 (445)
                      |...|.+..         +|...|+    -|..++.                -.|...|++   .|..     +...+..
T Consensus       986 Av~FfTrAq---------afsnAIR----lcKEnd~~d~L~nlal~s~~~d~v~aArYyEe---~g~~-----~~~AVmL 1044 (1416)
T KOG3617|consen  986 AVKFFTRAQ---------AFSNAIR----LCKENDMKDRLANLALMSGGSDLVSAARYYEE---LGGY-----AHKAVML 1044 (1416)
T ss_pred             HHHHHHHHH---------HHHHHHH----HHHhcCHHHHHHHHHhhcCchhHHHHHHHHHH---cchh-----hhHHHHH
Confidence            999988653         3444444    1222222                223333332   2221     1122233


Q ss_pred             hhcccCCChhhHHHHHH---------HHH-HCCCCCCHHHHHHHHhhhhccCCCCCCCchhhhhhc
Q 013323          375 AAGEKSGGYTTANYIWD---------LMQ-ARKITPSLPAVEAYYNGLKDREVPADDPRLVVVSRA  430 (445)
Q Consensus       375 ~~~~~~g~~~~A~~~~~---------~m~-~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~l~~~~~  430 (445)
                      |-  |.|.+.+|.++--         -+. +.+-..|+...+.-.+=+++....++|+.+|-.-++
T Consensus      1045 YH--kAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~ 1108 (1416)
T KOG3617|consen 1045 YH--KAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLARE 1108 (1416)
T ss_pred             HH--hhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            44  8888888876622         121 233345676666666667777777777776655443

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

Probab=98.01  E-value=0.0059  Score=50.60  Aligned_cols=128  Identities=11%  Similarity=-0.057  Sum_probs=73.9

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHH
Q 013323           79 FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA  158 (445)
Q Consensus        79 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~  158 (445)
                      ..-|--+|...|+...|..-+++..+.. +-+..+|..+-..|-+.|+.+.|.+-|+.-.+.. +-+..+.|..-.-+|.
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~  115 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHh
Confidence            3444456667777777777777777654 1234567777777777777777777777666542 1234555666666667


Q ss_pred             cCChhhHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCCCchHHHHHHHHHHH
Q 013323          159 AGQLDPVYAIVRDMTAAGAGL-DKFCYAGLITAHTNKIPRADDTATKIIELVE  210 (445)
Q Consensus       159 ~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~  210 (445)
                      .|++++|...|++......-| -..||..+--+..+.|..  +.++..++.-.
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~--~~A~~~l~raL  166 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQF--DQAEEYLKRAL  166 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCc--hhHHHHHHHHH
Confidence            777777777777766642211 123333333333444443  45555554433

>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=97.99  E-value=0.0002  Score=58.68  Aligned_cols=113  Identities=19%  Similarity=0.260  Sum_probs=90.6

Q ss_pred             chHHHHHHhcC--CCCChhhHHHHHHHHHhc-----CcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcC---------
Q 013323           26 SAGAEEYARRN--YANNASEYNTVVTSLTSQ-----RRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKG---------   89 (445)
Q Consensus        26 ~~~~~~~~~~~--~~p~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~---------   89 (445)
                      ..+.++..++.  -..|..+|..+|..|.+.     |.++=....+..|.+-|+.-|..+|+.||+.+=+.         
T Consensus        30 l~~~~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ  109 (228)
T PF06239_consen   30 LAPHEELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQ  109 (228)
T ss_pred             ccchHHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHH
Confidence            44555555554  578999999999999865     67777788889999999999999999999997653         


Q ss_pred             -------CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH-HHHHHHHHHHH
Q 013323           90 -------SRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNS-DQAIRIFEEMK  138 (445)
Q Consensus        90 -------~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~-~~a~~~~~~m~  138 (445)
                             .+.+-|.+++++|...|+-||..|+..|++.+++.+.. .+..++.--|.
T Consensus       110 ~~F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~~K~~rmmYWmp  166 (228)
T PF06239_consen  110 AEFMHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSHPMKKYRRMMYWMP  166 (228)
T ss_pred             HHhccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence                   35677899999999999999999999999999988764 34444444443

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PLN02789 farnesyltranstransferase

Probab=97.95  E-value=0.014  Score=52.80  Aligned_cols=216  Identities=8%  Similarity=0.015  Sum_probs=142.6

Q ss_pred             hHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCC-ChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013323           43 EYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRD-LFHSLIVGTMKGS-RLQDTFFFRDQMKANGFLPDVAVYNYLISV  120 (445)
Q Consensus        43 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~-~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  120 (445)
                      ++..+-..+...++.++|+.+.++..+.  .|+.. .|+.--.++...| ++++++..++.+.+.+- -+..+|+..--.
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~np-knyqaW~~R~~~  115 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNP-KNYQIWHHRRWL  115 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCC-cchHHhHHHHHH
Confidence            4555666677788999999999999875  36544 4655545555556 68999999999998652 355678766555


Q ss_pred             HHccCC--HHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc---C
Q 013323          121 CGKCKN--SDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNK---I  195 (445)
Q Consensus       121 ~~~~g~--~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~---~  195 (445)
                      +.+.|+  .++++.+++.+.+... -|..+|+.....+.+.|+++++++.++++.+.+.. +...|+.....+.+.   |
T Consensus       116 l~~l~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l~  193 (320)
T PLN02789        116 AEKLGPDAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITRSPLLG  193 (320)
T ss_pred             HHHcCchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHhccccc
Confidence            556665  3678899988887653 47889999999999999999999999999987643 455555544444333   1


Q ss_pred             CCc--hHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhc---
Q 013323          196 PRA--DDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAEL---  270 (445)
Q Consensus       196 ~~~--~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~---  270 (445)
                      ...  .+............                                        .+.|...|+.+-..+...   
T Consensus       194 ~~~~~~e~el~y~~~aI~~----------------------------------------~P~N~SaW~Yl~~ll~~~~~~  233 (320)
T PLN02789        194 GLEAMRDSELKYTIDAILA----------------------------------------NPRNESPWRYLRGLFKDDKEA  233 (320)
T ss_pred             cccccHHHHHHHHHHHHHh----------------------------------------CCCCcCHHHHHHHHHhcCCcc
Confidence            110  11122222111111                                        156677788777777763   


Q ss_pred             -ccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 013323          271 -KDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLH  304 (445)
Q Consensus       271 -g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  304 (445)
                       +...+|..++....+.+ ..+......|+..|+.
T Consensus       234 l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        234 LVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             cccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHh
Confidence             33456777777765532 2356677777887775

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

Probab=97.91  E-value=0.023  Score=54.22  Aligned_cols=349  Identities=13%  Similarity=0.094  Sum_probs=173.6

Q ss_pred             HHHHHHhcCCC---CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 013323           28 GAEEYARRNYA---NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKA  104 (445)
Q Consensus        28 ~~~~~~~~~~~---p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  104 (445)
                      -+.+..+.|++   .+.+.|+.+=-.+-...++++|...|......+ +-|...|.-+--.-++.++++........+.+
T Consensus        59 ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLq  137 (700)
T KOG1156|consen   59 EAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQ  137 (700)
T ss_pred             HHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            34455555553   566778877777777788999999888876643 12333343333333333344433333333333


Q ss_pred             CCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC-CCccHHHH----------------------------------
Q 013323          105 NGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYE-VKPNGQTY----------------------------------  149 (445)
Q Consensus       105 ~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~y----------------------------------  149 (445)
                      .. +.....|..+..++.-.|+...|..+.++..+.. -.|+...|                                  
T Consensus       138 l~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~  216 (700)
T KOG1156|consen  138 LR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIV  216 (700)
T ss_pred             hh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHH
Confidence            21 1122334444444444444444444444433321 11222222                                  


Q ss_pred             ------HHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHH-HHHccCCCchHHHHHHHHHHHHhcCCccccccc
Q 013323          150 ------VCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLIT-AHTNKIPRADDTATKIIELVEQSKGWSSVETSG  222 (445)
Q Consensus       150 ------~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  222 (445)
                            .+--.-+.+.+++++|..++..+...+  ||..-|...+. ++.+..+ ..+....+++.....-  +......
T Consensus       217 Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn--Pdn~~Yy~~l~~~lgk~~d-~~~~lk~ly~~ls~~y--~r~e~p~  291 (700)
T KOG1156|consen  217 DKLAFEETKADLLMKLGQLEEAVKVYRRLLERN--PDNLDYYEGLEKALGKIKD-MLEALKALYAILSEKY--PRHECPR  291 (700)
T ss_pred             HHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC--chhHHHHHHHHHHHHHHhh-hHHHHHHHHHHHhhcC--cccccch
Confidence                  223344567788888888888888874  77766665554 4432211 1233446666555432  1112222


Q ss_pred             cccchhhcccchhhhcchhhhhH-HhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhC--CC-----------
Q 013323          223 NNAENEMMGVSKEELYNLPTAEY-VHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKD--RK-----------  288 (445)
Q Consensus       223 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~-----------  288 (445)
                      ........+.....   ...... ..-+.|+    +.++..+..-+-.....+-.+++.-.+...  |-           
T Consensus       292 Rlplsvl~~eel~~---~vdkyL~~~l~Kg~----p~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~  364 (700)
T KOG1156|consen  292 RLPLSVLNGEELKE---IVDKYLRPLLSKGV----PSVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQ  364 (700)
T ss_pred             hccHHHhCcchhHH---HHHHHHHHHhhcCC----CchhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCccccccc
Confidence            22223322211111   111111 1111222    124555555555444433333333333221  11           


Q ss_pred             -CCCHH--HHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCC
Q 013323          289 -SPDVY--IVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLS  364 (445)
Q Consensus       289 -~p~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~  364 (445)
                       +|.+.  |+--++..|-+.|+++.|..+.+....+  .|+..-.- ++++-  -+...|. +.|...+++..+.+. ||
T Consensus       365 E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TPTliEly-~~KaR--I~kH~G~l~eAa~~l~ea~elD~-aD  438 (700)
T KOG1156|consen  365 EPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TPTLIELY-LVKAR--IFKHAGLLDEAAAWLDEAQELDT-AD  438 (700)
T ss_pred             CCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--CchHHHHH-HHHHH--HHHhcCChHHHHHHHHHHHhccc-hh
Confidence             34443  4555677788888999998888877765  23322111 11111  3566777 888888888877662 34


Q ss_pred             cchhhHHHHHhhcccCCChhhHHHHHHHHHHCCC
Q 013323          365 PRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKI  398 (445)
Q Consensus       365 ~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~  398 (445)
                      ...-.--..-  ..++...++|.++.....+.|.
T Consensus       439 R~INsKcAKY--mLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  439 RAINSKCAKY--MLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHHHHH--HHHccccHHHHHHHHHhhhccc
Confidence            3221111111  1267888888888888887765

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.90  E-value=0.021  Score=53.36  Aligned_cols=129  Identities=11%  Similarity=0.138  Sum_probs=100.7

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhC-CCCCCHHHHHHHHH
Q 013323          258 TVYHVAFHACAELKDVQAMETLLEMLKKDRKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICS-EKFPPAELYATLVE  335 (445)
Q Consensus       258 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~  335 (445)
                      -+|-..|..-.+...+..|..+|.+..+.+..+ ++++++++|.-|| .++.+.|.++|+.=... |-  ++.--...++
T Consensus       367 Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkkf~d--~p~yv~~Yld  443 (656)
T KOG1914|consen  367 LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKKFGD--SPEYVLKYLD  443 (656)
T ss_pred             eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHhcCC--ChHHHHHHHH
Confidence            358888999999999999999999999988777 8889999998777 56789999999974443 32  2233334444


Q ss_pred             hHhhcCChhhH-HHHHHHHHHHHhCCCCCCc--chhhHHHHHhhcccCCChhhHHHHHHHHHH
Q 013323          336 GAMFGYTPKGM-QLAQDTLVNMNSRNIFLSP--RMGSDLLLVAAGEKSGGYTTANYIWDLMQA  395 (445)
Q Consensus       336 ~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~  395 (445)
                      -    +..-+. ..+..+|++...+++.|+.  ..|..+|.--+  .-|+...+.++-+++..
T Consensus       444 f----L~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES--~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  444 F----LSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYES--NVGDLNSILKLEKRRFT  500 (656)
T ss_pred             H----HHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHH--hcccHHHHHHHHHHHHH
Confidence            2    344555 8899999999998766655  58999998777  99999999999888863

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=97.89  E-value=0.003  Score=54.75  Aligned_cols=183  Identities=8%  Similarity=0.010  Sum_probs=103.6

Q ss_pred             HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-cc-HHHH
Q 013323           76 RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD----VAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVK-PN-GQTY  149 (445)
Q Consensus        76 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~-p~-~~~y  149 (445)
                      ...+-.+...+.+.|+++.|...|+++.+..  |+    ..++..+..++.+.|++++|...++++.+..-. |. ..++
T Consensus        33 ~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        33 AEELYEEAKEALDSGDYTEAIKYFEALESRY--PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            3445555556667777777777777766543  32    135566666777777777777777777653211 11 1123


Q ss_pred             HHHHHHHHHc--------CChhhHHHHHHHHHHcCCCCCH-HHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccc
Q 013323          150 VCLLNACAAA--------GQLDPVYAIVRDMTAAGAGLDK-FCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVET  220 (445)
Q Consensus       150 ~~li~~~~~~--------g~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  220 (445)
                      ..+-.++...        |+.++|.+.|+......  |+. ..+..+.. ...           ......          
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~-~~~-----------~~~~~~----------  166 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKR-MDY-----------LRNRLA----------  166 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHH-HHH-----------HHHHHH----------
Confidence            3333333332        55667777777766542  222 11111110 000           000000          


Q ss_pred             cccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCC-CC-CHHHHHHH
Q 013323          221 SGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRK-SP-DVYIVMQN  298 (445)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p-~~~~~~~l  298 (445)
                                                           .....+-..+.+.|++++|...+....+..- .| ....+..+
T Consensus       167 -------------------------------------~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l  209 (235)
T TIGR03302       167 -------------------------------------GKELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARL  209 (235)
T ss_pred             -------------------------------------HHHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHH
Confidence                                                 0011344557788889999888888776421 23 34577788


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhC
Q 013323          299 IRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       299 i~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      ..++.+.|+.++|..+++.+...
T Consensus       210 ~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       210 VEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhh
Confidence            88899999999999888887654

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).

>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=97.86  E-value=0.00067  Score=62.51  Aligned_cols=123  Identities=11%  Similarity=0.118  Sum_probs=94.5

Q ss_pred             HHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 013323           45 NTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKC  124 (445)
Q Consensus        45 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  124 (445)
                      ..|+..+...++++.|.++|+++.+..  |+..  ..+...+...++..+|.+++++..+.. +-|....+.-...+.+.
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pev~--~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PEVA--VLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--CcHH--HHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc
Confidence            344566666788999999999988764  6543  346666767778888888888887643 34666777777778889


Q ss_pred             CCHHHHHHHHHHHHhCCCCccH-HHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          125 KNSDQAIRIFEEMKKYEVKPNG-QTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       125 g~~~~a~~~~~~m~~~g~~p~~-~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      ++++.|+.+.++..+.  .|+. .+|..|..+|...|+++.|+..++.+..
T Consensus       248 ~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  248 KKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             CCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            9999999999988875  4554 5899999999999999999988887754

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=97.83  E-value=0.0037  Score=54.22  Aligned_cols=167  Identities=11%  Similarity=0.046  Sum_probs=123.6

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCH----HHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCH--
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTR----DLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDV--  111 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~--  111 (445)
                      ......+-.+...+.+.|+++.|...|++..+..  |+.    ..+..+-.++.+.|++++|...++.+.+..  |+.  
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~--p~~~~  105 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRY--PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH--PNHPD  105 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCc
Confidence            4456677788888999999999999999987753  432    356677788899999999999999998754  321  


Q ss_pred             --HHHHHHHHHHHcc--------CCHHHHHHHHHHHHhCCCCccHH-HH-----------------HHHHHHHHHcCChh
Q 013323          112 --AVYNYLISVCGKC--------KNSDQAIRIFEEMKKYEVKPNGQ-TY-----------------VCLLNACAAAGQLD  163 (445)
Q Consensus       112 --~~~~~ll~~~~~~--------g~~~~a~~~~~~m~~~g~~p~~~-~y-----------------~~li~~~~~~g~~~  163 (445)
                        .++..+-.++.+.        |+.++|.+.|+......  |+.. .+                 ..+-..+.+.|+++
T Consensus       106 ~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~  183 (235)
T TIGR03302       106 ADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYV  183 (235)
T ss_pred             hHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChH
Confidence              2344444455544        77899999999987652  3321 11                 13445678889999


Q ss_pred             hHHHHHHHHHHcC--CCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHh
Q 013323          164 PVYAIVRDMTAAG--AGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQS  212 (445)
Q Consensus       164 ~a~~~~~~m~~~g--~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~  212 (445)
                      +|...++...+..  -+.....+..+..++.+.|+.  +.+...++.+...
T Consensus       184 ~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~--~~A~~~~~~l~~~  232 (235)
T TIGR03302       184 AAINRFETVVENYPDTPATEEALARLVEAYLKLGLK--DLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCH--HHHHHHHHHHHhh
Confidence            9999999998763  122456788888999999977  8888888887654

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).

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

Probab=97.82  E-value=0.003  Score=60.77  Aligned_cols=228  Identities=14%  Similarity=0.069  Sum_probs=154.1

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 013323          115 NYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNK  194 (445)
Q Consensus       115 ~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  194 (445)
                      -.+-..+...|-...|..+|++..         .|.-+|.+|+..|+..+|..+..+..++  +||...|..+.+.....
T Consensus       402 ~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~  470 (777)
T KOG1128|consen  402 RLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDP  470 (777)
T ss_pred             HHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccCh
Confidence            456667778888999999998775         5899999999999999999999888883  68888888887766443


Q ss_pred             CCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHH
Q 013323          195 IPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQ  274 (445)
Q Consensus       195 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~  274 (445)
                      .-  .+.|+.+........                                 .             ..+-....+.++++
T Consensus       471 s~--yEkawElsn~~sarA---------------------------------~-------------r~~~~~~~~~~~fs  502 (777)
T KOG1128|consen  471 SL--YEKAWELSNYISARA---------------------------------Q-------------RSLALLILSNKDFS  502 (777)
T ss_pred             HH--HHHHHHHhhhhhHHH---------------------------------H-------------HhhccccccchhHH
Confidence            22  255555555433220                                 0             00000112257788


Q ss_pred             HHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCC-CHHHHHHHHHhHhhcCChhhH-HHHHH
Q 013323          275 AMETLLEMLKKDRKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFP-PAELYATLVEGAMFGYTPKGM-QLAQD  351 (445)
Q Consensus       275 ~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~g~-~~a~~  351 (445)
                      ++.+.|+.-.+  +.| -..+|-.+=.+..+.++++.|.+.|..-...  .| +...||.+=.    +|.+.+. .+|..
T Consensus       503 ~~~~hle~sl~--~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvtL--~Pd~~eaWnNls~----ayi~~~~k~ra~~  574 (777)
T KOG1128|consen  503 EADKHLERSLE--INPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTL--EPDNAEAWNNLST----AYIRLKKKKRAFR  574 (777)
T ss_pred             HHHHHHHHHhh--cCccchhHHHhccHHHHHHhhhHHHHHHHHHHhhc--CCCchhhhhhhhH----HHHHHhhhHHHHH
Confidence            88888875433  222 3345655666677888999999988876654  33 5667888877    6888888 89999


Q ss_pred             HHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCC-CCCCHHHHHHHHhhh
Q 013323          352 TLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARK-ITPSLPAVEAYYNGL  412 (445)
Q Consensus       352 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~-~~p~~~~~~~l~~~~  412 (445)
                      .+.+..+.+.. +...|...+....  +.|.+++|.+.+.+|.+.. -.-|......++...
T Consensus       575 ~l~EAlKcn~~-~w~iWENymlvsv--dvge~eda~~A~~rll~~~~~~~d~~vl~~iv~~~  633 (777)
T KOG1128|consen  575 KLKEALKCNYQ-HWQIWENYMLVSV--DVGEFEDAIKAYHRLLDLRKKYKDDEVLLIIVRTV  633 (777)
T ss_pred             HHHHHhhcCCC-CCeeeechhhhhh--hcccHHHHHHHHHHHHHhhhhcccchhhHHHHHHH
Confidence            99998888743 4445544444555  8999999999998887421 112444444444443

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

Probab=97.79  E-value=0.037  Score=52.87  Aligned_cols=142  Identities=9%  Similarity=0.034  Sum_probs=74.5

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHC------CCCCCHHHHHHH
Q 013323           44 YNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN------GFLPDVAVYNYL  117 (445)
Q Consensus        44 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------g~~p~~~~~~~l  117 (445)
                      |...|......+-.+-+..++++..+    .+...-+-.|.-+++.+++++|-+.+......      ..+.+...|+-+
T Consensus       141 W~lyl~Fv~~~~lPets~rvyrRYLk----~~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~el  216 (835)
T KOG2047|consen  141 WDLYLKFVESHGLPETSIRVYRRYLK----VAPEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLEL  216 (835)
T ss_pred             hHHHHHHHHhCCChHHHHHHHHHHHh----cCHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHH
Confidence            33333333334444444444444432    12222344444455555666655555554321      112344445555


Q ss_pred             HHHHHccCCHH---HHHHHHHHHHhCCCCcc--HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 013323          118 ISVCGKCKNSD---QAIRIFEEMKKYEVKPN--GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHT  192 (445)
Q Consensus       118 l~~~~~~g~~~---~a~~~~~~m~~~g~~p~--~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  192 (445)
                      -+..++..+.-   ....+++.+...  -+|  ...|++|..-|.+.|.+++|.++|++-...  ..++.-|+.+.++|+
T Consensus       217 cdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya  292 (835)
T KOG2047|consen  217 CDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYA  292 (835)
T ss_pred             HHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHH
Confidence            44444443321   222333333321  234  346999999999999999999999987765  235555666666665


Q ss_pred             c
Q 013323          193 N  193 (445)
Q Consensus       193 ~  193 (445)
                      .
T Consensus       293 ~  293 (835)
T KOG2047|consen  293 Q  293 (835)
T ss_pred             H
Confidence            4

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.79  E-value=0.0011  Score=52.40  Aligned_cols=93  Identities=5%  Similarity=-0.123  Sum_probs=58.0

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcC
Q 013323           81 SLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAG  160 (445)
Q Consensus        81 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g  160 (445)
                      .+-..+...|++++|...|+...... +.+...|..+-.++.+.|++++|...|+...... +.+...+..+-.++.+.|
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcC
Confidence            34445566666666666666666544 2355666666666666667777776666666543 235566666666666667


Q ss_pred             ChhhHHHHHHHHHHc
Q 013323          161 QLDPVYAIVRDMTAA  175 (445)
Q Consensus       161 ~~~~a~~~~~~m~~~  175 (445)
                      ++++|...|+...+.
T Consensus       107 ~~~eAi~~~~~Al~~  121 (144)
T PRK15359        107 EPGLAREAFQTAIKM  121 (144)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            777777666666553

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

Probab=97.74  E-value=0.0058  Score=51.75  Aligned_cols=172  Identities=13%  Similarity=0.009  Sum_probs=121.8

Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCC
Q 013323           29 AEEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFL  108 (445)
Q Consensus        29 ~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~  108 (445)
                      .+.++.+...-+...-..-...|...+++++|+...+..      -+......=+..+.+..+++.|.+.++.|.+-   
T Consensus        96 ~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~------~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---  166 (299)
T KOG3081|consen   96 YELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLG------ENLEAAALNVQILLKMHRFDLAEKELKKMQQI---  166 (299)
T ss_pred             HHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhcc------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---
Confidence            344444444444444444456788899999999887762      23344444445566778999999999999984   


Q ss_pred             CCHHHHHHHHHHHH----ccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHH
Q 013323          109 PDVAVYNYLISVCG----KCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCY  184 (445)
Q Consensus       109 p~~~~~~~ll~~~~----~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  184 (445)
                      -+..|.+-|-.++.    ..+.+.+|.-+|++|.++ ..|+..+.+-...++...|++++|..++++...+.-. +..|.
T Consensus       167 ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL  244 (299)
T KOG3081|consen  167 DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETL  244 (299)
T ss_pred             chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHH
Confidence            35556665555554    456789999999999874 4689999999999999999999999999999887533 56666


Q ss_pred             HHHHHHHHccCCCchHHHHHHHHHHHHh
Q 013323          185 AGLITAHTNKIPRADDTATKIIELVEQS  212 (445)
Q Consensus       185 ~~li~~~~~~~~~~~~~a~~~~~~~~~~  212 (445)
                      ..+|..-...|+ +.+...+....+...
T Consensus       245 ~Nliv~a~~~Gk-d~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  245 ANLIVLALHLGK-DAEVTERNLSQLKLS  271 (299)
T ss_pred             HHHHHHHHHhCC-ChHHHHHHHHHHHhc
Confidence            666666555665 335556666666554

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.74  E-value=0.0014  Score=51.78  Aligned_cols=115  Identities=6%  Similarity=-0.108  Sum_probs=92.7

Q ss_pred             HHHHhcCCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCC
Q 013323           30 EEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLP  109 (445)
Q Consensus        30 ~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p  109 (445)
                      ++..++.+.-++..+..+-..+.+.|++++|...|+...... +.+...|..+-.++.+.|++++|...|+...+.+ +.
T Consensus        13 ~~~~~~al~~~p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~   90 (144)
T PRK15359         13 EDILKQLLSVDPETVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-AS   90 (144)
T ss_pred             HHHHHHHHHcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CC
Confidence            344455555555556677888899999999999999988764 2467788888899999999999999999999865 35


Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHH
Q 013323          110 DVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQT  148 (445)
Q Consensus       110 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  148 (445)
                      +...+..+-.++.+.|++++|...|+.....  .|+...
T Consensus        91 ~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~--~p~~~~  127 (144)
T PRK15359         91 HPEPVYQTGVCLKMMGEPGLAREAFQTAIKM--SYADAS  127 (144)
T ss_pred             CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChH
Confidence            7888999999999999999999999998874  455433

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

Probab=97.71  E-value=0.05  Score=52.05  Aligned_cols=135  Identities=6%  Similarity=0.008  Sum_probs=100.8

Q ss_pred             HhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHH
Q 013323           52 TSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAI  131 (445)
Q Consensus        52 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~  131 (445)
                      ...|+-++|.+....-.+..+ -+.+.|+.+--.+....++++|.+.|......+ +-|...|--|--.=++.|+++...
T Consensus        52 ~~lg~~~ea~~~vr~glr~d~-~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~  129 (700)
T KOG1156|consen   52 NCLGKKEEAYELVRLGLRNDL-KSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYL  129 (700)
T ss_pred             hcccchHHHHHHHHHHhccCc-ccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHH
Confidence            445777888877766555443 366778888777888889999999999988865 346777777776677888888888


Q ss_pred             HHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcC-CCCCHHHHHHHHH
Q 013323          132 RIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAG-AGLDKFCYAGLIT  189 (445)
Q Consensus       132 ~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~li~  189 (445)
                      .......+.. ......|.....++.-.|+...|..++++..+.. -.|+...|.-...
T Consensus       130 ~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~  187 (700)
T KOG1156|consen  130 ETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSEL  187 (700)
T ss_pred             HHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHH
Confidence            7777776642 1245678889999999999999999999998864 3567766655443

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.69  E-value=0.054  Score=57.32  Aligned_cols=301  Identities=9%  Similarity=-0.027  Sum_probs=155.5

Q ss_pred             HHhcCCChhHHHHHHHHHHHC--CC----CCCH--HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcc----HHHHHHH
Q 013323           85 GTMKGSRLQDTFFFRDQMKAN--GF----LPDV--AVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPN----GQTYVCL  152 (445)
Q Consensus        85 ~~~~~~~~~~a~~~~~~m~~~--g~----~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~----~~~y~~l  152 (445)
                      .+...|+++++..+++.....  ..    .+..  .....+-..+...|++++|...+++....--..+    ...++.+
T Consensus       418 ~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~l  497 (903)
T PRK04841        418 LAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVL  497 (903)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHH
Confidence            345667888888877766542  10    1111  1112222344567888888888887654211111    1234555


Q ss_pred             HHHHHHcCChhhHHHHHHHHHHcC--C-CCC--HHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccch
Q 013323          153 LNACAAAGQLDPVYAIVRDMTAAG--A-GLD--KFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAEN  227 (445)
Q Consensus       153 i~~~~~~g~~~~a~~~~~~m~~~g--~-~p~--~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  227 (445)
                      -..+...|++++|...+++.....  . .+.  ..++..+-..+...|+.  +.+...++......              
T Consensus       498 g~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~--~~A~~~~~~al~~~--------------  561 (903)
T PRK04841        498 GEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFL--QAAYETQEKAFQLI--------------  561 (903)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCH--HHHHHHHHHHHHHH--------------
Confidence            556677888888888887775421  1 111  12333334445556655  67776666543321              


Q ss_pred             hhcccchhhhcchhhhhHHhhhcCcc--cCchhHHHHHHHHHHhcccHHHHHHHHHHHHhC--CCCC--CHHHHHHHHHH
Q 013323          228 EMMGVSKEELYNLPTAEYVHRRGGFL--SRLLTVYHVAFHACAELKDVQAMETLLEMLKKD--RKSP--DVYIVMQNIRC  301 (445)
Q Consensus       228 ~~~~~~~~~~~~~~~~~~~~~~~g~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p--~~~~~~~li~~  301 (445)
                                          ...|..  ......+..+-..+...|++++|...+.+....  ...+  ....+..+...
T Consensus       562 --------------------~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  621 (903)
T PRK04841        562 --------------------EEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKI  621 (903)
T ss_pred             --------------------HHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHH
Confidence                                000000  111223344445566679999998888765442  1112  23344445567


Q ss_pred             HHhcCChhhHHHHHHHHHhCC-CCCCHHHHHHHHH-hHhhcCChhhH-HHHHHHHHHHHhCCCCCCcch----hhHHHHH
Q 013323          302 YLHSGDIDNGHKVFEDYICSE-KFPPAELYATLVE-GAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRM----GSDLLLV  374 (445)
Q Consensus       302 ~~~~g~~~~a~~~~~~m~~~~-~~p~~~~~~~li~-~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~----~~~ll~~  374 (445)
                      +...|+.+.|.+.++...... .......+..... .....+...|. +.|...+......... ....    +..+..+
T Consensus       622 ~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~-~~~~~~~~~~~~a~~  700 (903)
T PRK04841        622 SLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFA-NNHFLQGQWRNIARA  700 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCc-cchhHHHHHHHHHHH
Confidence            778899999998888775421 0111111111100 00001233455 7777776665432211 1111    1222233


Q ss_pred             hhcccCCChhhHHHHHHHHHH----CCCCCC-HHHHHHHHhhhhccCCCCCCCch
Q 013323          375 AAGEKSGGYTTANYIWDLMQA----RKITPS-LPAVEAYYNGLKDREVPADDPRL  424 (445)
Q Consensus       375 ~~~~~~g~~~~A~~~~~~m~~----~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~  424 (445)
                      +  ...|++++|...+++...    .|..++ ..+...+-.++.+.|..++|...
T Consensus       701 ~--~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~  753 (903)
T PRK04841        701 Q--ILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRV  753 (903)
T ss_pred             H--HHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            3  378899999888888763    233322 12344444567777877777653

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.68  E-value=0.0059  Score=53.75  Aligned_cols=61  Identities=15%  Similarity=0.211  Sum_probs=29.4

Q ss_pred             HHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHH-Hc-cCCC-chHHHHHHHHHHHHhc
Q 013323          151 CLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAH-TN-KIPR-ADDTATKIIELVEQSK  213 (445)
Q Consensus       151 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~-~~-~~~~-~~~~a~~~~~~~~~~~  213 (445)
                      .++--|.+.+++.+|..+.+++.-  ..|-......++.+- +. .|.. ....|++.|+.+..+.
T Consensus       290 NL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa  353 (557)
T KOG3785|consen  290 NLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESA  353 (557)
T ss_pred             hheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccc
Confidence            344456677777777776665432  234444444444332 11 1111 1244555666555443

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.66  E-value=0.057  Score=51.11  Aligned_cols=118  Identities=9%  Similarity=0.110  Sum_probs=80.5

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHH--HHHHHH--c
Q 013323           48 VTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNY--LISVCG--K  123 (445)
Q Consensus        48 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~--ll~~~~--~  123 (445)
                      ++-+...+++++|....+.+...+ +-|...+..=+-+..+.+.+++|+.+.+   ..+   -..+++.  +=.+||  +
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ik---k~~---~~~~~~~~~fEKAYc~Yr   91 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIK---KNG---ALLVINSFFFEKAYCEYR   91 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHH---hcc---hhhhcchhhHHHHHHHHH
Confidence            566677889999999999987765 3344456666667788888888874433   222   1122222  244554  6


Q ss_pred             cCCHHHHHHHHHHHHhCCCCccH-HHHHHHHHHHHHcCChhhHHHHHHHHHHcCC
Q 013323          124 CKNSDQAIRIFEEMKKYEVKPNG-QTYVCLLNACAAAGQLDPVYAIVRDMTAAGA  177 (445)
Q Consensus       124 ~g~~~~a~~~~~~m~~~g~~p~~-~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~  177 (445)
                      .+..++|+..++     |..++. .+...--+.+-+.|++++|+++|+.+.+.+.
T Consensus        92 lnk~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~  141 (652)
T KOG2376|consen   92 LNKLDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNS  141 (652)
T ss_pred             cccHHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            788899998888     333433 3566666778889999999999999987654

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

Probab=97.64  E-value=0.0031  Score=49.99  Aligned_cols=126  Identities=13%  Similarity=0.084  Sum_probs=90.4

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCH-H-HH--HHHHHHHhcCCChhHHHHHHHHHHHCCCCCCH--HHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTR-D-LF--HSLIVGTMKGSRLQDTFFFRDQMKANGFLPDV--AVY  114 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~-~~--~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~  114 (445)
                      ...|..++..+ ..++...+...++.+.+..  |+. . ..  -.+-..+...|++++|...|+......-.|+.  ...
T Consensus        12 ~~~y~~~~~~~-~~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~   88 (145)
T PF09976_consen   12 SALYEQALQAL-QAGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLAR   88 (145)
T ss_pred             HHHHHHHHHHH-HCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHH
Confidence            34566777776 4888888888888888763  333 2 22  23335677889999999999999987622322  234


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHH
Q 013323          115 NYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRD  171 (445)
Q Consensus       115 ~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~  171 (445)
                      -.|-..+...|++++|+..++......  .....+...-..+.+.|+.++|...|+.
T Consensus        89 l~LA~~~~~~~~~d~Al~~L~~~~~~~--~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   89 LRLARILLQQGQYDEALATLQQIPDEA--FKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHhccCcc--hHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            446677888999999999997754433  3455677788889999999999998875

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

Probab=97.63  E-value=0.0046  Score=51.75  Aligned_cols=120  Identities=8%  Similarity=0.019  Sum_probs=89.5

Q ss_pred             cCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HccCC--HHHH
Q 013323           54 QRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVC-GKCKN--SDQA  130 (445)
Q Consensus        54 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~-~~~g~--~~~a  130 (445)
                      .++.+++...++...+.+ +.|...|..+-..+...|++++|...|+...+.. +-+...+..+-.++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            445556666666555543 3467778888888889999999999999888865 23667777777764 56676  4889


Q ss_pred             HHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcC
Q 013323          131 IRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAG  176 (445)
Q Consensus       131 ~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g  176 (445)
                      .+++++..+.+- -+..++..+-..+.+.|++++|...|+.+.+..
T Consensus       130 ~~~l~~al~~dP-~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~  174 (198)
T PRK10370        130 REMIDKALALDA-NEVTALMLLASDAFMQADYAQAIELWQKVLDLN  174 (198)
T ss_pred             HHHHHHHHHhCC-CChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            999998887642 266788888888889999999999999988753

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

Probab=97.61  E-value=0.0087  Score=57.76  Aligned_cols=83  Identities=13%  Similarity=0.101  Sum_probs=61.0

Q ss_pred             cCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCC-CCCCHHHHHH
Q 013323          254 SRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSE-KFPPAELYAT  332 (445)
Q Consensus       254 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~~~~~  332 (445)
                      +.+...||.+-.+|.+.++-.+|...+.+..+.+ .-+-..|...+....+.|.+++|.+.+..+.... ..-|..+-..
T Consensus       550 Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~~d~~vl~~  628 (777)
T KOG1128|consen  550 PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKYKDDEVLLI  628 (777)
T ss_pred             CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhcccchhhHH
Confidence            5566789999999999999999999988877765 3344566667777788999999999988877552 1225556666


Q ss_pred             HHHhH
Q 013323          333 LVEGA  337 (445)
Q Consensus       333 li~~~  337 (445)
                      ++...
T Consensus       629 iv~~~  633 (777)
T KOG1128|consen  629 IVRTV  633 (777)
T ss_pred             HHHHH
Confidence            65543

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

Probab=97.60  E-value=0.066  Score=50.40  Aligned_cols=285  Identities=12%  Similarity=0.020  Sum_probs=168.2

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYL  117 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  117 (445)
                      ..+++.--.-..-+-..+++.+..++++...+. .+++...+..=|..+-..|+..+-..+=..|.+.- +-...+|=++
T Consensus       241 ~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~-dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aV  318 (611)
T KOG1173|consen  241 AENLDLLAEKADRLYYGCRFKECLKITEELLEK-DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAV  318 (611)
T ss_pred             hhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhh-CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhH
Confidence            445555556667777889999999999888764 34566666666777778888777777766777642 3456788888


Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCcc-HHHHHHHHHHHHHcCChhhHHHHHHHHHHc--CC-CCCHHHHHHHHHHHHc
Q 013323          118 ISVCGKCKNSDQAIRIFEEMKKYEVKPN-GQTYVCLLNACAAAGQLDPVYAIVRDMTAA--GA-GLDKFCYAGLITAHTN  193 (445)
Q Consensus       118 l~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~--g~-~p~~~~~~~li~~~~~  193 (445)
                      ---|.-.|+..+|.++|.+-..-  .|. ...|-..-..|.-.|..|+|...+...-+-  |. .|..  |..+=  |.+
T Consensus       319 g~YYl~i~k~seARry~SKat~l--D~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~L--Ylgme--y~~  392 (611)
T KOG1173|consen  319 GCYYLMIGKYSEARRYFSKATTL--DPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSL--YLGME--YMR  392 (611)
T ss_pred             HHHHHHhcCcHHHHHHHHHHhhc--CccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHH--HHHHH--HHH
Confidence            88888889999999999877643  222 346777778888888888888888776552  32 2322  22221  222


Q ss_pred             cCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhH-HhhhcCcccCchhHHHHHHHHHHhccc
Q 013323          194 KIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEY-VHRRGGFLSRLLTVYHVAFHACAELKD  272 (445)
Q Consensus       194 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~g~~~~~~~~~~~li~~~~~~g~  272 (445)
                      .+..  +.|.+.|..........+..-............-.++..-+..... .............+++.+-++|.+.+.
T Consensus       393 t~n~--kLAe~Ff~~A~ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~  470 (611)
T KOG1173|consen  393 TNNL--KLAEKFFKQALAIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNK  470 (611)
T ss_pred             hccH--HHHHHHHHHHHhcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhh
Confidence            2222  6666666654433221111111100000000000010000000000 000000001234557777777777888


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHH
Q 013323          273 VQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVE  335 (445)
Q Consensus       273 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  335 (445)
                      .++|...++..... .+-|..+|.++--.|...|+++.|.+.|++...  +.|+-.+...++.
T Consensus       471 ~~eAI~~~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  471 YEEAIDYYQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLK  530 (611)
T ss_pred             HHHHHHHHHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHH
Confidence            88887777766543 233667777777777778888888887775443  5677766666666

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.59  E-value=0.0065  Score=60.72  Aligned_cols=138  Identities=14%  Similarity=0.083  Sum_probs=116.8

Q ss_pred             hcCCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHH
Q 013323           34 RRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRD-LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVA  112 (445)
Q Consensus        34 ~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~  112 (445)
                      .+.+..++..+-.|-....+.|+.++|..+++...+.  .|+.. ....+..++.+.+++++|....++..... +-+..
T Consensus        79 ~~~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~  155 (694)
T PRK15179         79 VRRYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAR  155 (694)
T ss_pred             HHhccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHH
Confidence            3455677888989999999999999999999999874  57655 46778889999999999999999999876 23466


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHc
Q 013323          113 VYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       113 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      ..+.+-.++.+.|++++|..+|++....+ .-+..++...-..+-..|+.++|...|+...+.
T Consensus       156 ~~~~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        156 EILLEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            77778888899999999999999999733 234788999999999999999999999998764

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.58  E-value=0.073  Score=50.42  Aligned_cols=149  Identities=9%  Similarity=0.059  Sum_probs=88.4

Q ss_pred             HHHHHHHHHHhc--ccHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChhhHHHHHH--------HHHhCCCCCC
Q 013323          259 VYHVAFHACAEL--KDVQAMETLLEMLKKDRKSPD--VYIVMQNIRCYLHSGDIDNGHKVFE--------DYICSEKFPP  326 (445)
Q Consensus       259 ~~~~li~~~~~~--g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~--------~m~~~~~~p~  326 (445)
                      .+..++..+.+.  .....+..++...-+.  .|.  ..+.-.++......|+++.|.+++.        .+.+.+..|.
T Consensus       341 ~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~  418 (652)
T KOG2376|consen  341 LFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPG  418 (652)
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChh
Confidence            345555554433  2356666666655443  232  3345556677788999999999999        5555566666


Q ss_pred             HHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCC--CCCCcchhhHHHHHhh--cccCCChhhHHHHHHHHHHCCCCCC
Q 013323          327 AELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRN--IFLSPRMGSDLLLVAA--GEKSGGYTTANYIWDLMQARKITPS  401 (445)
Q Consensus       327 ~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~--~~p~~~~~~~ll~~~~--~~~~g~~~~A~~~~~~m~~~~~~p~  401 (445)
                      .+.+-.-+.      .+.+. +.|..++++....-  -.+.......++.-.+  -.+.|+.++|..+++++.+.. ++|
T Consensus       419 ~V~aiv~l~------~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n-~~d  491 (652)
T KOG2376|consen  419 TVGAIVALY------YKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN-PND  491 (652)
T ss_pred             HHHHHHHHH------HhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC-Cch
Confidence            665544443      33333 55666665544221  0111122222221111  237799999999999998654 578


Q ss_pred             HHHHHHHHhhhhccC
Q 013323          402 LPAVEAYYNGLKDRE  416 (445)
Q Consensus       402 ~~~~~~l~~~~~~~~  416 (445)
                      ..+...++-+|++..
T Consensus       492 ~~~l~~lV~a~~~~d  506 (652)
T KOG2376|consen  492 TDLLVQLVTAYARLD  506 (652)
T ss_pred             HHHHHHHHHHHHhcC
Confidence            888888888877643

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=97.57  E-value=0.059  Score=54.09  Aligned_cols=162  Identities=7%  Similarity=0.044  Sum_probs=104.9

Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcc-HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCH-HHH
Q 013323          107 FLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPN-GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDK-FCY  184 (445)
Q Consensus       107 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~  184 (445)
                      ...+...+-.|-....+.|.+++|+.+++...+.  .|| ......+...+.+.+++++|+...++.....  |+. ...
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~--p~~~~~~  157 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG--SSSAREI  157 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC--CCCHHHH
Confidence            3445777777777778888888888888887764  455 4456667777778888888888888877753  443 334


Q ss_pred             HHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHH
Q 013323          185 AGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAF  264 (445)
Q Consensus       185 ~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li  264 (445)
                      ..+-.++...|+.  ++|..+|+.+....                                        +.+..++.++-
T Consensus       158 ~~~a~~l~~~g~~--~~A~~~y~~~~~~~----------------------------------------p~~~~~~~~~a  195 (694)
T PRK15179        158 LLEAKSWDEIGQS--EQADACFERLSRQH----------------------------------------PEFENGYVGWA  195 (694)
T ss_pred             HHHHHHHHHhcch--HHHHHHHHHHHhcC----------------------------------------CCcHHHHHHHH
Confidence            4444556666766  77777777766421                                        33456677777


Q ss_pred             HHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          265 HACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       265 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      .++-+.|+.++|...|+...+. ..|...-|+.++      +++..-...++++.-.
T Consensus       196 ~~l~~~G~~~~A~~~~~~a~~~-~~~~~~~~~~~~------~~~~~~~~~~~~~~~~  245 (694)
T PRK15179        196 QSLTRRGALWRARDVLQAGLDA-IGDGARKLTRRL------VDLNADLAALRRLGVE  245 (694)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh-hCcchHHHHHHH------HHHHHHHHHHHHcCcc
Confidence            7777778888887777766543 234555555443      2334445555555544

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.53  E-value=0.16  Score=53.82  Aligned_cols=311  Identities=11%  Similarity=-0.038  Sum_probs=177.5

Q ss_pred             HHHHHHHhcCcHhHHHHHHHHHHHC--CC----CCCHHH--HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC----HHH
Q 013323           46 TVVTSLTSQRRFFLLRDVYDDMMLD--GV----QPTRDL--FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD----VAV  113 (445)
Q Consensus        46 ~li~~~~~~~~~~~a~~~~~~m~~~--g~----~p~~~~--~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~  113 (445)
                      .....+...|+++++...+......  ..    .|....  ...+-..+...|++++|...+++..+.--..+    ...
T Consensus       414 ~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a  493 (903)
T PRK04841        414 LQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVA  493 (903)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHH
Confidence            3344556778999999888876542  11    111111  11222345678999999999998776311112    234


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhC----CC-CccHHHHHHHHHHHHHcCChhhHHHHHHHHHH----cCCC--C-CH
Q 013323          114 YNYLISVCGKCKNSDQAIRIFEEMKKY----EV-KPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA----AGAG--L-DK  181 (445)
Q Consensus       114 ~~~ll~~~~~~g~~~~a~~~~~~m~~~----g~-~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~----~g~~--p-~~  181 (445)
                      .+.+-..+...|++++|...+++....    |- .+-..++..+-..+...|++++|...+++...    .|..  + ..
T Consensus       494 ~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~  573 (903)
T PRK04841        494 TSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHE  573 (903)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHH
Confidence            566666778899999999999887642    11 11233455666778889999999999888654    2321  1 12


Q ss_pred             HHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHH
Q 013323          182 FCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYH  261 (445)
Q Consensus       182 ~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~  261 (445)
                      ..+..+-..+...|+.  +.+...++.......-                                  .+. ......+.
T Consensus       574 ~~~~~la~~~~~~G~~--~~A~~~~~~al~~~~~----------------------------------~~~-~~~~~~~~  616 (903)
T PRK04841        574 FLLRIRAQLLWEWARL--DEAEQCARKGLEVLSN----------------------------------YQP-QQQLQCLA  616 (903)
T ss_pred             HHHHHHHHHHHHhcCH--HHHHHHHHHhHHhhhc----------------------------------cCc-hHHHHHHH
Confidence            2333333445555765  7777776654332100                                  000 11123444


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhC----CCCCCH-HHH-HHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHH
Q 013323          262 VAFHACAELKDVQAMETLLEMLKKD----RKSPDV-YIV-MQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVE  335 (445)
Q Consensus       262 ~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~-~~~-~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  335 (445)
                      .+.......|+.+.|...+......    +..+.. ... ...+..+...|+.+.|.+++........... ........
T Consensus       617 ~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~-~~~~~~~~  695 (903)
T PRK04841        617 MLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANN-HFLQGQWR  695 (903)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccc-hhHHHHHH
Confidence            5566677889999999988876432    111111 111 1123445568999999999877554321111 11100111


Q ss_pred             hHhhcCChhhH-HHHHHHHHHHHhC----CCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHH
Q 013323          336 GAMFGYTPKGM-QLAQDTLVNMNSR----NIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQA  395 (445)
Q Consensus       336 ~~~~~~~~~g~-~~a~~~~~~m~~~----~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~  395 (445)
                      .+...+...|. ++|...+++....    |..+ ......++.+..+.+.|+.++|...+.+..+
T Consensus       696 ~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~-~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~  759 (903)
T PRK04841        696 NIARAQILLGQFDEAEIILEELNENARSLRLMS-DLNRNLILLNQLYWQQGRKSEAQRVLLEALK  759 (903)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchH-HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            11114566666 8888888876643    2222 1222233333445599999999999988875

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.52  E-value=0.0039  Score=48.66  Aligned_cols=96  Identities=11%  Similarity=0.128  Sum_probs=66.0

Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHH
Q 013323           78 LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACA  157 (445)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~  157 (445)
                      ....+...+...|+.++|...|+.....+ +.+...|..+-..+.+.|++++|..+|+.....+ +.+..++..+-..+.
T Consensus        19 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~   96 (135)
T TIGR02552        19 QIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLL   96 (135)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHH
Confidence            34445556667777777777777776654 2356677777777777777777777777766543 335566666677777


Q ss_pred             HcCChhhHHHHHHHHHHc
Q 013323          158 AAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       158 ~~g~~~~a~~~~~~m~~~  175 (445)
                      ..|++++|...|+...+.
T Consensus        97 ~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        97 ALGEPESALKALDLAIEI  114 (135)
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            777888887777777664

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>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=97.51  E-value=0.0017  Score=49.56  Aligned_cols=81  Identities=12%  Similarity=0.137  Sum_probs=70.9

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHh---------------CCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 013323          256 LLTVYHVAFHACAELKDVQAMETLLEMLKK---------------DRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYIC  320 (445)
Q Consensus       256 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---------------~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  320 (445)
                      |..++..+|.++++.|+++....+++..-.               ..+.|+..+..+++.+|+.+|++..|+++.+...+
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            456789999999999999999999876532               13568899999999999999999999999999988


Q ss_pred             C-CCCCCHHHHHHHHHh
Q 013323          321 S-EKFPPAELYATLVEG  336 (445)
Q Consensus       321 ~-~~~p~~~~~~~li~~  336 (445)
                      . ++..+..+|..|++-
T Consensus        81 ~Y~I~i~~~~W~~Ll~W   97 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLEW   97 (126)
T ss_pred             HcCCCCCHHHHHHHHHH
Confidence            8 888899999999984

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.50  E-value=0.024  Score=50.12  Aligned_cols=112  Identities=17%  Similarity=0.172  Sum_probs=70.0

Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhh
Q 013323          291 DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGS  369 (445)
Q Consensus       291 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~  369 (445)
                      |.+.|| +..+++..|++.+|+++|-.+....++ |..+|.+++.-   .|.+++. +.|++++-++   +-+.+..+.-
T Consensus       393 D~Fn~N-~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LAr---Cyi~nkkP~lAW~~~lk~---~t~~e~fsLL  464 (557)
T KOG3785|consen  393 DDFNLN-LAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLAR---CYIRNKKPQLAWDMMLKT---NTPSERFSLL  464 (557)
T ss_pred             chhhhH-HHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHH---HHHhcCCchHHHHHHHhc---CCchhHHHHH
Confidence            344444 567777888899999999877666555 66677766653   3677777 7777765444   3222333333


Q ss_pred             HHH-HHhhcccCCChhhHHHHHHHHHHCCCCCCHHH-------HHHHHhhhhc
Q 013323          370 DLL-LVAAGEKSGGYTTANYIWDLMQARKITPSLPA-------VEAYYNGLKD  414 (445)
Q Consensus       370 ~ll-~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~-------~~~l~~~~~~  414 (445)
                      .+| ..|-  +++.+=-|-+.|+.+...+  |+++-       ...++..++.
T Consensus       465 qlIAn~CY--k~~eFyyaaKAFd~lE~lD--P~pEnWeGKRGACaG~f~~l~~  513 (557)
T KOG3785|consen  465 QLIANDCY--KANEFYYAAKAFDELEILD--PTPENWEGKRGACAGLFRQLAN  513 (557)
T ss_pred             HHHHHHHH--HHHHHHHHHHhhhHHHccC--CCccccCCccchHHHHHHHHHc
Confidence            333 3343  8888888888888887543  55444       3445555544

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

Probab=97.50  E-value=0.045  Score=45.86  Aligned_cols=121  Identities=10%  Similarity=0.037  Sum_probs=69.1

Q ss_pred             cCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHH-HccCCCchHHH
Q 013323          124 CKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAH-TNKIPRADDTA  202 (445)
Q Consensus       124 ~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~-~~~~~~~~~~a  202 (445)
                      .++.+++...++...... +.|...|..+-..|...|++++|...|+...+..- -+...+..+-.++ ...|+...+.+
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P-~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRG-ENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            445556655555555433 34566677777777777777777777776666431 1344444444432 34443222555


Q ss_pred             HHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHH
Q 013323          203 TKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEM  282 (445)
Q Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  282 (445)
                      .++++...+..                                        +.+...+..+-..+.+.|++++|...|+.
T Consensus       130 ~~~l~~al~~d----------------------------------------P~~~~al~~LA~~~~~~g~~~~Ai~~~~~  169 (198)
T PRK10370        130 REMIDKALALD----------------------------------------ANEVTALMLLASDAFMQADYAQAIELWQK  169 (198)
T ss_pred             HHHHHHHHHhC----------------------------------------CCChhHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            55555554432                                        33445566666666677777777777777


Q ss_pred             HHhC
Q 013323          283 LKKD  286 (445)
Q Consensus       283 m~~~  286 (445)
                      +.+.
T Consensus       170 aL~l  173 (198)
T PRK10370        170 VLDL  173 (198)
T ss_pred             HHhh
Confidence            6654

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.50  E-value=0.019  Score=53.54  Aligned_cols=151  Identities=17%  Similarity=0.132  Sum_probs=119.3

Q ss_pred             HHHHHHHHHHHHhC-CCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCCCchHHHHH
Q 013323          127 SDQAIRIFEEMKKY-EVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGL-DKFCYAGLITAHTNKIPRADDTATK  204 (445)
Q Consensus       127 ~~~a~~~~~~m~~~-g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~~~~~~a~~  204 (445)
                      .+.....+++.... ...| +.+|...|+.--|..-+..|..+|.+..+.+..+ ++.++++++..+|...+   +.|-+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~-tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cskD~---~~Afr  422 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDL-TLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCSKDK---ETAFR  422 (656)
T ss_pred             hhhhHHHHHHHHhhhccCC-ceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhcCCh---hHHHH
Confidence            45666677776654 2333 4578899999999999999999999999988777 89999999999997643   88999


Q ss_pred             HHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHH
Q 013323          205 IIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLK  284 (445)
Q Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  284 (445)
                      +|+.=-+.-                                        ..+..--...+.-+...++-..+..+|+...
T Consensus       423 IFeLGLkkf----------------------------------------~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l  462 (656)
T KOG1914|consen  423 IFELGLKKF----------------------------------------GDSPEYVLKYLDFLSHLNDDNNARALFERVL  462 (656)
T ss_pred             HHHHHHHhc----------------------------------------CCChHHHHHHHHHHHHhCcchhHHHHHHHHH
Confidence            998733321                                        2233344567788888999999999999999


Q ss_pred             hCCCCCCH--HHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          285 KDRKSPDV--YIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       285 ~~~~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      ..++.||.  ..|..+|.--..-|++..+.++-+++...
T Consensus       463 ~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  463 TSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             hccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            88777764  58999999999999999999888777654

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

Probab=97.49  E-value=0.088  Score=53.75  Aligned_cols=218  Identities=12%  Similarity=0.133  Sum_probs=130.3

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHH-HHHHhcCCChhHHHH------------------HH
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSL-IVGTMKGSRLQDTFF------------------FR   99 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l-l~~~~~~~~~~~a~~------------------~~   99 (445)
                      .+...|-.|+..+...+++++|.++.+.-.+.  .|+...+-.+ -..+.+.++.+.+-.                  +.
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv~~l~~~~~~~~~~~ve~~~  106 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLLNLIDSFSQNLKWAIVEHIC  106 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhhhhhhhcccccchhHHHHHH
Confidence            45778899999999999999999999866553  3554432211 113444444433333                  33


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCC
Q 013323          100 DQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGL  179 (445)
Q Consensus       100 ~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  179 (445)
                      +.|...+  -+...+-.+..+|-+.|+.+++..+|++..+.. +-|+...|-+-..|... ++++|.+++.+....-+  
T Consensus       107 ~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~i--  180 (906)
T PRK14720        107 DKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYRFI--  180 (906)
T ss_pred             HHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHH--
Confidence            3333321  233456667777778888888888888888876 34677888888888888 88888888888776522  


Q ss_pred             CHHHHHHHHH---HHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCc
Q 013323          180 DKFCYAGLIT---AHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRL  256 (445)
Q Consensus       180 ~~~~~~~li~---~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~  256 (445)
                      +..-|+.+..   -++.....+.+...++.+.+..+.+.                                      ..-
T Consensus       181 ~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~--------------------------------------~~~  222 (906)
T PRK14720        181 KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREF--------------------------------------TRL  222 (906)
T ss_pred             hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhcc--------------------------------------chh
Confidence            2222333332   22222222223334444444332111                                      223


Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 013323          257 LTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYL  303 (445)
Q Consensus       257 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  303 (445)
                      ..++-.+-..|-..++++++..+++.+.+.. +-|.....-++..|.
T Consensus       223 ~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~-~~n~~a~~~l~~~y~  268 (906)
T PRK14720        223 VGLLEDLYEPYKALEDWDEVIYILKKILEHD-NKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHHHHHHhhhhhhhHHHHHHHHHHhcC-CcchhhHHHHHHHHH
Confidence            3456666667777777888888888777642 125555566666555

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.49  E-value=0.0046  Score=48.21  Aligned_cols=107  Identities=8%  Similarity=-0.006  Sum_probs=87.1

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLIS  119 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  119 (445)
                      +......+...+...|++++|.+.|+.....+ +.+...|..+-..+.+.|++++|...++...+.+ +.+..++..+-.
T Consensus        16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~   93 (135)
T TIGR02552        16 QLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAE   93 (135)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHH
Confidence            34556677788889999999999999998754 3466778888888999999999999999988765 456778888888


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCccHHHHH
Q 013323          120 VCGKCKNSDQAIRIFEEMKKYEVKPNGQTYV  150 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~  150 (445)
                      .+...|++++|...|+...+.  .|+...+.
T Consensus        94 ~~~~~g~~~~A~~~~~~al~~--~p~~~~~~  122 (135)
T TIGR02552        94 CLLALGEPESALKALDLAIEI--CGENPEYS  122 (135)
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--ccccchHH
Confidence            999999999999999998875  35554443

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

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

Probab=97.49  E-value=0.04  Score=46.83  Aligned_cols=49  Identities=16%  Similarity=0.325  Sum_probs=26.6

Q ss_pred             cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          272 DVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       272 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      .+..|.-+|++|-++ ..|+..+.+-...++...|++++|..++++...+
T Consensus       188 k~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~k  236 (299)
T KOG3081|consen  188 KIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDK  236 (299)
T ss_pred             hhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            355555555555432 3455555555555555555555555555555554

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

Probab=97.48  E-value=0.0065  Score=51.33  Aligned_cols=156  Identities=12%  Similarity=0.033  Sum_probs=110.5

Q ss_pred             HHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 013323           45 NTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKC  124 (445)
Q Consensus        45 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  124 (445)
                      ..+-..+...|+-+....+....... ..-|....+.......+.|++..|...+.+..... ++|..+||.+--+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            55556677777777777666554322 22355556668888888888888888888887654 47788888888888888


Q ss_pred             CCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHH
Q 013323          125 KNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATK  204 (445)
Q Consensus       125 g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~  204 (445)
                      |+.+.|..-|.+..+.-. -+...+|.+...+.-.|+.+.|..++......+-. |..+-..+.-.....|+.  +.|+.
T Consensus       148 Gr~~~Ar~ay~qAl~L~~-~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~--~~A~~  223 (257)
T COG5010         148 GRFDEARRAYRQALELAP-NEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDF--REAED  223 (257)
T ss_pred             cChhHHHHHHHHHHHhcc-CCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCCh--HHHHh
Confidence            888888888887776421 24556777777788888888888888888776532 566666666667777765  55655


Q ss_pred             HH
Q 013323          205 II  206 (445)
Q Consensus       205 ~~  206 (445)
                      +.
T Consensus       224 i~  225 (257)
T COG5010         224 IA  225 (257)
T ss_pred             hc
Confidence            54

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

Probab=97.48  E-value=0.038  Score=46.82  Aligned_cols=88  Identities=9%  Similarity=0.016  Sum_probs=42.6

Q ss_pred             HHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhh
Q 013323           85 GTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDP  164 (445)
Q Consensus        85 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~  164 (445)
                      .+...|+-+....+........ .-|....+.......+.|++..|+..|++..... ++|..+|+.+--+|.+.|+.++
T Consensus        75 a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~Gr~~~  152 (257)
T COG5010          75 ALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQLGRFDE  152 (257)
T ss_pred             HHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHccChhH
Confidence            3444444444444444332211 1233444445555555555555555555554322 3455555555555555555555


Q ss_pred             HHHHHHHHHH
Q 013323          165 VYAIVRDMTA  174 (445)
Q Consensus       165 a~~~~~~m~~  174 (445)
                      |..-|.+..+
T Consensus       153 Ar~ay~qAl~  162 (257)
T COG5010         153 ARRAYRQALE  162 (257)
T ss_pred             HHHHHHHHHH
Confidence            5555555544

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.46  E-value=0.088  Score=53.12  Aligned_cols=115  Identities=12%  Similarity=0.105  Sum_probs=64.4

Q ss_pred             HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCcccccccccc
Q 013323          146 GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNA  225 (445)
Q Consensus       146 ~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  225 (445)
                      +..|+.+..+-.+.|.+.+|.+-|-+   .   -|+..|..+++...+.|..  +...+.+....+...           
T Consensus      1104 p~vWsqlakAQL~~~~v~dAieSyik---a---dDps~y~eVi~~a~~~~~~--edLv~yL~MaRkk~~----------- 1164 (1666)
T KOG0985|consen 1104 PAVWSQLAKAQLQGGLVKDAIESYIK---A---DDPSNYLEVIDVASRTGKY--EDLVKYLLMARKKVR----------- 1164 (1666)
T ss_pred             hHHHHHHHHHHHhcCchHHHHHHHHh---c---CCcHHHHHHHHHHHhcCcH--HHHHHHHHHHHHhhc-----------
Confidence            34566666666666666665544321   1   2556666777777666654  555555544443311           


Q ss_pred             chhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 013323          226 ENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHS  305 (445)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  305 (445)
                                                  .|  .+=+.+|-+|++.+++.+.+++.       .-||..-...+-+-|...
T Consensus      1165 ----------------------------E~--~id~eLi~AyAkt~rl~elE~fi-------~gpN~A~i~~vGdrcf~~ 1207 (1666)
T KOG0985|consen 1165 ----------------------------EP--YIDSELIFAYAKTNRLTELEEFI-------AGPNVANIQQVGDRCFEE 1207 (1666)
T ss_pred             ----------------------------Cc--cchHHHHHHHHHhchHHHHHHHh-------cCCCchhHHHHhHHHhhh
Confidence                                        22  22345677777777766665544       235555555555666666


Q ss_pred             CChhhHHHHHH
Q 013323          306 GDIDNGHKVFE  316 (445)
Q Consensus       306 g~~~~a~~~~~  316 (445)
                      |.++.|.-+|.
T Consensus      1208 ~~y~aAkl~y~ 1218 (1666)
T KOG0985|consen 1208 KMYEAAKLLYS 1218 (1666)
T ss_pred             hhhHHHHHHHH
Confidence            66666665554

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.41  E-value=0.0065  Score=54.01  Aligned_cols=142  Identities=9%  Similarity=0.012  Sum_probs=103.7

Q ss_pred             hhHHHHHHHHHhcCcHhHHHHHHHHHHHCC-CCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013323           42 SEYNTVVTSLTSQRRFFLLRDVYDDMMLDG-VQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISV  120 (445)
Q Consensus        42 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  120 (445)
                      .+|-.++...-+.+..+.|..+|.+.++.+ +..+.....++|.-+ -.++.+.|.++|+...+. +..+...|..-++.
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~-~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYY-CNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHH-TCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            468889999999999999999999998653 233444444444333 356777799999998875 45678889999999


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCcc---HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHH
Q 013323          121 CGKCKNSDQAIRIFEEMKKYEVKPN---GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLI  188 (445)
Q Consensus       121 ~~~~g~~~~a~~~~~~m~~~g~~p~---~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  188 (445)
                      +.+.++.+.|..+|++.... +.++   ...|...+.-=.+.|+++.+..+.+.+.+.  .|+......++
T Consensus        80 l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~  147 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFS  147 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHH
Confidence            99999999999999999875 3222   258999999999999999999999988875  34433333343

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.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.36  E-value=0.0075  Score=53.63  Aligned_cols=143  Identities=13%  Similarity=0.105  Sum_probs=101.9

Q ss_pred             HHHHHHHHHHHHcCChhhHHHHHHHHHHcC-CCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCcccccccccc
Q 013323          147 QTYVCLLNACAAAGQLDPVYAIVRDMTAAG-AGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNA  225 (445)
Q Consensus       147 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  225 (445)
                      .+|..+|+..-|.+..+.|..+|.+..+.+ +..++....+.+..++..   +.+.|.+||+...+.-            
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~---d~~~A~~Ife~glk~f------------   66 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNK---DPKRARKIFERGLKKF------------   66 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS----HHHHHHHHHHHHHHH------------
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCC---CHHHHHHHHHHHHHHC------------
Confidence            468888888888888889999998887653 456667777777666543   3366888988866542            


Q ss_pred             chhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHH
Q 013323          226 ENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDV---YIVMQNIRCY  302 (445)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~---~~~~~li~~~  302 (445)
                                                  +.+...|..-+.-+.+.|+.+.|..+|+..... +.++.   ..|...+.-=
T Consensus        67 ----------------------------~~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE  117 (280)
T PF05843_consen   67 ----------------------------PSDPDFWLEYLDFLIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFE  117 (280)
T ss_dssp             ----------------------------TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHH
T ss_pred             ----------------------------CCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHH
Confidence                                        556677888888888899999999999988765 33322   4888888888


Q ss_pred             HhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHH
Q 013323          303 LHSGDIDNGHKVFEDYICSEKFPPAELYATLVE  335 (445)
Q Consensus       303 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  335 (445)
                      .+.|+++.+.++..++.+.  .|+......+++
T Consensus       118 ~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~~  148 (280)
T PF05843_consen  118 SKYGDLESVRKVEKRAEEL--FPEDNSLELFSD  148 (280)
T ss_dssp             HHHS-HHHHHHHHHHHHHH--TTTS-HHHHHHC
T ss_pred             HHcCCHHHHHHHHHHHHHH--hhhhhHHHHHHH
Confidence            8999999999998888774  344445555554

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=97.33  E-value=0.11  Score=52.53  Aligned_cols=232  Identities=12%  Similarity=0.085  Sum_probs=142.2

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYL  117 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  117 (445)
                      ..+..+-+.||..   -++.++|.+.-++.      -....|..+-.+-.+.|.+.+|.+-|=..      -|+..|-.+
T Consensus      1075 ~~n~~A~~VLie~---i~~ldRA~efAe~~------n~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eV 1139 (1666)
T KOG0985|consen 1075 DMNVSAIQVLIEN---IGSLDRAYEFAERC------NEPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEV 1139 (1666)
T ss_pred             cccHHHHHHHHHH---hhhHHHHHHHHHhh------CChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHH
Confidence            3455555555543   46677777776654      23467888888888888888876655322      467778888


Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCC
Q 013323          118 ISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPR  197 (445)
Q Consensus       118 l~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~  197 (445)
                      ++...+.|.+++-.+++....+..-+|...  +.+|-+|++.+++.+..+...       -|+......+=+-|...+..
T Consensus      1140 i~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi~-------gpN~A~i~~vGdrcf~~~~y 1210 (1666)
T KOG0985|consen 1140 IDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFIA-------GPNVANIQQVGDRCFEEKMY 1210 (1666)
T ss_pred             HHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHhc-------CCCchhHHHHhHHHhhhhhh
Confidence            888888888888888887666665555544  568888888888766554432       36766666676767666655


Q ss_pred             chHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHH
Q 013323          198 ADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAME  277 (445)
Q Consensus       198 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~  277 (445)
                        +.|+-++..+.....+....               -.+.....+-...++    ..+..||.-+-.+|...+.+..|.
T Consensus      1211 --~aAkl~y~~vSN~a~La~TL---------------V~LgeyQ~AVD~aRK----Ans~ktWK~VcfaCvd~~EFrlAQ 1269 (1666)
T KOG0985|consen 1211 --EAAKLLYSNVSNFAKLASTL---------------VYLGEYQGAVDAARK----ANSTKTWKEVCFACVDKEEFRLAQ 1269 (1666)
T ss_pred             --HHHHHHHHHhhhHHHHHHHH---------------HHHHHHHHHHHHhhh----ccchhHHHHHHHHHhchhhhhHHH
Confidence              66776666554322111000               000000000001111    345567777777777766655543


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 013323          278 TLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYI  319 (445)
Q Consensus       278 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~  319 (445)
                           |-...+.....-..-||.-|-..|-+++-..+++.-.
T Consensus      1270 -----iCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~L 1306 (1666)
T KOG0985|consen 1270 -----ICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGL 1306 (1666)
T ss_pred             -----hcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhh
Confidence                 2222334455566778888888888888887776543

>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=97.28  E-value=0.019  Score=53.09  Aligned_cols=125  Identities=11%  Similarity=0.095  Sum_probs=88.3

Q ss_pred             HHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccch
Q 013323          148 TYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAEN  227 (445)
Q Consensus       148 ~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  227 (445)
                      .-..++..+...++++.|.++|+++.+..  |+...  .+...+...++.  .+|.++.....+..              
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pev~~--~LA~v~l~~~~E--~~AI~ll~~aL~~~--------------  230 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERD--PEVAV--LLARVYLLMNEE--VEAIRLLNEALKEN--------------  230 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--CcHHH--HHHHHHHhcCcH--HHHHHHHHHHHHhC--------------
Confidence            34556666777888999999999998874  55433  355555444332  34444443322211              


Q ss_pred             hhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcC
Q 013323          228 EMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVY-IVMQNIRCYLHSG  306 (445)
Q Consensus       228 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~~g  306 (445)
                                                +.+..........|.+.++.+.|..+.++..+  ..|+.. +|..|..+|...|
T Consensus       231 --------------------------p~d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~  282 (395)
T PF09295_consen  231 --------------------------PQDSELLNLQAEFLLSKKKYELALEIAKKAVE--LSPSEFETWYQLAECYIQLG  282 (395)
T ss_pred             --------------------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--hCchhHHHHHHHHHHHHhcC
Confidence                                      44555666666778899999999999999876  567555 9999999999999


Q ss_pred             ChhhHHHHHHHHHh
Q 013323          307 DIDNGHKVFEDYIC  320 (445)
Q Consensus       307 ~~~~a~~~~~~m~~  320 (445)
                      +++.|+..++.+.-
T Consensus       283 d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  283 DFENALLALNSCPM  296 (395)
T ss_pred             CHHHHHHHHhcCcC
Confidence            99999999987763

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

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

Probab=97.27  E-value=0.09  Score=53.69  Aligned_cols=146  Identities=15%  Similarity=0.107  Sum_probs=81.4

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCC-----CCCHHHHHH
Q 013323          258 TVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEK-----FPPAELYAT  332 (445)
Q Consensus       258 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-----~p~~~~~~~  332 (445)
                      ..+-.+..+|-+.|+.+++..+++++.+.. +-|....|.+-..|+.. ++++|.+++......-+     ..=...|..
T Consensus       117 ~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~i~~kq~~~~~e~W~k  194 (906)
T PRK14720        117 LALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYRFIKKKQYVGIEEIWSK  194 (906)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHHhhhcchHHHHHHHH
Confidence            345567777777888888888888777654 33667777777777777 88888777776654411     111112222


Q ss_pred             HHHhHhhcCChhhHHHHHHHHHHHHhC-CCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhh
Q 013323          333 LVEGAMFGYTPKGMQLAQDTLVNMNSR-NIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNG  411 (445)
Q Consensus       333 li~~~~~~~~~~g~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~  411 (445)
                      ++.     +.....+.-..+.+.+... |..--..++-.+-.-|.  ...+|+++..+|+...+..-. |.....-++..
T Consensus       195 ~~~-----~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~--~~~~~~~~i~iLK~iL~~~~~-n~~a~~~l~~~  266 (906)
T PRK14720        195 LVH-----YNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYK--ALEDWDEVIYILKKILEHDNK-NNKAREELIRF  266 (906)
T ss_pred             HHh-----cCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHh--hhhhhhHHHHHHHHHHhcCCc-chhhHHHHHHH
Confidence            222     1111113333333333332 22222233333334443  778888888888888865432 44445556665


Q ss_pred             hh
Q 013323          412 LK  413 (445)
Q Consensus       412 ~~  413 (445)
                      |.
T Consensus       267 y~  268 (906)
T PRK14720        267 YK  268 (906)
T ss_pred             HH
Confidence            54

>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=97.19  E-value=0.0071  Score=43.12  Aligned_cols=83  Identities=13%  Similarity=0.151  Sum_probs=34.1

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHH
Q 013323           88 KGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYA  167 (445)
Q Consensus        88 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~  167 (445)
                      ..|++++|...++...+.. +.+...+..+...+...+++++|.+.|+...... +.+..++..+...+...|++++|..
T Consensus        12 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~   89 (100)
T cd00189          12 KLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGKYEEALE   89 (100)
T ss_pred             HHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHhHHHHHH
Confidence            3444444444444443322 1122333444444444444444444444443322 1122344444444444444444444


Q ss_pred             HHHHH
Q 013323          168 IVRDM  172 (445)
Q Consensus       168 ~~~~m  172 (445)
                      .+...
T Consensus        90 ~~~~~   94 (100)
T cd00189          90 AYEKA   94 (100)
T ss_pred             HHHHH
Confidence            44443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.17  E-value=0.019  Score=43.37  Aligned_cols=90  Identities=10%  Similarity=-0.028  Sum_probs=37.2

Q ss_pred             HhcCCChhHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC--CCccHHHHHHHHHHHHHcCC
Q 013323           86 TMKGSRLQDTFFFRDQMKANGF--LPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYE--VKPNGQTYVCLLNACAAAGQ  161 (445)
Q Consensus        86 ~~~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g--~~p~~~~y~~li~~~~~~g~  161 (445)
                      +.+.|++++|.+.|+.+.+..-  ......+..+..++.+.|+++.|...|+......  ......++..+..++.+.|+
T Consensus        12 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~   91 (119)
T TIGR02795        12 VLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGD   91 (119)
T ss_pred             HHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCC
Confidence            3344444444444444443210  0012233334444444555555555555444321  00112334444444444555


Q ss_pred             hhhHHHHHHHHHHc
Q 013323          162 LDPVYAIVRDMTAA  175 (445)
Q Consensus       162 ~~~a~~~~~~m~~~  175 (445)
                      .++|...++++.+.
T Consensus        92 ~~~A~~~~~~~~~~  105 (119)
T TIGR02795        92 KEKAKATLQQVIKR  105 (119)
T ss_pred             hHHHHHHHHHHHHH
Confidence            55555555544443

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.

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.15  E-value=0.023  Score=42.90  Aligned_cols=98  Identities=7%  Similarity=-0.070  Sum_probs=77.7

Q ss_pred             hhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCC----HHHHHHHHHHHhcCCChhHHHHHHHHHHHCC--CCCCHHHHH
Q 013323           42 SEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPT----RDLFHSLIVGTMKGSRLQDTFFFRDQMKANG--FLPDVAVYN  115 (445)
Q Consensus        42 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g--~~p~~~~~~  115 (445)
                      .++-.+...+.+.|++++|.+.|+.+.+..  |+    ...+..+..++.+.|+++.|.+.|+.+....  -.....++.
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~   80 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKY--PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALL   80 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHH
Confidence            355677788889999999999999998753  33    3456667888999999999999999988753  112256677


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCC
Q 013323          116 YLISVCGKCKNSDQAIRIFEEMKKYE  141 (445)
Q Consensus       116 ~ll~~~~~~g~~~~a~~~~~~m~~~g  141 (445)
                      .+..++.+.|+.++|...+++..+..
T Consensus        81 ~~~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        81 KLGMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHHHC
Confidence            88888999999999999999998864

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.

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.15  E-value=0.024  Score=54.90  Aligned_cols=154  Identities=11%  Similarity=0.088  Sum_probs=74.7

Q ss_pred             hhhHHhhccccccccccc--eeecchHHHHHHhcCCCCChhhH------HHHHHHHHhcCcHhHHHHHHHHHHHCCCCCC
Q 013323            4 LQSIYRHHKSVGGALGRR--FFVTSAGAEEYARRNYANNASEY------NTVVTSLTSQRRFFLLRDVYDDMMLDGVQPT   75 (445)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~p~~~~~------~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~   75 (445)
                      |..++.-+..++...|.+  .|+.-.....|..+.|+.-..+|      ...|..|-...+|++++.+-+-   .|. |-
T Consensus       512 lhd~~eiadeas~~~ggdgt~fykvra~lail~kkfk~ae~ifleqn~te~aigmy~~lhkwde~i~lae~---~~~-p~  587 (1636)
T KOG3616|consen  512 LHDILEIADEASIEIGGDGTDFYKVRAMLAILEKKFKEAEMIFLEQNATEEAIGMYQELHKWDEAIALAEA---KGH-PA  587 (1636)
T ss_pred             HHHHHHHHHHHhHhhCCCCchHHHHHHHHHHHHhhhhHHHHHHHhcccHHHHHHHHHHHHhHHHHHHHHHh---cCC-hH
Confidence            455555565555555443  34454455566666664333222      2345566666666666665442   222 22


Q ss_pred             HH-HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHH
Q 013323           76 RD-LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLN  154 (445)
Q Consensus        76 ~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~  154 (445)
                      .. .-.+.+.++...|+-+.|-++    ..+    +-.+ -+.|..|.+.|.+.+|.+....=..  +..|......+..
T Consensus       588 ~eklk~sy~q~l~dt~qd~ka~el----k~s----dgd~-laaiqlyika~~p~~a~~~a~n~~~--l~~de~il~~ia~  656 (1636)
T KOG3616|consen  588 LEKLKRSYLQALMDTGQDEKAAEL----KES----DGDG-LAAIQLYIKAGKPAKAARAALNDEE--LLADEEILEHIAA  656 (1636)
T ss_pred             HHHHHHHHHHHHHhcCchhhhhhh----ccc----cCcc-HHHHHHHHHcCCchHHHHhhcCHHH--hhccHHHHHHHHH
Confidence            22 223445555556655554332    211    1111 2356777777777766654421111  2234444555555


Q ss_pred             HHHHcCChhhHHHHHHHH
Q 013323          155 ACAAAGQLDPVYAIVRDM  172 (445)
Q Consensus       155 ~~~~~g~~~~a~~~~~~m  172 (445)
                      ++.+..-+++|-.+|+++
T Consensus       657 alik~elydkagdlfeki  674 (1636)
T KOG3616|consen  657 ALIKGELYDKAGDLFEKI  674 (1636)
T ss_pred             HHHhhHHHHhhhhHHHHh
Confidence            555444444444444444

>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=97.12  E-value=0.0094  Score=42.46  Aligned_cols=96  Identities=9%  Similarity=0.042  Sum_probs=77.8

Q ss_pred             hHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013323           43 EYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCG  122 (445)
Q Consensus        43 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  122 (445)
                      +|..+...+...|++++|...++...+.. +.+...+..+...+...++++.|.+.++...+.. +.+..++..+...+.
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~   79 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHH
Confidence            35567778888999999999999987753 2234667777888888999999999999988765 244568888899999


Q ss_pred             ccCCHHHHHHHHHHHHhC
Q 013323          123 KCKNSDQAIRIFEEMKKY  140 (445)
Q Consensus       123 ~~g~~~~a~~~~~~m~~~  140 (445)
                      ..|++++|...+....+.
T Consensus        80 ~~~~~~~a~~~~~~~~~~   97 (100)
T cd00189          80 KLGKYEEALEAYEKALEL   97 (100)
T ss_pred             HHHhHHHHHHHHHHHHcc
Confidence            999999999999887653

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

Probab=97.12  E-value=0.025  Score=44.79  Aligned_cols=129  Identities=21%  Similarity=0.194  Sum_probs=83.5

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHH
Q 013323          257 LTVYHVAFHACAELKDVQAMETLLEMLKKDRKSP--DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLV  334 (445)
Q Consensus       257 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li  334 (445)
                      ...|..++..+. .++...+...++.+....-.-  .....-.+-..+...|++++|...|+......  |+.......-
T Consensus        12 ~~~y~~~~~~~~-~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~--~d~~l~~~a~   88 (145)
T PF09976_consen   12 SALYEQALQALQ-AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANA--PDPELKPLAR   88 (145)
T ss_pred             HHHHHHHHHHHH-CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCHHHHHHHH
Confidence            346888888875 788899999899888753111  12233334577888999999999999999876  3332221111


Q ss_pred             HhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHH
Q 013323          335 EGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDL  392 (445)
Q Consensus       335 ~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~  392 (445)
                      -.+...+...|. ++|+..++......+  .+.  ...+.+-.+.+.|++++|...|++
T Consensus        89 l~LA~~~~~~~~~d~Al~~L~~~~~~~~--~~~--~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   89 LRLARILLQQGQYDEALATLQQIPDEAF--KAL--AAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHhccCcch--HHH--HHHHHHHHHHHCCCHHHHHHHHHH
Confidence            111124566777 999999876433322  222  233344445699999999999875

>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=0.012  Score=44.89  Aligned_cols=82  Identities=10%  Similarity=0.140  Sum_probs=56.0

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHH---------------HhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHc-
Q 013323          112 AVYNYLISVCGKCKNSDQAIRIFEEM---------------KKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAA-  175 (445)
Q Consensus       112 ~~~~~ll~~~~~~g~~~~a~~~~~~m---------------~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~-  175 (445)
                      .++.++|-++++.|+++....+++..               ....+.|+..+..+++.+|+.+|++..|+++.+...+. 
T Consensus         3 ~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y   82 (126)
T PF12921_consen    3 ELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKY   82 (126)
T ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHc
Confidence            34444555555555555544444332               22346788888889999998889999999988888764 


Q ss_pred             CCCCCHHHHHHHHHHHHc
Q 013323          176 GAGLDKFCYAGLITAHTN  193 (445)
Q Consensus       176 g~~p~~~~~~~li~~~~~  193 (445)
                      +++.+..+|..|++-...
T Consensus        83 ~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   83 PIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             CCCCCHHHHHHHHHHHHH
Confidence            677778888888875543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=97.08  E-value=0.094  Score=48.61  Aligned_cols=120  Identities=11%  Similarity=0.006  Sum_probs=73.3

Q ss_pred             HHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCCHHH
Q 013323           51 LTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD-VAVYNYLISVCGKCKNSDQ  129 (445)
Q Consensus        51 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~  129 (445)
                      +...|..++|+..++.+... .+-|..-+......+.+.++.++|.+.++.+....  |+ ...+-.+-.++.+.|++.+
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~--P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALALD--PNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCccHHHHHHHHHHHhcCChHH
Confidence            34556666777777666554 22234444455566667777777777777776643  44 4455556666777777777


Q ss_pred             HHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          130 AIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       130 a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      |..+++...... +-|+..|..+-.+|...|+..++.....+...
T Consensus       393 ai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~  436 (484)
T COG4783         393 AIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAEGYA  436 (484)
T ss_pred             HHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHHHHH
Confidence            777776666543 33566677777777777666666665555433

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.04  E-value=0.0012  Score=46.71  Aligned_cols=81  Identities=11%  Similarity=0.133  Sum_probs=48.4

Q ss_pred             CCChhHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHH
Q 013323           89 GSRLQDTFFFRDQMKANGF-LPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYA  167 (445)
Q Consensus        89 ~~~~~~a~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~  167 (445)
                      .|+++.|..+++.+.+..- .|+...+-.+-.+|.+.|++++|..+++. .+.+. .+....-.+-.++.+.|++++|.+
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            4667777777777776532 12344444567777777777777777776 22111 122333345677777777777777


Q ss_pred             HHHH
Q 013323          168 IVRD  171 (445)
Q Consensus       168 ~~~~  171 (445)
                      +|++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            7764

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.83  E-value=0.024  Score=48.53  Aligned_cols=102  Identities=23%  Similarity=0.220  Sum_probs=71.7

Q ss_pred             CCCHHHHHHHHHHHh-----cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC----------------HHHHH
Q 013323           73 QPTRDLFHSLIVGTM-----KGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKN----------------SDQAI  131 (445)
Q Consensus        73 ~p~~~~~~~ll~~~~-----~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~----------------~~~a~  131 (445)
                      +-|..+|-..+..+.     +.++++-....+..|.+.|+..|..+|+.||+.+-+..-                -+=+.
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            345666666665553     346777777888888888988899999988888765432                13467


Q ss_pred             HHHHHHHhCCCCccHHHHHHHHHHHHHcCCh-hhHHHHHHHHHH
Q 013323          132 RIFEEMKKYEVKPNGQTYVCLLNACAAAGQL-DPVYAIVRDMTA  174 (445)
Q Consensus       132 ~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~-~~a~~~~~~m~~  174 (445)
                      +++++|...|+.||-.+-.++++++.+.+-. .+...+.-.|.+
T Consensus       144 ~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmPk  187 (406)
T KOG3941|consen  144 KVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMPK  187 (406)
T ss_pred             HHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhhh
Confidence            7888888888888888888888888877654 344555555544

>PLN02789 farnesyltranstransferase

Probab=96.80  E-value=0.38  Score=43.58  Aligned_cols=208  Identities=6%  Similarity=-0.017  Sum_probs=128.9

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccC-CHHHHHHHHHHHHhCCCCccHHHHHHHHHHH
Q 013323           79 FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD-VAVYNYLISVCGKCK-NSDQAIRIFEEMKKYEVKPNGQTYVCLLNAC  156 (445)
Q Consensus        79 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~  156 (445)
                      +..+-..+...+..++|+.+++++.+..  |+ ..+|+.--.++...| ++++++.+++++.+... .+..+|+.--..+
T Consensus        40 ~~~~ra~l~~~e~serAL~lt~~aI~ln--P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~np-knyqaW~~R~~~l  116 (320)
T PLN02789         40 MDYFRAVYASDERSPRALDLTADVIRLN--PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNP-KNYQIWHHRRWLA  116 (320)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCC-cchHHhHHHHHHH
Confidence            3344444556788999999999999854  54 446776666666667 67999999999987643 3556677665555


Q ss_pred             HHcCCh--hhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccch
Q 013323          157 AAAGQL--DPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSK  234 (445)
Q Consensus       157 ~~~g~~--~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  234 (445)
                      .+.|+.  ++++.+++.+.+..- -+..+|+.--..+...|..  +.+...++.+.+..                     
T Consensus       117 ~~l~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~--~eeL~~~~~~I~~d---------------------  172 (320)
T PLN02789        117 EKLGPDAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGW--EDELEYCHQLLEED---------------------  172 (320)
T ss_pred             HHcCchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhH--HHHHHHHHHHHHHC---------------------
Confidence            566653  677888888887542 3567777766666666654  77777777766543                     


Q ss_pred             hhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhc---ccH----HHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhc-
Q 013323          235 EELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAEL---KDV----QAMETLLEMLKKDRKSP-DVYIVMQNIRCYLHS-  305 (445)
Q Consensus       235 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~---g~~----~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~-  305 (445)
                                         +.|...|+.....+.+.   |+.    +...........  ..| |...|+-+-..+... 
T Consensus       173 -------------------~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~--~~P~N~SaW~Yl~~ll~~~~  231 (320)
T PLN02789        173 -------------------VRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAIL--ANPRNESPWRYLRGLFKDDK  231 (320)
T ss_pred             -------------------CCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHH--hCCCCcCHHHHHHHHHhcCC
Confidence                               34455566554444443   222    344445444443  234 566777777777663 


Q ss_pred             ---CChhhHHHHHHHHHhCCCCCCHHHHHHHHH
Q 013323          306 ---GDIDNGHKVFEDYICSEKFPPAELYATLVE  335 (445)
Q Consensus       306 ---g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  335 (445)
                         ++..+|...+.+....++ .+......|++
T Consensus       232 ~~l~~~~~~~~~~~~~~~~~~-~s~~al~~l~d  263 (320)
T PLN02789        232 EALVSDPEVSSVCLEVLSKDS-NHVFALSDLLD  263 (320)
T ss_pred             cccccchhHHHHHHHhhcccC-CcHHHHHHHHH
Confidence               334557777766555322 23444444544

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=96.78  E-value=0.043  Score=53.22  Aligned_cols=108  Identities=8%  Similarity=0.111  Sum_probs=54.3

Q ss_pred             HHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHH
Q 013323           50 SLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQ  129 (445)
Q Consensus        50 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~  129 (445)
                      +......|.+|+.+++.++....  -..-|..+-.-|+..|+++.|.++|-+.         ..++..|.+|.+.|+|+.
T Consensus       741 aai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~d  809 (1636)
T KOG3616|consen  741 AAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWED  809 (1636)
T ss_pred             HHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHH
Confidence            33444555555555555544321  1223445555566666666666665432         123455666666666666


Q ss_pred             HHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHH
Q 013323          130 AIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVR  170 (445)
Q Consensus       130 a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~  170 (445)
                      |.++-.+..  |.......|-+-..-.-..|++.+|.++|-
T Consensus       810 a~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyi  848 (1636)
T KOG3616|consen  810 AFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYI  848 (1636)
T ss_pred             HHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeE
Confidence            666554433  222334444444444555555555555543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.78  E-value=0.049  Score=44.32  Aligned_cols=61  Identities=3%  Similarity=-0.053  Sum_probs=29.8

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 013323           79 FHSLIVGTMKGSRLQDTFFFRDQMKANGFLP--DVAVYNYLISVCGKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus        79 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  139 (445)
                      |..+...+...|++++|...|+........|  ...+|..+-..+...|++++|...++....
T Consensus        38 ~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         38 YYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444444445555555555555554432111  123455555555555555555555555543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=96.78  E-value=0.081  Score=43.22  Aligned_cols=114  Identities=5%  Similarity=-0.002  Sum_probs=62.3

Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHH
Q 013323           78 LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD--VAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNA  155 (445)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~  155 (445)
                      .|..+-..+...|++++|...|++..+.+..+.  ...+..+...+.+.|++++|...+++..... +-+...+..+...
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~  115 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            344555556666777777777776665432221  3466666677777777777777777666532 1134445555555


Q ss_pred             HHHcCC--------------hhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 013323          156 CAAAGQ--------------LDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIP  196 (445)
Q Consensus       156 ~~~~g~--------------~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~  196 (445)
                      +...|+              +++|.+++++....  .|+  .|..++..+...|+
T Consensus       116 ~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~--~p~--~~~~~~~~~~~~~~  166 (172)
T PRK02603        116 YHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRL--APN--NYIEAQNWLKTTGR  166 (172)
T ss_pred             HHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhh--Cch--hHHHHHHHHHhcCc
Confidence            555554              34445555444442  233  25555555554443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=96.77  E-value=0.0028  Score=44.72  Aligned_cols=81  Identities=11%  Similarity=0.114  Sum_probs=59.5

Q ss_pred             cCcHhHHHHHHHHHHHCCC-CCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 013323           54 QRRFFLLRDVYDDMMLDGV-QPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIR  132 (445)
Q Consensus        54 ~~~~~~a~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~  132 (445)
                      .|+++.|+.+++.+.+... .|+...+-.+-.++.+.|++++|..+++. .+.+. .+....-.+-.+|.+.|++++|.+
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            5889999999999988643 12444555578899999999999999988 32221 223444456788999999999999


Q ss_pred             HHHH
Q 013323          133 IFEE  136 (445)
Q Consensus       133 ~~~~  136 (445)
                      .|++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            9875

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=96.77  E-value=0.32  Score=48.28  Aligned_cols=247  Identities=13%  Similarity=0.117  Sum_probs=150.0

Q ss_pred             ChhhHHHHH--HHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHC-CC--------C
Q 013323           40 NASEYNTVV--TSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN-GF--------L  108 (445)
Q Consensus        40 ~~~~~~~li--~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-g~--------~  108 (445)
                      |..+--+++  +.|..-|+.+.|..-.+.++      +...|..+-+.|.+..+++-|.-.+..|... |.        .
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~  798 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQN  798 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhC
Confidence            555555555  35667789998887777664      4578999999999999999998888777542 11        1


Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHH
Q 013323          109 PDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLI  188 (445)
Q Consensus       109 p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  188 (445)
                      |+ .+=.-+--.....|-+++|+.+|++-+.         |..|=..|-..|.|++|+++-+.=-+-.++.+-+-|..-+
T Consensus       799 ~~-e~eakvAvLAieLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~L  868 (1416)
T KOG3617|consen  799 GE-EDEAKVAVLAIELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYL  868 (1416)
T ss_pred             Cc-chhhHHHHHHHHHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHH
Confidence            22 2222222334567889999999999886         5555566777899999998865433322332333333333


Q ss_pred             HHHHccCCCchHHHHHHHH-----------HHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCch
Q 013323          189 TAHTNKIPRADDTATKIIE-----------LVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLL  257 (445)
Q Consensus       189 ~~~~~~~~~~~~~a~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~  257 (445)
                      .+-   ++  .+.|.+.|+           .+.....                        .   ...-.++    ..|.
T Consensus       869 ear---~D--i~~AleyyEK~~~hafev~rmL~e~p~------------------------~---~e~Yv~~----~~d~  912 (1416)
T KOG3617|consen  869 EAR---RD--IEAALEYYEKAGVHAFEVFRMLKEYPK------------------------Q---IEQYVRR----KRDE  912 (1416)
T ss_pred             Hhh---cc--HHHHHHHHHhcCChHHHHHHHHHhChH------------------------H---HHHHHHh----ccch
Confidence            221   11  133433333           2222100                        0   0000011    3344


Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhH
Q 013323          258 TVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGA  337 (445)
Q Consensus       258 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  337 (445)
                      ..|.-.-..+-..|+.+.|..++...++         |-++++..|-.|++++|-++-++-   |   |....-.|-+  
T Consensus       913 ~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~es---g---d~AAcYhlaR--  975 (1416)
T KOG3617|consen  913 SLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEES---G---DKAACYHLAR--  975 (1416)
T ss_pred             HHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHhc---c---cHHHHHHHHH--
Confidence            4555555555667888888888877554         456778888899999998887643   2   3333333444  


Q ss_pred             hhcCChhhH-HHHHHHHHHHH
Q 013323          338 MFGYTPKGM-QLAQDTLVNMN  357 (445)
Q Consensus       338 ~~~~~~~g~-~~a~~~~~~m~  357 (445)
                        -|-..|. .+|..+|.+.+
T Consensus       976 --~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  976 --MYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             --HhhhhHHHHHHHHHHHHHH
Confidence              4777787 88888877654

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=96.77  E-value=0.083  Score=43.17  Aligned_cols=116  Identities=11%  Similarity=0.090  Sum_probs=80.1

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCC--HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPT--RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYL  117 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  117 (445)
                      ....|..+-..+...|++++|...|++..+....|+  ...+..+-..+.+.|++++|...+++..+.. +-+...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence            344567777888889999999999999887543332  3567888888999999999999999998854 2246667777


Q ss_pred             HHHHHccCC--------------HHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcC
Q 013323          118 ISVCGKCKN--------------SDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAG  160 (445)
Q Consensus       118 l~~~~~~g~--------------~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g  160 (445)
                      ..++...|+              +++|.+++++...    .+...|..++..+...|
T Consensus       113 g~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~----~~p~~~~~~~~~~~~~~  165 (172)
T PRK02603        113 AVIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIR----LAPNNYIEAQNWLKTTG  165 (172)
T ss_pred             HHHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHh----hCchhHHHHHHHHHhcC
Confidence            777877776              3445555555443    22233555555554444

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=96.75  E-value=0.73  Score=46.22  Aligned_cols=230  Identities=10%  Similarity=0.089  Sum_probs=154.7

Q ss_pred             HHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHH--hcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC
Q 013323           49 TSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGT--MKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKN  126 (445)
Q Consensus        49 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~--~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  126 (445)
                      -.....+++..|+.....+.+.-  ||. .|..+++++  .+.|..++|..+++.....+.. |..|...+-.+|-+.++
T Consensus        17 ~d~ld~~qfkkal~~~~kllkk~--Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~   92 (932)
T KOG2053|consen   17 YDLLDSSQFKKALAKLGKLLKKH--PNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGK   92 (932)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHC--CCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhh
Confidence            34457789999999888877652  663 455556654  5889999999999988877654 89999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCc--------
Q 013323          127 SDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRA--------  198 (445)
Q Consensus       127 ~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~--------  198 (445)
                      .++|..+|++....  -|+..-...+..+|+|.+.+.+-.++=-+|-+ .++-..+.+-++++-....-...        
T Consensus        93 ~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~  169 (932)
T KOG2053|consen   93 LDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPIL  169 (932)
T ss_pred             hhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchh
Confidence            99999999999864  57888888889999998887664444333333 23345666777776654332110        


Q ss_pred             hHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHH
Q 013323          199 DDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMET  278 (445)
Q Consensus       199 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~  278 (445)
                      ...|.+.++.+.+.+                                     |. ..+..-.-.-...+-..|+.++|..
T Consensus       170 l~LA~~m~~~~l~~~-------------------------------------gk-~~s~aE~~Lyl~iL~~~~k~~eal~  211 (932)
T KOG2053|consen  170 LALAEKMVQKLLEKK-------------------------------------GK-IESEAEIILYLLILELQGKYQEALE  211 (932)
T ss_pred             HHHHHHHHHHHhccC-------------------------------------Cc-cchHHHHHHHHHHHHhcccHHHHHH
Confidence            112233333322221                                     11 1111122223344556778999999


Q ss_pred             HHH-HHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCC
Q 013323          279 LLE-MLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEK  323 (445)
Q Consensus       279 ~~~-~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  323 (445)
                      ++. ..-+.-..-+...-+--+..+...+++.+..++-.++...|-
T Consensus       212 ~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~~  257 (932)
T KOG2053|consen  212 FLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKGN  257 (932)
T ss_pred             HHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhCC
Confidence            884 433333334666666778888899999999998888888753

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.75  E-value=0.031  Score=47.88  Aligned_cols=101  Identities=17%  Similarity=0.268  Sum_probs=81.1

Q ss_pred             CCChhhHHHHHHHHHhc-----CcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCC----------------ChhHHH
Q 013323           38 ANNASEYNTVVTSLTSQ-----RRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGS----------------RLQDTF   96 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~----------------~~~~a~   96 (445)
                      +.|..+|-..+..+...     +.++=..-.++.|++.|+.-|..+|+.||..+-+..                .-+-+.
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            67888888888777654     556666777899999999999999999999876532                445678


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHccCCH-HHHHHHHHHHH
Q 013323           97 FFRDQMKANGFLPDVAVYNYLISVCGKCKNS-DQAIRIFEEMK  138 (445)
Q Consensus        97 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~-~~a~~~~~~m~  138 (445)
                      +++++|..+|+.||..+-..|++++++.+.. .+..++.--|.
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            9999999999999999999999999998875 44445444444

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.75  E-value=0.15  Score=48.25  Aligned_cols=219  Identities=8%  Similarity=-0.015  Sum_probs=131.3

Q ss_pred             HhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhH
Q 013323           86 TMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPV  165 (445)
Q Consensus        86 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a  165 (445)
                      +.+.|++.+|.-.|+...+.+ +-+...|--|-......++-..|+.-+++..+.. +-|....-.|--.|...|.-..|
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHHH
Confidence            346777888888888777664 2356678777777777777777777777777643 12456666677777777777777


Q ss_pred             HHHHHHHHHcCCC--------CCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhh
Q 013323          166 YAIVRDMTAAGAG--------LDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEEL  237 (445)
Q Consensus       166 ~~~~~~m~~~g~~--------p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  237 (445)
                      +..++.-.....+        ++...-..  ..+....  ......++|-.+......                      
T Consensus       373 l~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~--~l~~i~~~fLeaa~~~~~----------------------  426 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSS--HLAHIQELFLEAARQLPT----------------------  426 (579)
T ss_pred             HHHHHHHHHhCccchhccccCccccccCC--cCCCCHH--HHHHHHHHHHHHHHhCCC----------------------
Confidence            7777665432210        00000000  0000000  002222223222222110                      


Q ss_pred             cchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHH
Q 013323          238 YNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSP-DVYIVMQNIRCYLHSGDIDNGHKVFE  316 (445)
Q Consensus       238 ~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~  316 (445)
                                      .+|..++..|--.|--.|.+++|...|+....  ++| |..+||-|=..++...+.++|...|+
T Consensus       427 ----------------~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~  488 (579)
T KOG1125|consen  427 ----------------KIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQ--VKPNDYLLWNRLGATLANGNRSEEAISAYN  488 (579)
T ss_pred             ----------------CCChhHHhhhHHHHhcchHHHHHHHHHHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHHHHH
Confidence                            24555566666666777888888888887766  456 55678888888888888888888888


Q ss_pred             HHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHH
Q 013323          317 DYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVN  355 (445)
Q Consensus       317 ~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~  355 (445)
                      +..+..-.--..-||.-|.     |...|. ++|.+.|-.
T Consensus       489 rALqLqP~yVR~RyNlgIS-----~mNlG~ykEA~~hlL~  523 (579)
T KOG1125|consen  489 RALQLQPGYVRVRYNLGIS-----CMNLGAYKEAVKHLLE  523 (579)
T ss_pred             HHHhcCCCeeeeehhhhhh-----hhhhhhHHHHHHHHHH
Confidence            8776521112345666664     667776 666666544

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.66  E-value=0.19  Score=44.80  Aligned_cols=131  Identities=8%  Similarity=0.129  Sum_probs=71.3

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--cC----ChhhHHHHHHHHHhCCC---CCCHHHHHHHHHhHhhcCCh
Q 013323          273 VQAMETLLEMLKKDRKSPDVYIVMQNIRCYLH--SG----DIDNGHKVFEDYICSEK---FPPAELYATLVEGAMFGYTP  343 (445)
Q Consensus       273 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~--~g----~~~~a~~~~~~m~~~~~---~p~~~~~~~li~~~~~~~~~  343 (445)
                      +++...+++.|++.|++-+.++|-+.......  ..    .+.+|..+|+.|++...   .++-..+.+|+.     -..
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA-----~~~  152 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLA-----MTS  152 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHh-----ccc
Confidence            55666777777777777776665542222222  22    24567777777777621   355666666664     122


Q ss_pred             hh---H-HHHHHHHHHHHhCCCCCCcc-hhhHHHHHhh-cccCCChhhHHHHHHHHHHCCCCCCHHHHHHH
Q 013323          344 KG---M-QLAQDTLVNMNSRNIFLSPR-MGSDLLLVAA-GEKSGGYTTANYIWDLMQARKITPSLPAVEAY  408 (445)
Q Consensus       344 ~g---~-~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~-~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l  408 (445)
                      ..   . +.+...++.+.+.|+..+-. -+.+-+.+.. -.......++..+++.+.+.|+++....|..+
T Consensus       153 ~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  153 EDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             ccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence            22   2 56667777777777654433 2222222222 01111134566777777777777665555533

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.61  E-value=0.69  Score=44.01  Aligned_cols=250  Identities=12%  Similarity=-0.010  Sum_probs=160.4

Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCCch
Q 013323          121 CGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLD-KFCYAGLITAHTNKIPRAD  199 (445)
Q Consensus       121 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~~~~~  199 (445)
                      +.+.|++.+|.-.|+.-...+ +-+...|--|-..-..+++-..|+..+++..+.  .|+ ....-.|--.|...|.-  
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~L--dP~NleaLmaLAVSytNeg~q--  369 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLEL--DPTNLEALMALAVSYTNEGLQ--  369 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhc--CCccHHHHHHHHHHHhhhhhH--
Confidence            567899999999999887764 236789999999999999999999999988874  455 44444555566666643  


Q ss_pred             HHHHHHHHHHHHhc-CCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHH
Q 013323          200 DTATKIIELVEQSK-GWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMET  278 (445)
Q Consensus       200 ~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~  278 (445)
                      ..|.+.++...... ........          ...                +...+.        ..+.....+....+
T Consensus       370 ~~Al~~L~~Wi~~~p~y~~l~~a----------~~~----------------~~~~~~--------~s~~~~~~l~~i~~  415 (579)
T KOG1125|consen  370 NQALKMLDKWIRNKPKYVHLVSA----------GEN----------------EDFENT--------KSFLDSSHLAHIQE  415 (579)
T ss_pred             HHHHHHHHHHHHhCccchhcccc----------Ccc----------------ccccCC--------cCCCCHHHHHHHHH
Confidence            55666666554332 22111100          000                000000        11222233445555


Q ss_pred             HHHHHH-hCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHH
Q 013323          279 LLEMLK-KDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNM  356 (445)
Q Consensus       279 ~~~~m~-~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m  356 (445)
                      +|-++. +.+..+|..++..|=-.|--.|++++|.+.|+...... +-|..+||.|=.    .++...+ .+|...|.+.
T Consensus       416 ~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~-Pnd~~lWNRLGA----tLAN~~~s~EAIsAY~rA  490 (579)
T KOG1125|consen  416 LFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVK-PNDYLLWNRLGA----TLANGNRSEEAISAYNRA  490 (579)
T ss_pred             HHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcC-CchHHHHHHhhH----HhcCCcccHHHHHHHHHH
Confidence            555544 45655677777777777888999999999999987752 237778998876    3455556 8999999999


Q ss_pred             HhCCCCCCc--chhhHHHHHhhcccCCChhhHHHHHHHHH---HCC------CCCCHHHHHHHHhhhhccCCCC
Q 013323          357 NSRNIFLSP--RMGSDLLLVAAGEKSGGYTTANYIWDLMQ---ARK------ITPSLPAVEAYYNGLKDREVPA  419 (445)
Q Consensus       357 ~~~~~~p~~--~~~~~ll~~~~~~~~g~~~~A~~~~~~m~---~~~------~~p~~~~~~~l~~~~~~~~~~~  419 (445)
                      ++.  +|+.  +=||.-| .|+  ..|.+++|.+.|=...   ..+      -.++...|..|=.++.-.++++
T Consensus       491 LqL--qP~yVR~RyNlgI-S~m--NlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D  559 (579)
T KOG1125|consen  491 LQL--QPGYVRVRYNLGI-SCM--NLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSD  559 (579)
T ss_pred             Hhc--CCCeeeeehhhhh-hhh--hhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCch
Confidence            885  4554  4566555 577  9999999998876544   221      1234456666655554444443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=96.59  E-value=0.059  Score=49.83  Aligned_cols=85  Identities=11%  Similarity=0.027  Sum_probs=38.4

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHH
Q 013323           88 KGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYA  167 (445)
Q Consensus        88 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~  167 (445)
                      ..|+++.|...|++..+.. +-+...|..+-.+|.+.|++++|+..+++..... +.+...|..+-.+|...|++++|..
T Consensus        14 ~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~eA~~   91 (356)
T PLN03088         14 VDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQTAKA   91 (356)
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            3444444554444444432 1233344444444445555555555555444422 1133344444444455555555555


Q ss_pred             HHHHHHH
Q 013323          168 IVRDMTA  174 (445)
Q Consensus       168 ~~~~m~~  174 (445)
                      .|++..+
T Consensus        92 ~~~~al~   98 (356)
T PLN03088         92 ALEKGAS   98 (356)
T ss_pred             HHHHHHH
Confidence            5544444

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=96.52  E-value=0.71  Score=43.08  Aligned_cols=136  Identities=11%  Similarity=0.021  Sum_probs=74.1

Q ss_pred             ccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCCchHH
Q 013323          123 KCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLD-KFCYAGLITAHTNKIPRADDT  201 (445)
Q Consensus       123 ~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~~~~~~~  201 (445)
                      ..|++++|+..++.+... .+-|...+......+.+.++.++|.+.++.+...  .|+ ....-.+-.++.+.|+.  .+
T Consensus       318 ~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~--~e  392 (484)
T COG4783         318 LAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKP--QE  392 (484)
T ss_pred             HhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCCh--HH
Confidence            456666666666665543 1223444555556666666666666666666654  344 23333344555555554  45


Q ss_pred             HHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHH
Q 013323          202 ATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLE  281 (445)
Q Consensus       202 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  281 (445)
                      +.+++.......                                        +.|...|..+-.+|...|+..++..-. 
T Consensus       393 ai~~L~~~~~~~----------------------------------------p~dp~~w~~LAqay~~~g~~~~a~~A~-  431 (484)
T COG4783         393 AIRILNRYLFND----------------------------------------PEDPNGWDLLAQAYAELGNRAEALLAR-  431 (484)
T ss_pred             HHHHHHHHhhcC----------------------------------------CCCchHHHHHHHHHHHhCchHHHHHHH-
Confidence            555554444321                                        445556666666666666665554332 


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          282 MLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       282 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                                       -..|...|+++.|...+....+.
T Consensus       432 -----------------AE~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         432 -----------------AEGYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             -----------------HHHHHhCCCHHHHHHHHHHHHHh
Confidence                             22345566666666666655554

>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=96.48  E-value=0.0094  Score=39.94  Aligned_cols=48  Identities=10%  Similarity=0.063  Sum_probs=18.7

Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 013323           90 SRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMK  138 (445)
Q Consensus        90 ~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  138 (445)
                      |++++|.++|+.+.+.. +-+...+-.+..+|.+.|++++|..+++.+.
T Consensus         5 ~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~   52 (68)
T PF14559_consen    5 GDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLL   52 (68)
T ss_dssp             THHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCH
T ss_pred             cCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34444444444443322 1133333344444444444444444444443

...

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

Probab=96.46  E-value=0.69  Score=42.26  Aligned_cols=157  Identities=11%  Similarity=-0.013  Sum_probs=95.2

Q ss_pred             cCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHH-HHHHHh-cCChhhHHHHHHHHHhCCCCCCHHHHH
Q 013323          254 SRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQN-IRCYLH-SGDIDNGHKVFEDYICSEKFPPAELYA  331 (445)
Q Consensus       254 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l-i~~~~~-~g~~~~a~~~~~~m~~~~~~p~~~~~~  331 (445)
                      +-+..+|..++++|...|++.+|..+-+...+. +.-+..+.+.+ -..|.- ..--|+|..+++.-..  +.|+-.---
T Consensus       365 p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~--~~P~Y~~AV  441 (564)
T KOG1174|consen  365 PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK--INPIYTPAV  441 (564)
T ss_pred             hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc--cCCccHHHH
Confidence            457788999999999999999888776654432 23345555533 122222 2223677777765444  334332222


Q ss_pred             HHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHh
Q 013323          332 TLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYN  410 (445)
Q Consensus       332 ~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~  410 (445)
                      .++.-   -+...|. ..+..++++....  .||....+.+-....  ....+++|+..|..-..  +.|...---.=++
T Consensus       442 ~~~AE---L~~~Eg~~~D~i~LLe~~L~~--~~D~~LH~~Lgd~~~--A~Ne~Q~am~~y~~ALr--~dP~~~~sl~Gl~  512 (564)
T KOG1174|consen  442 NLIAE---LCQVEGPTKDIIKLLEKHLII--FPDVNLHNHLGDIMR--AQNEPQKAMEYYYKALR--QDPKSKRTLRGLR  512 (564)
T ss_pred             HHHHH---HHHhhCccchHHHHHHHHHhh--ccccHHHHHHHHHHH--HhhhHHHHHHHHHHHHh--cCccchHHHHHHH
Confidence            22221   2466777 8888998887753  477777777777666  77888888888876653  4455443222344


Q ss_pred             hhhccCCCCCCC
Q 013323          411 GLKDREVPADDP  422 (445)
Q Consensus       411 ~~~~~~~~~~a~  422 (445)
                      -+.+...++||.
T Consensus       513 ~lEK~~~~~DAT  524 (564)
T KOG1174|consen  513 LLEKSDDESDAT  524 (564)
T ss_pred             HHHhccCCCCcc
Confidence            455555565555

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=96.45  E-value=0.084  Score=48.81  Aligned_cols=101  Identities=13%  Similarity=0.119  Sum_probs=81.2

Q ss_pred             HHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHH
Q 013323           49 TSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSD  128 (445)
Q Consensus        49 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~  128 (445)
                      ..+...|+++.|++.|++..+..- -+...|..+-.++.+.|++++|...++...+.. +.+...|..+-.+|...|+++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHH
Confidence            455678999999999999988642 356677788888999999999999999999865 235778888999999999999


Q ss_pred             HHHHHHHHHHhCCCCccHHHHHHHH
Q 013323          129 QAIRIFEEMKKYEVKPNGQTYVCLL  153 (445)
Q Consensus       129 ~a~~~~~~m~~~g~~p~~~~y~~li  153 (445)
                      +|...|++..+.  .|+.......+
T Consensus        88 eA~~~~~~al~l--~P~~~~~~~~l  110 (356)
T PLN03088         88 TAKAALEKGASL--APGDSRFTKLI  110 (356)
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHH
Confidence            999999999875  45544444443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.42  E-value=0.1  Score=42.44  Aligned_cols=97  Identities=13%  Similarity=0.084  Sum_probs=68.5

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCC--CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQP--TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYL  117 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  117 (445)
                      ....|..+...+...|++++|...|+........|  ...+|..+-..+...|+.++|...++...... +....+++.+
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~l  112 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNM  112 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHH
Confidence            35667777778888899999999999887653222  23467777788889999999999999888753 2334566666


Q ss_pred             HHHHH-------ccCCHHHHHHHHHHH
Q 013323          118 ISVCG-------KCKNSDQAIRIFEEM  137 (445)
Q Consensus       118 l~~~~-------~~g~~~~a~~~~~~m  137 (445)
                      ...+.       +.|+++.|+..+++-
T Consensus       113 a~i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        113 AVICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHHHhhHHHHHcccHHHHHHHHHHH
Confidence            66666       555566655555543

>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=96.41  E-value=0.025  Score=44.84  Aligned_cols=73  Identities=15%  Similarity=0.177  Sum_probs=52.0

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHH-----cCCCCCHHHHH
Q 013323          112 AVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA-----AGAGLDKFCYA  185 (445)
Q Consensus       112 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~  185 (445)
                      .+...++..+...|++++|..+.+...... +.|...|..+|.++...|+..+|.++|+.+..     -|+.|+..+-.
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            345567777888999999999999888754 34677899999999999999999999988753     48888876643

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=96.37  E-value=1.3  Score=44.54  Aligned_cols=101  Identities=14%  Similarity=0.171  Sum_probs=58.8

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH--HccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhH
Q 013323           88 KGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVC--GKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPV  165 (445)
Q Consensus        88 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~--~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a  165 (445)
                      ..+++..|.+-.+.+.+.-  |+.. |..++.++  .|.|+.++|..+++.....+.. |..|..++-.+|.+.++.++|
T Consensus        21 d~~qfkkal~~~~kllkk~--Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~   96 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKH--PNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEA   96 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHC--CCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHH
Confidence            4566666666666665432  3332 23333333  4566777777666666554433 666777777777777777777


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 013323          166 YAIVRDMTAAGAGLDKFCYAGLITAHTNK  194 (445)
Q Consensus       166 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~  194 (445)
                      ..+|+.....  -|+..-...++.+|.+.
T Consensus        97 ~~~Ye~~~~~--~P~eell~~lFmayvR~  123 (932)
T KOG2053|consen   97 VHLYERANQK--YPSEELLYHLFMAYVRE  123 (932)
T ss_pred             HHHHHHHHhh--CCcHHHHHHHHHHHHHH
Confidence            7777766654  35555555555555544

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.32  E-value=0.57  Score=39.86  Aligned_cols=80  Identities=11%  Similarity=0.061  Sum_probs=45.3

Q ss_pred             cCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhc---CChhhHHHHHHHHHhCCCCCCHHH
Q 013323          254 SRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSP-DVYIVMQNIRCYLHS---GDIDNGHKVFEDYICSEKFPPAEL  329 (445)
Q Consensus       254 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~~~~p~~~~  329 (445)
                      ..|...|.-+-..|...|++++|--.++++.-  +.| +...+..+-..+-..   .+++.|..+|....+..-+-....
T Consensus       151 ~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll--~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~ral  228 (289)
T KOG3060|consen  151 MNDQEAWHELAEIYLSEGDFEKAAFCLEELLL--IQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNLRAL  228 (289)
T ss_pred             cCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhHHHH
Confidence            55666777777777777777777777777765  345 333333443333332   345667777776665532223333


Q ss_pred             HHHHHH
Q 013323          330 YATLVE  335 (445)
Q Consensus       330 ~~~li~  335 (445)
                      |.+.+.
T Consensus       229 ~GI~lc  234 (289)
T KOG3060|consen  229 FGIYLC  234 (289)
T ss_pred             HHHHHH
Confidence            444433

>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=96.30  E-value=0.017  Score=38.70  Aligned_cols=64  Identities=11%  Similarity=0.119  Sum_probs=51.8

Q ss_pred             HhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013323           52 TSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLI  118 (445)
Q Consensus        52 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  118 (445)
                      .+.|++++|.++|+...+..- -|...+..+..++.+.|++++|.++++.+....  |+...|..++
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            568999999999999987642 277778889999999999999999999999864  7766665554

...

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.28  E-value=0.32  Score=43.44  Aligned_cols=158  Identities=10%  Similarity=0.046  Sum_probs=90.6

Q ss_pred             hhHHHHHHHHHHcCCCCCHHHHHHHHHHHHc--cCC--CchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhc
Q 013323          163 DPVYAIVRDMTAAGAGLDKFCYAGLITAHTN--KIP--RADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELY  238 (445)
Q Consensus       163 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~--~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  238 (445)
                      ++...+++.|.+.|+.-+..+|-+.......  ...  .....+..+++.|++...+-+                     
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLT---------------------  137 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLT---------------------  137 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCcccc---------------------
Confidence            4456677777777777776666654333322  111  113557778888887654432                     


Q ss_pred             chhhhhHHhhhcCcccCchhHHHHHHHHHHhcc--cHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCC--hhhHH
Q 013323          239 NLPTAEYVHRRGGFLSRLLTVYHVAFHACAELK--DVQAMETLLEMLKKDRKSPDV--YIVMQNIRCYLHSGD--IDNGH  312 (445)
Q Consensus       239 ~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~~~~p~~--~~~~~li~~~~~~g~--~~~a~  312 (445)
                                     .++-..+.+++..-...-  -.+.++.+++.+.+.|+..+-  ...+.++..+-....  +.++.
T Consensus       138 ---------------s~~D~~~a~lLA~~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~  202 (297)
T PF13170_consen  138 ---------------SPEDYPFAALLAMTSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVI  202 (297)
T ss_pred             ---------------CccchhHHHHHhcccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHH
Confidence                           334445665654411111  257788889998888877633  234444433322222  45788


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhh---H-HHHHHHHHHHHhC
Q 013323          313 KVFEDYICSEKFPPAELYATLVEGAMFGYTPKG---M-QLAQDTLVNMNSR  359 (445)
Q Consensus       313 ~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g---~-~~a~~~~~~m~~~  359 (445)
                      ++++.+.+.|+++...+|..+=-.   ++...+   . +...++.+.+.+.
T Consensus       203 ~l~~~l~~~~~kik~~~yp~lGlL---all~~~~~~~~~~i~ev~~~L~~~  250 (297)
T PF13170_consen  203 ELYNALKKNGVKIKYMHYPTLGLL---ALLEDPEEKIVEEIKEVIDELKEQ  250 (297)
T ss_pred             HHHHHHHHcCCccccccccHHHHH---HhcCCchHHHHHHHHHHHHHHhhC
Confidence            999999999999888887755321   222222   2 4555555555443

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=96.27  E-value=1.1  Score=42.42  Aligned_cols=360  Identities=11%  Similarity=-0.006  Sum_probs=178.5

Q ss_pred             HHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCCHH
Q 013323           50 SLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD-VAVYNYLISVCGKCKNSD  128 (445)
Q Consensus        50 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~  128 (445)
                      +....|+++.|...|-+-.... ++|...|.--..++++.|++++|.+==.+-.+  +.|+ ..-|+-.-.++.-.|+++
T Consensus        11 aa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~~   87 (539)
T KOG0548|consen   11 AAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDYE   87 (539)
T ss_pred             hhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccHH
Confidence            4467899999999998876654 34777788888899999999988765444444  4577 457888888888889999


Q ss_pred             HHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhH---HHHHHHHHHc---CCCCCHHHHHHHHHHHHccC-----CC
Q 013323          129 QAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPV---YAIVRDMTAA---GAGLDKFCYAGLITAHTNKI-----PR  197 (445)
Q Consensus       129 ~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a---~~~~~~m~~~---g~~p~~~~~~~li~~~~~~~-----~~  197 (445)
                      +|+.-|.+-.+.. +-|...++-+..++.-.....+.   -.++..+...   ........|..++..+-+..     ..
T Consensus        88 eA~~ay~~GL~~d-~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l  166 (539)
T KOG0548|consen   88 EAILAYSEGLEKD-PSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYL  166 (539)
T ss_pred             HHHHHHHHHhhcC-CchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhccc
Confidence            9999998877653 23455666666666111000000   0011111110   00112233444444443221     00


Q ss_pred             chHHHHHHHHHHHHhcCCccccccccccchhhcccch----hhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccH
Q 013323          198 ADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSK----EELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDV  273 (445)
Q Consensus       198 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~  273 (445)
                      ......+....+...+ ...........  .-....+    .............++   ...-..-+..+..+.-+..++
T Consensus       167 ~d~r~m~a~~~l~~~~-~~~~~~~~~~~--~~~~~~p~~~~~~~~~~~~d~~ee~~---~k~~a~~ek~lgnaaykkk~f  240 (539)
T KOG0548|consen  167 NDPRLMKADGQLKGVD-ELLFYASGIEI--LASMAEPCKQEHNGFPIIEDNTEERR---VKEKAHKEKELGNAAYKKKDF  240 (539)
T ss_pred             ccHHHHHHHHHHhcCc-ccccccccccc--CCCCCCcccccCCCCCccchhHHHHH---HHHhhhHHHHHHHHHHHhhhH
Confidence            0011111111111100 00000000000  0000000    000000000000000   000112233455555556667


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhh---cCChhhH-HHH
Q 013323          274 QAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMF---GYTPKGM-QLA  349 (445)
Q Consensus       274 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~---~~~~~g~-~~a  349 (445)
                      +.+.+-+....+..  -+..-++..-.+|...|.+..+...-+.-.+.|.. ...-|+.+-.++..   +|.+.+. +.+
T Consensus       241 ~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~a  317 (539)
T KOG0548|consen  241 ETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGA  317 (539)
T ss_pred             HHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHH
Confidence            77777776655533  34444555556777777766665555554444322 12223323222222   5556666 666


Q ss_pred             HHHHHHHHhCCCCCCcchhhH-----------------------HHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHH
Q 013323          350 QDTLVNMNSRNIFLSPRMGSD-----------------------LLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVE  406 (445)
Q Consensus       350 ~~~~~~m~~~~~~p~~~~~~~-----------------------ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~  406 (445)
                      ...|.+.......|+..+-..                       --.+..+.+.|++..|.+.|.++.++. +-|...|.
T Consensus       318 i~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYs  396 (539)
T KOG0548|consen  318 IKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYS  396 (539)
T ss_pred             HHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHH
Confidence            666666554433333311100                       011222569999999999999999877 33455566


Q ss_pred             HHHhhhhccCCCCCCCc
Q 013323          407 AYYNGLKDREVPADDPR  423 (445)
Q Consensus       407 ~l~~~~~~~~~~~~a~~  423 (445)
                      ----+|.+.|..+.|+.
T Consensus       397 NRAac~~kL~~~~~aL~  413 (539)
T KOG0548|consen  397 NRAACYLKLGEYPEALK  413 (539)
T ss_pred             HHHHHHHHHhhHHHHHH
Confidence            55556666666655543

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.20  E-value=0.73  Score=39.98  Aligned_cols=53  Identities=21%  Similarity=0.134  Sum_probs=36.0

Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCccHH-H---HHHHHHHHHHcCChhhHHHHHHHHHHc
Q 013323          121 CGKCKNSDQAIRIFEEMKKYEVKPNGQ-T---YVCLLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       121 ~~~~g~~~~a~~~~~~m~~~g~~p~~~-~---y~~li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      +.+.|++++|.+.|+.+...-  |+.. .   .-.+..++.+.+++++|...+++..+.
T Consensus        42 ~~~~g~y~~Ai~~f~~l~~~y--P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         42 KLQDGNWKQAITQLEALDNRY--PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            455788888888888887642  3221 1   234556677788888888888888775

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.18  E-value=0.14  Score=40.40  Aligned_cols=89  Identities=9%  Similarity=0.020  Sum_probs=69.0

Q ss_pred             HHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhh
Q 013323           85 GTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDP  164 (445)
Q Consensus        85 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~  164 (445)
                      .+...|++++|.++|+.+..... -+..-|-.|--++-..|++++|+..|......+. -|+..+-.+-.++...|+.+.
T Consensus        44 ~ly~~G~l~~A~~~f~~L~~~Dp-~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~~~~  121 (157)
T PRK15363         44 QLMEVKEFAGAARLFQLLTIYDA-WSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDNVCY  121 (157)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCCHHH
Confidence            35567889999999988887542 3455566677777778889999999988877653 467788888888888899999


Q ss_pred             HHHHHHHHHHc
Q 013323          165 VYAIVRDMTAA  175 (445)
Q Consensus       165 a~~~~~~m~~~  175 (445)
                      |.+.|+.....
T Consensus       122 A~~aF~~Ai~~  132 (157)
T PRK15363        122 AIKALKAVVRI  132 (157)
T ss_pred             HHHHHHHHHHH
Confidence            99888887764

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.17  E-value=0.53  Score=45.77  Aligned_cols=138  Identities=10%  Similarity=0.035  Sum_probs=96.6

Q ss_pred             hcCCCCChhhHHHHHHHHHhcC-----cHhHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcC--------CChhHHHHHH
Q 013323           34 RRNYANNASEYNTVVTSLTSQR-----RFFLLRDVYDDMMLDGVQPTRD-LFHSLIVGTMKG--------SRLQDTFFFR   99 (445)
Q Consensus        34 ~~~~~p~~~~~~~li~~~~~~~-----~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~--------~~~~~a~~~~   99 (445)
                      .+....|..+|...+.+.....     ....|.++|++..+.  .|+-. .|..+..++...        .++..+.+..
T Consensus       330 ~~~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~  407 (517)
T PRK10153        330 QQGLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTEL  407 (517)
T ss_pred             hccCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHH
Confidence            4555788899999998865533     367899999998875  47643 344332222211        1223333334


Q ss_pred             HHHHHC-CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHc
Q 013323          100 DQMKAN-GFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       100 ~~m~~~-g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      +..... ....+...|.++--.+...|++++|...+++.....  |+...|..+-..+...|+.++|.+.+++....
T Consensus       408 ~~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        408 DNIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             HHhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            333332 133455777777666667899999999999999864  78899999999999999999999999998774

>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=96.12  E-value=0.034  Score=44.05  Aligned_cols=109  Identities=13%  Similarity=0.247  Sum_probs=70.3

Q ss_pred             ChhhHHHHHH---HHHhcCcHhHHHHHHHHHHHC--C-CCCC----H--------------HHHHHHHHHHhcCCChhHH
Q 013323           40 NASEYNTVVT---SLTSQRRFFLLRDVYDDMMLD--G-VQPT----R--------------DLFHSLIVGTMKGSRLQDT   95 (445)
Q Consensus        40 ~~~~~~~li~---~~~~~~~~~~a~~~~~~m~~~--g-~~p~----~--------------~~~~~ll~~~~~~~~~~~a   95 (445)
                      |+..|..++.   .....++.+.+.+.+.+....  | +-|+    .              .....++..+...|+++.|
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            3444555543   234567777777777777652  2 1111    0              1234445556679999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH-----hCCCCccHHHH
Q 013323           96 FFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMK-----KYEVKPNGQTY  149 (445)
Q Consensus        96 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~-----~~g~~p~~~~y  149 (445)
                      ..+.+.+.... +.|...|..+|.+|...|+...|.++|+.+.     +.|+.|+..+-
T Consensus        82 ~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   82 LRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            99999999865 3578899999999999999999999999875     34899987763

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.10  E-value=0.35  Score=38.17  Aligned_cols=91  Identities=12%  Similarity=-0.034  Sum_probs=59.8

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCC
Q 013323          118 ISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPR  197 (445)
Q Consensus       118 l~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~  197 (445)
                      -.-+...|++++|.++|+.....+. -+..-|-.+--++-..|++++|...|.....-.. -|...+-.+=.++...|+.
T Consensus        42 A~~ly~~G~l~~A~~~f~~L~~~Dp-~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~~  119 (157)
T PRK15363         42 AMQLMEVKEFAGAARLFQLLTIYDA-WSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDNV  119 (157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCCH
Confidence            3345567788888888877766432 2445556666666677788888888877776552 3556666666666667765


Q ss_pred             chHHHHHHHHHHHHh
Q 013323          198 ADDTATKIIELVEQS  212 (445)
Q Consensus       198 ~~~~a~~~~~~~~~~  212 (445)
                        +.+++.|+.....
T Consensus       120 --~~A~~aF~~Ai~~  132 (157)
T PRK15363        120 --CYAIKALKAVVRI  132 (157)
T ss_pred             --HHHHHHHHHHHHH
Confidence              7777777765554

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.09  E-value=0.11  Score=44.14  Aligned_cols=147  Identities=12%  Similarity=0.069  Sum_probs=105.0

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLIS  119 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  119 (445)
                      -...-++++..+.-.+.+.-...++++.++..-+-+......|.+...+.||.+.|...|++..+..-+.|..+++.++.
T Consensus       176 l~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~  255 (366)
T KOG2796|consen  176 LGRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVL  255 (366)
T ss_pred             HHHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHH
Confidence            34445677777777888888888888888876566777788888888899999999999998876543455555555443


Q ss_pred             -----HHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHH
Q 013323          120 -----VCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLIT  189 (445)
Q Consensus       120 -----~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  189 (445)
                           .|.-+.++..|...|.+....+- .|+..-|.=.-+..-.|+..+|.+.++.|++.  .|...+-++++-
T Consensus       256 ~n~a~i~lg~nn~a~a~r~~~~i~~~D~-~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~es~~~  327 (366)
T KOG2796|consen  256 MNSAFLHLGQNNFAEAHRFFTEILRMDP-RNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHESVLF  327 (366)
T ss_pred             hhhhhheecccchHHHHHHHhhccccCC-CchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhhhHHH
Confidence                 45556788888888888877542 34555555555555568889999999999875  466666555443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.04  E-value=1.1  Score=40.55  Aligned_cols=58  Identities=17%  Similarity=0.152  Sum_probs=38.6

Q ss_pred             cCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHH
Q 013323          254 SRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFED  317 (445)
Q Consensus       254 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  317 (445)
                      .|+...|...|.+++..+++++.+++-..    .-  ++.-|..++.+|.+.|+..+|..+...
T Consensus       205 v~dkrfw~lki~aLa~~~~w~eL~~fa~s----kK--sPIGyepFv~~~~~~~~~~eA~~yI~k  262 (319)
T PF04840_consen  205 VPDKRFWWLKIKALAENKDWDELEKFAKS----KK--SPIGYEPFVEACLKYGNKKEASKYIPK  262 (319)
T ss_pred             CcHHHHHHHHHHHHHhcCCHHHHHHHHhC----CC--CCCChHHHHHHHHHCCCHHHHHHHHHh
Confidence            56666777777777777777777665432    11  225566677777777777777776665

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=95.85  E-value=0.059  Score=35.60  Aligned_cols=55  Identities=20%  Similarity=0.175  Sum_probs=30.4

Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          119 SVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      ..+.+.|++++|.+.|++..+.. +-+...+..+-.++...|++++|...|++..+
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34555566666666666665543 12455555555566666666666666665554

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=95.84  E-value=0.43  Score=36.04  Aligned_cols=52  Identities=17%  Similarity=0.126  Sum_probs=23.6

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 013323           88 KGSRLQDTFFFRDQMKANGFLPD--VAVYNYLISVCGKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus        88 ~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  139 (445)
                      ..|+.++|..+|+.....|+..+  ...+-.+-+.+-..|++++|+.+|++...
T Consensus        13 ~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~   66 (120)
T PF12688_consen   13 SLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALE   66 (120)
T ss_pred             hcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34455555555555555443322  12233333444445555555555554443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.63  E-value=0.6  Score=39.94  Aligned_cols=29  Identities=10%  Similarity=-0.033  Sum_probs=19.5

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMML   69 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~   69 (445)
                      ...|+.-+.++.+.+.++.|..=++.+.+
T Consensus        69 lq~wT~r~~~l~kLR~~~~a~~EL~~f~~   97 (366)
T KOG2796|consen   69 LQLWTVRLALLVKLRLFQNAEMELEPFGN   97 (366)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHhhhhhhcc
Confidence            44566777788888888877655555443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=95.61  E-value=0.7  Score=34.94  Aligned_cols=105  Identities=14%  Similarity=0.079  Sum_probs=76.9

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHCCCCCC--HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC----HHHHHHHHHHH
Q 013323           48 VTSLTSQRRFFLLRDVYDDMMLDGVQPT--RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD----VAVYNYLISVC  121 (445)
Q Consensus        48 i~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~ll~~~  121 (445)
                      -.++-..|+.++|+.+|++-...|....  ...+..+-+.+...|+.++|..++++.....  |+    ......+--++
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHH
Confidence            4566778999999999999999887655  2346667778889999999999999988753  43    22222233466


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHH
Q 013323          122 GKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA  158 (445)
Q Consensus       122 ~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~  158 (445)
                      ...|+.++|++.+-....    ++...|.--|..|..
T Consensus        86 ~~~gr~~eAl~~~l~~la----~~~~~y~ra~~~ya~  118 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEALA----ETLPRYRRAIRFYAD  118 (120)
T ss_pred             HHCCCHHHHHHHHHHHHH----HHHHHHHHHHHHHHh
Confidence            778999999998876653    444567766666653

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=95.54  E-value=0.27  Score=43.90  Aligned_cols=165  Identities=12%  Similarity=0.105  Sum_probs=98.0

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHH----CCCCCCHH--HHHHHHHHHhcC-CChhHHHHHHHHHHH----CCCCCC--
Q 013323           44 YNTVVTSLTSQRRFFLLRDVYDDMML----DGVQPTRD--LFHSLIVGTMKG-SRLQDTFFFRDQMKA----NGFLPD--  110 (445)
Q Consensus        44 ~~~li~~~~~~~~~~~a~~~~~~m~~----~g~~p~~~--~~~~ll~~~~~~-~~~~~a~~~~~~m~~----~g~~p~--  110 (445)
                      |......|- ..++++|.+.+++...    .| .|+..  .+..+-..|... |+++.|.+.|++..+    .| .+.  
T Consensus        78 ~~~Aa~~~k-~~~~~~Ai~~~~~A~~~y~~~G-~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a  154 (282)
T PF14938_consen   78 YEEAANCYK-KGDPDEAIECYEKAIEIYREAG-RFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSA  154 (282)
T ss_dssp             HHHHHHHHH-HTTHHHHHHHHHHHHHHHHHCT--HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHH
T ss_pred             HHHHHHHHH-hhCHHHHHHHHHHHHHHHHhcC-cHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhH
Confidence            333334433 3366666666665543    23 22222  355556667777 899999999888754    23 121  


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC-----CccHH-HHHHHHHHHHHcCChhhHHHHHHHHHHc--CCCCC--
Q 013323          111 VAVYNYLISVCGKCKNSDQAIRIFEEMKKYEV-----KPNGQ-TYVCLLNACAAAGQLDPVYAIVRDMTAA--GAGLD--  180 (445)
Q Consensus       111 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~-----~p~~~-~y~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~--  180 (445)
                      ..++..+...+.+.|++++|.++|++....-+     +.+.. .|-..+-++...||...|...|++....  ++..+  
T Consensus       155 ~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E  234 (282)
T PF14938_consen  155 AECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSRE  234 (282)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHH
Confidence            35677788889999999999999999876432     22332 2334455777789999999999998764  34333  


Q ss_pred             HHHHHHHHHHHHccCCCchHHHHHHHHHHHH
Q 013323          181 KFCYAGLITAHTNKIPRADDTATKIIELVEQ  211 (445)
Q Consensus       181 ~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~  211 (445)
                      ......||.++-....-....+..-|+.+.+
T Consensus       235 ~~~~~~l~~A~~~~D~e~f~~av~~~d~~~~  265 (282)
T PF14938_consen  235 YKFLEDLLEAYEEGDVEAFTEAVAEYDSISR  265 (282)
T ss_dssp             HHHHHHHHHHHHTT-CCCHHHHCHHHTTSS-
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHcccCc
Confidence            4566778888866543333334444443333

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=95.50  E-value=0.074  Score=35.11  Aligned_cols=52  Identities=10%  Similarity=0.064  Sum_probs=24.8

Q ss_pred             HhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 013323           86 TMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMK  138 (445)
Q Consensus        86 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  138 (445)
                      +.+.|++++|...|++..+.. +-+...+..+-.++.+.|++++|..+|++..
T Consensus         7 ~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    7 LYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344455555555555555443 1134444445555555555555555555544

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=95.47  E-value=0.29  Score=42.95  Aligned_cols=96  Identities=14%  Similarity=0.091  Sum_probs=55.0

Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHHHhC--CCCccHHHHHH
Q 013323           78 LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDV----AVYNYLISVCGKCKNSDQAIRIFEEMKKY--EVKPNGQTYVC  151 (445)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~m~~~--g~~p~~~~y~~  151 (445)
                      .|...+....+.|++++|...|+.+.+.-  |+.    ..+--+-..|...|++++|...|+.+...  +-......+-.
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            35555554455567777777777666542  322    34445556666677777777777766542  11112334444


Q ss_pred             HHHHHHHcCChhhHHHHHHHHHHc
Q 013323          152 LLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       152 li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      +...+...|+.++|..+|+.+.+.
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH
Confidence            555566667777777777666654

>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=95.46  E-value=0.094  Score=35.07  Aligned_cols=63  Identities=16%  Similarity=0.163  Sum_probs=37.4

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcC-ChhhHHHHHHHHHH
Q 013323          111 VAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAG-QLDPVYAIVRDMTA  174 (445)
Q Consensus       111 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g-~~~~a~~~~~~m~~  174 (445)
                      ..+|..+-..+.+.|++++|+..|++..+.. +-+...|..+-.++.+.| ++++|.+.++...+
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            4455666666666666666666666665542 124555666666666666 56666666665544

...

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.45  E-value=0.94  Score=35.41  Aligned_cols=128  Identities=13%  Similarity=0.082  Sum_probs=87.2

Q ss_pred             hHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013323           43 EYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCG  122 (445)
Q Consensus        43 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  122 (445)
                      .-..+|..+.+.+........++.+...+. .+...++.++..+++... +...+.++.  .    ++......+++.|.
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~-~~ll~~l~~--~----~~~yd~~~~~~~c~   80 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDP-QKEIERLDN--K----SNHYDIEKVGKLCE   80 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCH-HHHHHHHHh--c----cccCCHHHHHHHHH
Confidence            345678888888899999999999888763 677788899998886543 333333332  1    33444555888888


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHc-CChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 013323          123 KCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAA-GQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTN  193 (445)
Q Consensus       123 ~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~-g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  193 (445)
                      +.+.++++.-++..+..         |...+..+... ++++.|.+.+.+      .-+...|..++..+..
T Consensus        81 ~~~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~------~~~~~lw~~~~~~~l~  137 (140)
T smart00299       81 KAKLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVK------QNNPELWAEVLKALLD  137 (140)
T ss_pred             HcCcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHh------CCCHHHHHHHHHHHHc
Confidence            88888888888887753         34444444444 778888877765      1256677777766653

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=95.40  E-value=1.1  Score=39.91  Aligned_cols=24  Identities=13%  Similarity=0.036  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHcCChhhHHHHHHHH
Q 013323          149 YVCLLNACAAAGQLDPVYAIVRDM  172 (445)
Q Consensus       149 y~~li~~~~~~g~~~~a~~~~~~m  172 (445)
                      |...-..|-..+++++|.+.|...
T Consensus        38 y~~Aa~~fk~~~~~~~A~~ay~kA   61 (282)
T PF14938_consen   38 YEKAANCFKLAKDWEKAAEAYEKA   61 (282)
T ss_dssp             HHHHHHHHHHTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccchhHHHHHHH
Confidence            333444455556666666555554

>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=95.29  E-value=1.2  Score=35.73  Aligned_cols=136  Identities=13%  Similarity=0.077  Sum_probs=77.9

Q ss_pred             HHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHH
Q 013323          131 IRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVE  210 (445)
Q Consensus       131 ~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~  210 (445)
                      .++++.+.+.++.|+...|..+|..+.+.|++.    .+..+...++-+|.......+-.+....+.....+..++.++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~----~L~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFS----QLHQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH----HHHHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            456666677788888888888888888888744    4555666666667666665554444332211122222222222


Q ss_pred             HhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCC
Q 013323          211 QSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSP  290 (445)
Q Consensus       211 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  290 (445)
                      .                                               .+..+++.+...|++-+|.++.......    
T Consensus        90 ~-----------------------------------------------~~~~iievLL~~g~vl~ALr~ar~~~~~----  118 (167)
T PF07035_consen   90 T-----------------------------------------------AYEEIIEVLLSKGQVLEALRYARQYHKV----  118 (167)
T ss_pred             h-----------------------------------------------hHHHHHHHHHhCCCHHHHHHHHHHcCCc----
Confidence            1                                               2555677777778887777777654221    


Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          291 DVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       291 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      +......++.+-.+.++...=..+|+-....
T Consensus       119 ~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen  119 DSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            1122244556666666655555555544443

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

Probab=95.19  E-value=3.7  Score=40.78  Aligned_cols=72  Identities=8%  Similarity=0.156  Sum_probs=51.3

Q ss_pred             HhcCCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHC
Q 013323           33 ARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN  105 (445)
Q Consensus        33 ~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  105 (445)
                      ....+.-|...|..+--++.+.|+++.+-+.|++....-+ -....|..+-..+...|.-..|..+++.-...
T Consensus       315 r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~-~~~e~w~~~als~saag~~s~Av~ll~~~~~~  386 (799)
T KOG4162|consen  315 RLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSF-GEHERWYQLALSYSAAGSDSKAVNLLRESLKK  386 (799)
T ss_pred             HHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh-hhHHHHHHHHHHHHHhccchHHHHHHHhhccc
Confidence            3444567888899999999999999999999988754322 34456666666666677777777777665543

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=95.07  E-value=3.7  Score=40.10  Aligned_cols=149  Identities=9%  Similarity=0.048  Sum_probs=93.5

Q ss_pred             CCCccHHHHHHHHHHHHHcCC-----hhhHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCCc---hHHHHHHHHHHHH
Q 013323          141 EVKPNGQTYVCLLNACAAAGQ-----LDPVYAIVRDMTAAGAGLD-KFCYAGLITAHTNKIPRA---DDTATKIIELVEQ  211 (445)
Q Consensus       141 g~~p~~~~y~~li~~~~~~g~-----~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~~~~---~~~a~~~~~~~~~  211 (445)
                      +...|...|...+++.....+     .+.|..+|++..+.  .|+ ...|..+..++.......   .+......+...+
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            345678899999998655332     56899999998885  465 344444333222111111   1112222222222


Q ss_pred             hcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCC
Q 013323          212 SKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPD  291 (445)
Q Consensus       212 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  291 (445)
                      .....                                   ..+.+...|.++--.....|++++|...+++.....  |+
T Consensus       410 a~al~-----------------------------------~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps  452 (517)
T PRK10153        410 IVALP-----------------------------------ELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MS  452 (517)
T ss_pred             hhhcc-----------------------------------cCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CC
Confidence            10000                                   013344567766555666799999999999988754  78


Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHH
Q 013323          292 VYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELY  330 (445)
Q Consensus       292 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  330 (445)
                      ...|..+-..+...|+.++|.+.|++....  .|...||
T Consensus       453 ~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~~pt~  489 (517)
T PRK10153        453 WLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPGENTL  489 (517)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCchH
Confidence            889999999999999999999999987665  3444443

>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=95.03  E-value=1.1  Score=33.96  Aligned_cols=68  Identities=10%  Similarity=0.164  Sum_probs=49.2

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCC
Q 013323          256 LLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKF  324 (445)
Q Consensus       256 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  324 (445)
                      +...+...+......|+-+...++...+.+. -.++....-.+-.+|.+.|+..++-+++.+.-+.|++
T Consensus        85 ~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   85 LSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             --HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            3445777888889999999999999988763 3577777778899999999999999999998888764

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

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

Probab=94.92  E-value=4.5  Score=40.26  Aligned_cols=217  Identities=11%  Similarity=0.083  Sum_probs=131.1

Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCC
Q 013323           99 RDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAG  178 (445)
Q Consensus        99 ~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~  178 (445)
                      +.++....+.-|...|..|.-+..++|+++.+-+.|++....- .-..+.|+.+-..+.-.|.-..|..+++.-....-.
T Consensus       311 ~~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~  389 (799)
T KOG4162|consen  311 LRKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQ  389 (799)
T ss_pred             HHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccC
Confidence            3344444566789999999999999999999999999876432 235678999999999999999999999877664433


Q ss_pred             CCHHHHHHHHH-HHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCch
Q 013323          179 LDKFCYAGLIT-AHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLL  257 (445)
Q Consensus       179 p~~~~~~~li~-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~  257 (445)
                      |+..+--.+.. -|.+.-    ..++...++..+--+.-                              ....+.+.|  
T Consensus       390 ps~~s~~Lmasklc~e~l----~~~eegldYA~kai~~~------------------------------~~~~~~l~~--  433 (799)
T KOG4162|consen  390 PSDISVLLMASKLCIERL----KLVEEGLDYAQKAISLL------------------------------GGQRSHLKP--  433 (799)
T ss_pred             CCcchHHHHHHHHHHhch----hhhhhHHHHHHHHHHHh------------------------------hhhhhhhhh--
Confidence            54444333333 333221    23333333322211000                              000011111  


Q ss_pred             hHHHHHHHHHHhc-----------ccHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCC
Q 013323          258 TVYHVAFHACAEL-----------KDVQAMETLLEMLKKD-RKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFP  325 (445)
Q Consensus       258 ~~~~~li~~~~~~-----------g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  325 (445)
                      ..|-.+--+|...           ....++.+.+++..+. +-.|++..|-++-  |+..++++.|.+...+..+-+-.-
T Consensus       434 ~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~dp~~if~lalq--~A~~R~l~sAl~~~~eaL~l~~~~  511 (799)
T KOG4162|consen  434 RGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTDPLVIFYLALQ--YAEQRQLTSALDYAREALALNRGD  511 (799)
T ss_pred             hHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHH--HHHHHhHHHHHHHHHHHHHhcCCc
Confidence            1222222222211           1245666667766554 4456555555544  677788999999999988885555


Q ss_pred             CHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHh
Q 013323          326 PAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNS  358 (445)
Q Consensus       326 ~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~  358 (445)
                      ++..|.-|.-.    +...++ ..|+.+.+...+
T Consensus       512 ~~~~whLLALv----lSa~kr~~~Al~vvd~al~  541 (799)
T KOG4162|consen  512 SAKAWHLLALV----LSAQKRLKEALDVVDAALE  541 (799)
T ss_pred             cHHHHHHHHHH----HhhhhhhHHHHHHHHHHHH
Confidence            77777766653    355555 888888876543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=94.89  E-value=0.56  Score=41.13  Aligned_cols=103  Identities=10%  Similarity=0.080  Sum_probs=77.0

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCH----HHHHHHHHHHhcCCChhHHHHHHHHHHHCC--CCCCHHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTR----DLFHSLIVGTMKGSRLQDTFFFRDQMKANG--FLPDVAVY  114 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g--~~p~~~~~  114 (445)
                      ...|+..+..+.+.|++++|...|+.+.+.-  |+.    ..+-.+-..+...|++++|...|+.+.+.-  -+.....+
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl  220 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAM  220 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHH
Confidence            4457777766677899999999999998753  443    456667778889999999999999998642  11123444


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCccHH
Q 013323          115 NYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQ  147 (445)
Q Consensus       115 ~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  147 (445)
                      -.+...+...|+.++|..+|+...+.  .|+..
T Consensus       221 ~klg~~~~~~g~~~~A~~~~~~vi~~--yP~s~  251 (263)
T PRK10803        221 FKVGVIMQDKGDTAKAKAVYQQVIKK--YPGTD  251 (263)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHH--CcCCH
Confidence            45566777899999999999999875  35543

>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=94.80  E-value=0.16  Score=33.91  Aligned_cols=62  Identities=13%  Similarity=0.080  Sum_probs=35.2

Q ss_pred             HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC-CHHHHHHHHHHHH
Q 013323           76 RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCK-NSDQAIRIFEEMK  138 (445)
Q Consensus        76 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g-~~~~a~~~~~~m~  138 (445)
                      ..+|..+-..+...|++++|...|++..+.. +-+...|..+-.+|.+.| ++++|++.|++..
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            3445555555566666666666666665543 123455556666666666 4666666665544

...

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=94.78  E-value=0.25  Score=33.41  Aligned_cols=56  Identities=5%  Similarity=0.121  Sum_probs=31.8

Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHc
Q 013323          119 SVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      ..|.+.+++++|.++++.+...+ +.+...|...-.++.+.|++++|...|+...+.
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            34555666666666666665542 124445555556666666666666666666554

>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=94.76  E-value=0.12  Score=35.59  Aligned_cols=62  Identities=18%  Similarity=0.218  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhC----C-CCcc-HHHHHHHHHHHHHcCChhhHHHHHHHHH
Q 013323          112 AVYNYLISVCGKCKNSDQAIRIFEEMKKY----E-VKPN-GQTYVCLLNACAAAGQLDPVYAIVRDMT  173 (445)
Q Consensus       112 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g-~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~  173 (445)
                      .+|+.+-..|.+.|++++|+..|++..+.    | -.|+ ..+++.+-..+...|++++|++.+++..
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            45666666777777777777777665432    1 1122 4556666677777777777777766543

...

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=94.76  E-value=1.7  Score=40.27  Aligned_cols=145  Identities=11%  Similarity=0.149  Sum_probs=89.8

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCC-CCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHH-HHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDG-VQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVY-NYLI  118 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~-~~ll  118 (445)
                      ...|...|.+..+..-++.|..+|-+.++.| +.+++..++++|.-++ .|+...|..+|+-=...  -||...| +-.+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            4566777777777777777777777777777 5567777777777655 46666777777653332  1443333 4456


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCcc--HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 013323          119 SVCGKCKNSDQAIRIFEEMKKYEVKPN--GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAH  191 (445)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  191 (445)
                      ..+.+.++-+.|..+|+.-.++ +..+  ...|..+|.--..-|++..|..+=+.|.+.  .|...+.....+-|
T Consensus       474 ~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry  545 (660)
T COG5107         474 LFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRY  545 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHH
Confidence            6667777777777777744332 1112  356777777777777777777666666553  34444444444444

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=94.68  E-value=1.3  Score=38.87  Aligned_cols=101  Identities=11%  Similarity=-0.048  Sum_probs=72.3

Q ss_pred             CCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC---CHHHHHHHHHHHHhCCCCccHHHHH
Q 013323           74 PTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCK---NSDQAIRIFEEMKKYEVKPNGQTYV  150 (445)
Q Consensus        74 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g---~~~~a~~~~~~m~~~g~~p~~~~y~  150 (445)
                      -|...|-.|-.+|...|+.+.|..-|....+.. .++...+..+-.++....   ...++..+|++....+ +-|..+-.
T Consensus       154 ~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral~  231 (287)
T COG4235         154 GDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRALS  231 (287)
T ss_pred             CCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHHH
Confidence            367788888888888888888888888887653 245566666655554433   3467888888887754 23566666


Q ss_pred             HHHHHHHHcCChhhHHHHHHHHHHcC
Q 013323          151 CLLNACAAAGQLDPVYAIVRDMTAAG  176 (445)
Q Consensus       151 ~li~~~~~~g~~~~a~~~~~~m~~~g  176 (445)
                      .+-..+...|++.+|...++.|.+..
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~l  257 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLL  257 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcC
Confidence            77777888888888888888888763

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=94.65  E-value=2.7  Score=36.49  Aligned_cols=77  Identities=9%  Similarity=0.047  Sum_probs=50.1

Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCH-HHH---HHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHH
Q 013323           78 LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDV-AVY---NYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLL  153 (445)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~---~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li  153 (445)
                      .|..-.. +.+.|++++|.+.|+++...-  |+. ..-   =.+..++.+.+++++|...|++..+.-..-...-|...+
T Consensus        35 ~Y~~A~~-~~~~g~y~~Ai~~f~~l~~~y--P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~  111 (243)
T PRK10866         35 IYATAQQ-KLQDGNWKQAITQLEALDNRY--PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYM  111 (243)
T ss_pred             HHHHHHH-HHHCCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHH
Confidence            3444443 456899999999999998753  433 222   235577889999999999999998752221223444445


Q ss_pred             HHHH
Q 013323          154 NACA  157 (445)
Q Consensus       154 ~~~~  157 (445)
                      .+.+
T Consensus       112 ~g~~  115 (243)
T PRK10866        112 RGLT  115 (243)
T ss_pred             HHHh
Confidence            5443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.36  E-value=3  Score=35.73  Aligned_cols=184  Identities=15%  Similarity=0.092  Sum_probs=125.2

Q ss_pred             cCCHHHHHHHHHHHHh---CC-CCccHH-HHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCH----HHHHHHHHHHHcc
Q 013323          124 CKNSDQAIRIFEEMKK---YE-VKPNGQ-TYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDK----FCYAGLITAHTNK  194 (445)
Q Consensus       124 ~g~~~~a~~~~~~m~~---~g-~~p~~~-~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~  194 (445)
                      ..+.++.++++.++..   +| ..|+.. .|..++-+....|+.+-|..+++.+...-  |..    .....++.+-.  
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~--  100 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATG--  100 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhh--
Confidence            4578889999888864   34 556644 57778888888999999999999988763  332    22333444433  


Q ss_pred             CCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHH
Q 013323          195 IPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQ  274 (445)
Q Consensus       195 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~  274 (445)
                       ..  +.|.++++.+...+                                        +.|..+|--=+...-..|+--
T Consensus       101 -~~--~~A~e~y~~lL~dd----------------------------------------pt~~v~~KRKlAilka~GK~l  137 (289)
T KOG3060|consen  101 -NY--KEAIEYYESLLEDD----------------------------------------PTDTVIRKRKLAILKAQGKNL  137 (289)
T ss_pred             -ch--hhHHHHHHHHhccC----------------------------------------cchhHHHHHHHHHHHHcCCcH
Confidence             22  77888888776543                                        567777776666666667655


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCC-CHHHHHHHHHhHhhcCChhh--H-HHHH
Q 013323          275 AMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFP-PAELYATLVEGAMFGYTPKG--M-QLAQ  350 (445)
Q Consensus       275 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~g--~-~~a~  350 (445)
                      +|.+-+....+. +..|...|.-+-..|...|++++|.-.++++.-.  .| ++-.|..+-+.+   |...|  . ..+.
T Consensus       138 ~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~--~P~n~l~f~rlae~~---Yt~gg~eN~~~ar  211 (289)
T KOG3060|consen  138 EAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLI--QPFNPLYFQRLAEVL---YTQGGAENLELAR  211 (289)
T ss_pred             HHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHc--CCCcHHHHHHHHHHH---HHHhhHHHHHHHH
Confidence            666666655543 5568888999999999999999999999888765  33 344444444432   44444  2 6778


Q ss_pred             HHHHHHHhCC
Q 013323          351 DTLVNMNSRN  360 (445)
Q Consensus       351 ~~~~~m~~~~  360 (445)
                      +.+.+..+..
T Consensus       212 kyy~~alkl~  221 (289)
T KOG3060|consen  212 KYYERALKLN  221 (289)
T ss_pred             HHHHHHHHhC
Confidence            8888777643

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=94.28  E-value=0.69  Score=40.37  Aligned_cols=101  Identities=15%  Similarity=0.114  Sum_probs=83.4

Q ss_pred             HhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcc-HHHHHHHHHHHHHcCChhh
Q 013323           86 TMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPN-GQTYVCLLNACAAAGQLDP  164 (445)
Q Consensus        86 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~y~~li~~~~~~g~~~~  164 (445)
                      ..+.+++++|...|.+..+.. +-|.+-|..--.+|++.|.++.|++=-+.-..-  .|. ..+|..|-.+|...|++++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccCcHHH
Confidence            567899999999999999864 246777888899999999999999887777653  343 5689999999999999999


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 013323          165 VYAIVRDMTAAGAGLDKFCYAGLITAH  191 (445)
Q Consensus       165 a~~~~~~m~~~g~~p~~~~~~~li~~~  191 (445)
                      |.+.|++..+  +.|+..+|..=+...
T Consensus       168 A~~aykKaLe--ldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  168 AIEAYKKALE--LDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHHHhhhc--cCCCcHHHHHHHHHH
Confidence            9999988777  578888877766544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=94.26  E-value=0.33  Score=32.77  Aligned_cols=54  Identities=6%  Similarity=-0.026  Sum_probs=28.2

Q ss_pred             HHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 013323           85 GTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus        85 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  139 (445)
                      .+.+.++++.|.++++.+.+.+ +.+...|...-.++.+.|++++|.+.|+...+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3445555555555555555543 12344444455555555555555555555554

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=94.10  E-value=8.2  Score=39.84  Aligned_cols=65  Identities=8%  Similarity=-0.079  Sum_probs=48.9

Q ss_pred             cCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHH--HHHHHhcCChhhHHHHHHHHHhC
Q 013323          254 SRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQN--IRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       254 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l--i~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      +.|...|..+..+|.+.|++..|.++|.+...  ++|+.. |...  -..-|..|.+.+|...+..+...
T Consensus       593 PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~--LrP~s~-y~~fk~A~~ecd~GkYkeald~l~~ii~~  659 (1238)
T KOG1127|consen  593 PKDYNLWLGLGEAYPESGRYSHALKVFTKASL--LRPLSK-YGRFKEAVMECDNGKYKEALDALGLIIYA  659 (1238)
T ss_pred             chhHHHHHHHHHHHHhcCceehHHHhhhhhHh--cCcHhH-HHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            66778899999999999999999999987655  456432 2222  22357789999999988887643

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=94.02  E-value=3.5  Score=38.35  Aligned_cols=130  Identities=17%  Similarity=0.124  Sum_probs=76.4

Q ss_pred             HHHHHHHHHHHHHcCChhhHHHHHHHHHHcC-CCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccc
Q 013323          146 GQTYVCLLNACAAAGQLDPVYAIVRDMTAAG-AGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNN  224 (445)
Q Consensus       146 ~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  224 (445)
                      ...|...|+.-.|..-++.|..+|-+..+.| +.+++.+++++|..++...+   ..|-++|+.=...            
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~~d~---~ta~~ifelGl~~------------  461 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYATGDR---ATAYNIFELGLLK------------  461 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhcCCc---chHHHHHHHHHHh------------
Confidence            4566667777777777777777777777776 46677777777777765432   5566666652221            


Q ss_pred             cchhhcccchhhhcchhhhhHHhhhcCcccCchhHH-HHHHHHHHhcccHHHHHHHHHHHHhCCCCCC--HHHHHHHHHH
Q 013323          225 AENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVY-HVAFHACAELKDVQAMETLLEMLKKDRKSPD--VYIVMQNIRC  301 (445)
Q Consensus       225 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~-~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~  301 (445)
                                                   .||...| +-.+.-+...++-+.|..+|+.-.+. +..+  ...|..+|.-
T Consensus       462 -----------------------------f~d~~~y~~kyl~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~Y  511 (660)
T COG5107         462 -----------------------------FPDSTLYKEKYLLFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEY  511 (660)
T ss_pred             -----------------------------CCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHH
Confidence                                         2332222 33455556666666677676643321 1112  3456666666


Q ss_pred             HHhcCChhhHHHHHHHHHh
Q 013323          302 YLHSGDIDNGHKVFEDYIC  320 (445)
Q Consensus       302 ~~~~g~~~~a~~~~~~m~~  320 (445)
                      -..-|++..+..+=+.|..
T Consensus       512 Es~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         512 ESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHhhcchHHHHhHHHHHHH
Confidence            6666776666655555544

>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=94.01  E-value=2.6  Score=33.83  Aligned_cols=134  Identities=12%  Similarity=0.181  Sum_probs=83.5

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC--CHHHHHHHHHHH
Q 013323           60 LRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCK--NSDQAIRIFEEM  137 (445)
Q Consensus        60 a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g--~~~~a~~~~~~m  137 (445)
                      ..+..+.+.+.|++|+...|..+++.+.+.|.+..    +.++.+.++-+|.......+-.+....  -..-|++.+.++
T Consensus        13 llEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL   88 (167)
T PF07035_consen   13 LLEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRL   88 (167)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHh
Confidence            35566677778899999999999999998887654    455666666666555544443333221  123444444444


Q ss_pred             HhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHH
Q 013323          138 KKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQ  211 (445)
Q Consensus       138 ~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~  211 (445)
                      .        ..+..++..+...|++-+|..+.+.....    +......++++-.+.++.  ..--.++...+.
T Consensus        89 ~--------~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~--~lf~~V~~ff~~  148 (167)
T PF07035_consen   89 G--------TAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDD--QLFYAVFRFFEE  148 (167)
T ss_pred             h--------hhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCH--HHHHHHHHHHHH
Confidence            3        24777888888899999888888775332    222234566666665543  455555555554

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=94.01  E-value=4.6  Score=36.62  Aligned_cols=109  Identities=17%  Similarity=0.137  Sum_probs=78.7

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHh
Q 013323          259 VYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAM  338 (445)
Q Consensus       259 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  338 (445)
                      +.+..|.-|...|+...|.++-.+.+    .||...|-.-|.+++..++|++-.++...    .  -++.-|-..+.+  
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s----k--KsPIGyepFv~~--  246 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS----K--KSPIGYEPFVEA--  246 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC----C--CCCCChHHHHHH--
Confidence            45566777888899988888876653    48899999999999999999987775432    1  145778888884  


Q ss_pred             hcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHH
Q 013323          339 FGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLM  393 (445)
Q Consensus       339 ~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m  393 (445)
                        |.+.|. .+|...+.++          ++..-+..|.  +.|++.+|.+.--+.
T Consensus       247 --~~~~~~~~eA~~yI~k~----------~~~~rv~~y~--~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  247 --CLKYGNKKEASKYIPKI----------PDEERVEMYL--KCGDYKEAAQEAFKE  288 (319)
T ss_pred             --HHHCCCHHHHHHHHHhC----------ChHHHHHHHH--HCCCHHHHHHHHHHc
Confidence              455666 7788877662          2244456666  999999997775444

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

>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=93.37  E-value=5.5  Score=35.44  Aligned_cols=156  Identities=9%  Similarity=0.058  Sum_probs=95.2

Q ss_pred             HhcCcHhHHHHHHHHHHHCC--CCCCHH------HHHHHHHHHhcCCChhHHHHHHHHHHHC--------CCCCCH----
Q 013323           52 TSQRRFFLLRDVYDDMMLDG--VQPTRD------LFHSLIVGTMKGSRLQDTFFFRDQMKAN--------GFLPDV----  111 (445)
Q Consensus        52 ~~~~~~~~a~~~~~~m~~~g--~~p~~~------~~~~ll~~~~~~~~~~~a~~~~~~m~~~--------g~~p~~----  111 (445)
                      .+.|+++.|..++.+....-  ..|+..      .|+.-.+.+.+..+++.|..++++..+.        ...|+.    
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr   83 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELR   83 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHH
Confidence            46789999999998876632  334433      3555555555554777777666654322        123333    


Q ss_pred             -HHHHHHHHHHHccCCH---HHHHHHHHHHHhCCCCcc-HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHH
Q 013323          112 -AVYNYLISVCGKCKNS---DQAIRIFEEMKKYEVKPN-GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAG  186 (445)
Q Consensus       112 -~~~~~ll~~~~~~g~~---~~a~~~~~~m~~~g~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  186 (445)
                       .+...++.+|...+..   ++|.++++.+....  |+ ..+|-.-+..+.+.++.+++.+++..|...-. -....+..
T Consensus        84 ~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~--~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~-~~e~~~~~  160 (278)
T PF08631_consen   84 LSILRLLANAYLEWDTYESVEKALNALRLLESEY--GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVD-HSESNFDS  160 (278)
T ss_pred             HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC--CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcc-cccchHHH
Confidence             5678888899888775   45666777775442  33 45565667777778999999999999998622 13344555


Q ss_pred             HHHHHHccCCCchHHHHHHHHHHH
Q 013323          187 LITAHTNKIPRADDTATKIIELVE  210 (445)
Q Consensus       187 li~~~~~~~~~~~~~a~~~~~~~~  210 (445)
                      ++..+....+.....+...++.+-
T Consensus       161 ~l~~i~~l~~~~~~~a~~~ld~~l  184 (278)
T PF08631_consen  161 ILHHIKQLAEKSPELAAFCLDYLL  184 (278)
T ss_pred             HHHHHHHHHhhCcHHHHHHHHHHH
Confidence            554442222222244444444433

It is also involved in sporulation [].

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=93.37  E-value=4.3  Score=34.15  Aligned_cols=55  Identities=16%  Similarity=0.173  Sum_probs=31.6

Q ss_pred             HHccCCHHHHHHHHHHHHhC--CCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHc
Q 013323          121 CGKCKNSDQAIRIFEEMKKY--EVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       121 ~~~~g~~~~a~~~~~~m~~~--g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      +.+.|++++|.+.|+.+...  +-+--....-.+..++-+.|+++.|...++...+.
T Consensus        15 ~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   15 ALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            44567777777777776653  11112334445666667777777777777776654

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=93.33  E-value=3.1  Score=32.43  Aligned_cols=88  Identities=13%  Similarity=0.117  Sum_probs=65.6

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHH
Q 013323           79 FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA  158 (445)
Q Consensus        79 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~  158 (445)
                      ...++..+.+.+.......+++.+...+ ..+...+|.++..|++.+ .++..++++.      .++......++..|.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~   81 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHH
Confidence            3456777777788999999999998887 367889999999999764 3455555552      1344555668888888


Q ss_pred             cCChhhHHHHHHHHHH
Q 013323          159 AGQLDPVYAIVRDMTA  174 (445)
Q Consensus       159 ~g~~~~a~~~~~~m~~  174 (445)
                      .+.++++.-++..+..
T Consensus        82 ~~l~~~~~~l~~k~~~   97 (140)
T smart00299       82 AKLYEEAVELYKKDGN   97 (140)
T ss_pred             cCcHHHHHHHHHhhcC
Confidence            8888888888877643

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=93.32  E-value=5.2  Score=39.03  Aligned_cols=269  Identities=10%  Similarity=0.082  Sum_probs=133.8

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHH---------HHHHHHCCCCCCHHHHHHHHHHHhcCCChh--HHHHHHHHHHHCC
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDV---------YDDMMLDGVQPTRDLFHSLIVGTMKGSRLQ--DTFFFRDQMKANG  106 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~---------~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~--~a~~~~~~m~~~g  106 (445)
                      .|..+.+.+=+..|..+|.+++|.++         |+.+-..-  .+.-.++..=++|.+-.+..  +...-+++++++|
T Consensus       553 ~~~evp~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~A--LeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rg  630 (1081)
T KOG1538|consen  553 SAVEVPQSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAMEA--LEALDFETARKAYIRVRDLRYLELISELEERKKRG  630 (1081)
T ss_pred             ecccccccccchhhhhccchhhhhcccccceecchHHHHHHHH--HhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcC
Confidence            56666677777778888888887654         11111110  12223444455565555433  3334456777888


Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHH-----HHHHHHHcCChhhHHHHHHHHHH--cCCCC
Q 013323          107 FLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVC-----LLNACAAAGQLDPVYAIVRDMTA--AGAGL  179 (445)
Q Consensus       107 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~-----li~~~~~~g~~~~a~~~~~~m~~--~g~~p  179 (445)
                      -.|+...   +...|+-.|++.+|-++|.+--..+  .-.+.|+-     ..+-+...|..++-..+.++--+  ..++.
T Consensus       631 e~P~~iL---lA~~~Ay~gKF~EAAklFk~~G~en--RAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~WAr~~ke  705 (1081)
T KOG1538|consen  631 ETPNDLL---LADVFAYQGKFHEAAKLFKRSGHEN--RALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADWARNIKE  705 (1081)
T ss_pred             CCchHHH---HHHHHHhhhhHHHHHHHHHHcCchh--hHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHhhhcCC
Confidence            7787664   4455666788888888876543211  01111221     12333344444433333332211  11211


Q ss_pred             CHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhH
Q 013323          180 DKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTV  259 (445)
Q Consensus       180 ~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~  259 (445)
                      ....-    +.+...|+.  +.|..+...    .+|.++                  ++.+..        .+...+..+
T Consensus       706 PkaAA----EmLiSaGe~--~KAi~i~~d----~gW~d~------------------lidI~r--------kld~~ere~  749 (1081)
T KOG1538|consen  706 PKAAA----EMLISAGEH--VKAIEICGD----HGWVDM------------------LIDIAR--------KLDKAEREP  749 (1081)
T ss_pred             cHHHH----HHhhcccch--hhhhhhhhc----ccHHHH------------------HHHHHh--------hcchhhhhH
Confidence            11111    122233332  222222110    111110                  000000        000223344


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHH-HHH------
Q 013323          260 YHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAEL-YAT------  332 (445)
Q Consensus       260 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-~~~------  332 (445)
                      ...+-..+.+...+..|.+||..|-+         ..++++.....++|++|+++-+...+.  .||+.. |..      
T Consensus       750 l~~~a~ylk~l~~~gLAaeIF~k~gD---------~ksiVqlHve~~~W~eAFalAe~hPe~--~~dVy~pyaqwLAE~D  818 (1081)
T KOG1538|consen  750 LLLCATYLKKLDSPGLAAEIFLKMGD---------LKSLVQLHVETQRWDEAFALAEKHPEF--KDDVYMPYAQWLAEND  818 (1081)
T ss_pred             HHHHHHHHhhccccchHHHHHHHhcc---------HHHHhhheeecccchHhHhhhhhCccc--cccccchHHHHhhhhh
Confidence            44444555566667888888887754         245778888899999998887766543  333321 111      


Q ss_pred             -HHHhHhhcCChhhH-HHHHHHHHHHHhCCC
Q 013323          333 -LVEGAMFGYTPKGM-QLAQDTLVNMNSRNI  361 (445)
Q Consensus       333 -li~~~~~~~~~~g~-~~a~~~~~~m~~~~~  361 (445)
                       .+.+ -.+|-+.|+ ++|..+++++....+
T Consensus       819 rFeEA-qkAfhkAGr~~EA~~vLeQLtnnav  848 (1081)
T KOG1538|consen  819 RFEEA-QKAFHKAGRQREAVQVLEQLTNNAV  848 (1081)
T ss_pred             hHHHH-HHHHHHhcchHHHHHHHHHhhhhhh
Confidence             1111 126788888 889999988875543

>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=93.22  E-value=0.25  Score=33.93  Aligned_cols=63  Identities=16%  Similarity=0.213  Sum_probs=47.4

Q ss_pred             hHHHHHHHHHHhcccHHHHHHHHHHHHhC----CC-CCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 013323          258 TVYHVAFHACAELKDVQAMETLLEMLKKD----RK-SPD-VYIVMQNIRCYLHSGDIDNGHKVFEDYIC  320 (445)
Q Consensus       258 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~-~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  320 (445)
                      .+|+.+-..|...|++++|...+++..+.    |- .|+ ..+++.+-..|...|++++|++++++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            46888888899999999999999876542    21 122 45788888889999999999999887543

...

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=93.19  E-value=3.1  Score=36.51  Aligned_cols=115  Identities=8%  Similarity=0.140  Sum_probs=74.9

Q ss_pred             cHhHHHHHHHHHHH-CCCCCCHHHHHHHHHHHhc-CC-ChhHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHccCCHHHHH
Q 013323           56 RFFLLRDVYDDMML-DGVQPTRDLFHSLIVGTMK-GS-RLQDTFFFRDQMKAN-GFLPDVAVYNYLISVCGKCKNSDQAI  131 (445)
Q Consensus        56 ~~~~a~~~~~~m~~-~g~~p~~~~~~~ll~~~~~-~~-~~~~a~~~~~~m~~~-g~~p~~~~~~~ll~~~~~~g~~~~a~  131 (445)
                      .+.+|+.+|+...- ..+--|..+...+++.... .+ ....-.++.+.+... |-.++..+...+|+.+++.+++.+-.
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            34455555553221 2344566677777766654 22 334444555555533 34577788888888888888888888


Q ss_pred             HHHHHHHhC-CCCccHHHHHHHHHHHHHcCChhhHHHHHH
Q 013323          132 RIFEEMKKY-EVKPNGQTYVCLLNACAAAGQLDPVYAIVR  170 (445)
Q Consensus       132 ~~~~~m~~~-g~~p~~~~y~~li~~~~~~g~~~~a~~~~~  170 (445)
                      ++++..... +..-|...|..+|+.-...|+..-...+.+
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~  262 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIID  262 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhh
Confidence            888877655 556678888888888888888665554443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=93.00  E-value=1.2  Score=38.85  Aligned_cols=100  Identities=14%  Similarity=0.176  Sum_probs=79.1

Q ss_pred             HHHhcCcHhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCCH
Q 013323           50 SLTSQRRFFLLRDVYDDMMLDGVQP-TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD-VAVYNYLISVCGKCKNS  127 (445)
Q Consensus        50 ~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~  127 (445)
                      -+.+.+++.+|++.|.+-.+.  .| |.+-|..--.+|++.|..+.|.+=-+.....+  |. ..+|..|-.+|...|++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l--~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD--p~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIEL--DPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID--PHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhc--CCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC--hHHHHHHHHHHHHHHccCcH
Confidence            345678999999999988775  44 55667777889999999999988777766633  43 46899999999999999


Q ss_pred             HHHHHHHHHHHhCCCCccHHHHHHHHHH
Q 013323          128 DQAIRIFEEMKKYEVKPNGQTYVCLLNA  155 (445)
Q Consensus       128 ~~a~~~~~~m~~~g~~p~~~~y~~li~~  155 (445)
                      ++|++.|++-.+  +.|+-.+|-.=+..
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            999999998876  57888877654443

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=92.94  E-value=2.3  Score=41.00  Aligned_cols=128  Identities=15%  Similarity=0.078  Sum_probs=85.4

Q ss_pred             hHHHHHHHHHHhc----ccHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHHhcCChhhHHHHHHHHHhCC--CC--CCHH
Q 013323          258 TVYHVAFHACAEL----KDVQAMETLLEMLKKDRKSPDVYIVMQNI-RCYLHSGDIDNGHKVFEDYICSE--KF--PPAE  328 (445)
Q Consensus       258 ~~~~~li~~~~~~----g~~~~a~~~~~~m~~~~~~p~~~~~~~li-~~~~~~g~~~~a~~~~~~m~~~~--~~--p~~~  328 (445)
                      -.|..++..++..    .+.+.|.+++..+.+.  -|+...|...- +.+...|++++|.+.|+......  .+  ....
T Consensus       230 L~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~  307 (468)
T PF10300_consen  230 LWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLC  307 (468)
T ss_pred             HHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHH
Confidence            3466666655543    4688999999998864  57777766444 34556899999999999765421  11  1222


Q ss_pred             HHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCCh-------hhHHHHHHHHH
Q 013323          329 LYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGY-------TTANYIWDLMQ  394 (445)
Q Consensus       329 ~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~-------~~A~~~~~~m~  394 (445)
                      .|...+.     +.-..+ ++|.+.|..+.+.. ..+..+|.++..+| +...|+.       ++|.++|.+..
T Consensus       308 ~~El~w~-----~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c-~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  308 YFELAWC-----HMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAAC-LLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHH-----HHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHH-HHhhccchhhhhhHHHHHHHHHHHH
Confidence            3333332     444555 99999999998865 34556666666444 5677877       88888988776

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.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=92.88  E-value=1.3  Score=41.42  Aligned_cols=62  Identities=11%  Similarity=0.083  Sum_probs=33.7

Q ss_pred             HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 013323           76 RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDV----AVYNYLISVCGKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus        76 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~m~~  139 (445)
                      ...|+.+-.++.+.|++++|...|+...+.+  |+.    .+|..+-.+|...|+.++|+..+++..+
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3345555555555566666666665555532  432    2355555555556666666655555554

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=92.78  E-value=1.6  Score=38.21  Aligned_cols=99  Identities=17%  Similarity=0.161  Sum_probs=71.5

Q ss_pred             CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhh-H-HHHHHHHHHHHhCCCCCCcchh
Q 013323          291 DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKG-M-QLAQDTLVNMNSRNIFLSPRMG  368 (445)
Q Consensus       291 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g-~-~~a~~~~~~m~~~~~~p~~~~~  368 (445)
                      |...|..|-..|...|+.+.|..-|....+. -.+++..+..+-.++.  |...+ . .++..+|+++...+  |+...-
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL-~g~n~~~~~g~aeaL~--~~a~~~~ta~a~~ll~~al~~D--~~~ira  229 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRL-AGDNPEILLGLAEALY--YQAGQQMTAKARALLRQALALD--PANIRA  229 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHh-CCCCHHHHHHHHHHHH--HhcCCcccHHHHHHHHHHHhcC--CccHHH
Confidence            7888999999999999999999999987776 2235566666655542  33333 3 78999999998865  444433


Q ss_pred             hH-HHHHhhcccCCChhhHHHHHHHHHHC
Q 013323          369 SD-LLLVAAGEKSGGYTTANYIWDLMQAR  396 (445)
Q Consensus       369 ~~-ll~~~~~~~~g~~~~A~~~~~~m~~~  396 (445)
                      .. +-..+  ...|++.+|...|+.|.+.
T Consensus       230 l~lLA~~a--fe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         230 LSLLAFAA--FEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHH--HHcccHHHHHHHHHHHHhc
Confidence            33 33333  4899999999999999864

>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=92.69  E-value=1.6  Score=35.65  Aligned_cols=63  Identities=11%  Similarity=0.192  Sum_probs=45.2

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcc--HHHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          112 AVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPN--GQTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       112 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      ..+..+.+.|++.|+.++|.+.|.++.+....|.  ...+-.+|....-.+++..+.....+...
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            4567777888888888888888888777543333  45566777777778888887777766654

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.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=92.52  E-value=2.1  Score=37.59  Aligned_cols=79  Identities=15%  Similarity=0.159  Sum_probs=67.1

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHH-----cCCCCCHHHHHH
Q 013323          112 AVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA-----AGAGLDKFCYAG  186 (445)
Q Consensus       112 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~~  186 (445)
                      .++..++..+...|+.+.+.+.++++.... +-|...|..+|.+|.+.|+...|...|+.+.+     .|+.|...+...
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            456678888889999999999999998865 34788999999999999999999999999866     588998888777


Q ss_pred             HHHHH
Q 013323          187 LITAH  191 (445)
Q Consensus       187 li~~~  191 (445)
                      .....
T Consensus       233 y~~~~  237 (280)
T COG3629         233 YEEIL  237 (280)
T ss_pred             HHHHh
Confidence            77664

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=92.46  E-value=5.1  Score=32.65  Aligned_cols=105  Identities=14%  Similarity=0.048  Sum_probs=72.9

Q ss_pred             CCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC-CccHHHHH
Q 013323           72 VQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEV-KPNGQTYV  150 (445)
Q Consensus        72 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~-~p~~~~y~  150 (445)
                      +-|+...--.|-.++.+.|+..+|...|++...-=+.-|....-.+-++....+++..|...++.+-+... ..++.+--
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~L  164 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHL  164 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchH
Confidence            34666666677777888888888888888877644455677777777777778888888888887765420 11233344


Q ss_pred             HHHHHHHHcCChhhHHHHHHHHHHcC
Q 013323          151 CLLNACAAAGQLDPVYAIVRDMTAAG  176 (445)
Q Consensus       151 ~li~~~~~~g~~~~a~~~~~~m~~~g  176 (445)
                      .+-+.+.-.|..++|..-|+.....-
T Consensus       165 l~aR~laa~g~~a~Aesafe~a~~~y  190 (251)
T COG4700         165 LFARTLAAQGKYADAESAFEVAISYY  190 (251)
T ss_pred             HHHHHHHhcCCchhHHHHHHHHHHhC
Confidence            55667777788888888888877753

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=92.44  E-value=2.4  Score=39.78  Aligned_cols=63  Identities=14%  Similarity=-0.019  Sum_probs=32.0

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccH----HHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          110 DVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNG----QTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       110 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      +...|+.+-.+|.+.|++++|+..|++-.+.  .|+.    .+|..+-.+|...|+.++|++.+++..+
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe  140 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR  140 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445555555555555555555555554442  2332    2355555555555555555555555544

>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=92.43  E-value=3.8  Score=31.21  Aligned_cols=68  Identities=21%  Similarity=0.241  Sum_probs=47.1

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCC
Q 013323          110 DVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAG  178 (445)
Q Consensus       110 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~  178 (445)
                      +....+..++.....|+-+.-.+++..+...+ ++++...-.+-.+|.+.|+..++.+++.+.-+.|++
T Consensus        85 ~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   85 LSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             --HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            34455677777788888888888888876432 577788888889999999999999999998888864

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=92.37  E-value=9.1  Score=35.35  Aligned_cols=32  Identities=16%  Similarity=0.168  Sum_probs=27.5

Q ss_pred             CCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          290 PDVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       290 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      .|-.-+.+++.++.-.|+.++|.+..+.|.+.
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            45667788899999999999999999999876

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.22  E-value=3.5  Score=36.46  Aligned_cols=104  Identities=12%  Similarity=0.185  Sum_probs=75.6

Q ss_pred             CCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccH
Q 013323           70 DGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN---GFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNG  146 (445)
Q Consensus        70 ~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~  146 (445)
                      .|......+...++..-.....++.+...+-.++..   ...|+...+ +++..+. .-++++++.++..=.+.|+-||.
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~-~~irlll-ky~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIH-TWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHH-HHHHHHH-ccChHHHHHHHhCcchhccccch
Confidence            455556667777777777778888888887777653   122332222 2233222 34678899888888889999999


Q ss_pred             HHHHHHHHHHHHcCChhhHHHHHHHHHHc
Q 013323          147 QTYVCLLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       147 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      .+++.+|..+.+.+++.+|..+.-.|...
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            99999999999999999998888777654

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=92.17  E-value=3  Score=32.54  Aligned_cols=99  Identities=10%  Similarity=0.173  Sum_probs=52.9

Q ss_pred             HHHHHCCCCCCHHH--HHHHHHHHhcCCChhHHHHHHHHHHHCC---C--CCCHHHHHHHHHHHHccCC-HHHHHHHHHH
Q 013323           65 DDMMLDGVQPTRDL--FHSLIVGTMKGSRLQDTFFFRDQMKANG---F--LPDVAVYNYLISVCGKCKN-SDQAIRIFEE  136 (445)
Q Consensus        65 ~~m~~~g~~p~~~~--~~~ll~~~~~~~~~~~a~~~~~~m~~~g---~--~p~~~~~~~ll~~~~~~g~-~~~a~~~~~~  136 (445)
                      ..|++.+..++..+  .|.++.-.+..+++....++++.+..-.   +  ..+-..|++++++.++..- ---+..+|.-
T Consensus        26 ~y~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~  105 (145)
T PF13762_consen   26 PYMQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNF  105 (145)
T ss_pred             HHhhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHH
Confidence            33444444444433  3445554455555555555555543211   0  1345566677776655544 2345566666


Q ss_pred             HHhCCCCccHHHHHHHHHHHHHcCChh
Q 013323          137 MKKYEVKPNGQTYVCLLNACAAAGQLD  163 (445)
Q Consensus       137 m~~~g~~p~~~~y~~li~~~~~~g~~~  163 (445)
                      |++.+.+++..-|..+|.++.+....+
T Consensus       106 Lk~~~~~~t~~dy~~li~~~l~g~~~~  132 (145)
T PF13762_consen  106 LKKNDIEFTPSDYSCLIKAALRGYFHD  132 (145)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHcCCCCc
Confidence            666666667777777777766653333

>PRK15331 chaperone protein SicA; Provisional

Probab=92.15  E-value=1.4  Score=35.05  Aligned_cols=88  Identities=10%  Similarity=-0.020  Sum_probs=70.4

Q ss_pred             HhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhH
Q 013323           86 TMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPV  165 (445)
Q Consensus        86 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a  165 (445)
                      +-..|++++|..+|.-+.-.+. -+..-|..|-.+|-..+++++|...|...-..+. -|...+-..-.++...|+.+.|
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~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHHH
Confidence            3468999999999999987663 3555677777778888999999999987765543 3555666778899999999999


Q ss_pred             HHHHHHHHHc
Q 013323          166 YAIVRDMTAA  175 (445)
Q Consensus       166 ~~~~~~m~~~  175 (445)
                      ...|....+.
T Consensus       125 ~~~f~~a~~~  134 (165)
T PRK15331        125 RQCFELVNER  134 (165)
T ss_pred             HHHHHHHHhC
Confidence            9999988874

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=92.02  E-value=4.5  Score=34.80  Aligned_cols=167  Identities=14%  Similarity=0.146  Sum_probs=104.5

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhC-CCCCCHHHHHHH
Q 013323          257 LTVYHVAFHACAELKDVQAMETLLEMLKKD-RKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICS-EKFPPAELYATL  333 (445)
Q Consensus       257 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~l  333 (445)
                      ...|+.-+. -.+.|++++|.+.|+.+... ...| ...+.-.++.++-+.++++.|...+++.... +-.||. -|-.-
T Consensus        35 ~~LY~~g~~-~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~-dY~~Y  112 (254)
T COG4105          35 SELYNEGLT-ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNA-DYAYY  112 (254)
T ss_pred             HHHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCCh-hHHHH
Confidence            344554443 45569999999999999854 2222 4556677788889999999999999998877 444444 34445


Q ss_pred             HHhHhh--cCCh--hh--H-HHHHHHHHHHHhC----CCCCCcchhh------------HHHHHhhcccCCChhhHHHHH
Q 013323          334 VEGAMF--GYTP--KG--M-QLAQDTLVNMNSR----NIFLSPRMGS------------DLLLVAAGEKSGGYTTANYIW  390 (445)
Q Consensus       334 i~~~~~--~~~~--~g--~-~~a~~~~~~m~~~----~~~p~~~~~~------------~ll~~~~~~~~g~~~~A~~~~  390 (445)
                      |.++..  ....  +.  . ..|..-|++..++    ...||...--            .+-.-  |.+.|.+..|..-+
T Consensus       113 lkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~Iary--Y~kr~~~~AA~nR~  190 (254)
T COG4105         113 LKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARY--YLKRGAYVAAINRF  190 (254)
T ss_pred             HHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHH--HHHhcChHHHHHHH
Confidence            554421  1111  11  1 3344444454443    2222221111            11222  56999999999999


Q ss_pred             HHHHHCCCCCCHHHHHH---HHhhhhccCCCCCCCchhhhh
Q 013323          391 DLMQARKITPSLPAVEA---YYNGLKDREVPADDPRLVVVS  428 (445)
Q Consensus       391 ~~m~~~~~~p~~~~~~~---l~~~~~~~~~~~~a~~~l~~~  428 (445)
                      ++|.+. ..-+..+..+   +.++|...|..++|.+..+++
T Consensus       191 ~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl  230 (254)
T COG4105         191 EEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVL  230 (254)
T ss_pred             HHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHH
Confidence            999976 4444455444   457888889888888766555

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=91.99  E-value=15  Score=38.06  Aligned_cols=130  Identities=12%  Similarity=-0.049  Sum_probs=88.7

Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC-CCccHHHHHHHHHHH
Q 013323           78 LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYE-VKPNGQTYVCLLNAC  156 (445)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~y~~li~~~  156 (445)
                      .|..|-..|+...+...|.+.|+...+.+ ..|...+..+.+.|++..+++.|..+.-.-.+.. ...-..-|-..--.|
T Consensus       494 af~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yy  572 (1238)
T KOG1127|consen  494 AFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYY  572 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccc
Confidence            47777777777778888888888887754 2456778889999999999999988833322211 011122233333445


Q ss_pred             HHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHH
Q 013323          157 AAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQ  211 (445)
Q Consensus       157 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~  211 (445)
                      ...++..++..-|+...+.. +-|...|..+..+|...|+.  ..+.++|.....
T Consensus       573 Lea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry--~~AlKvF~kAs~  624 (1238)
T KOG1127|consen  573 LEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRY--SHALKVFTKASL  624 (1238)
T ss_pred             cCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCce--ehHHHhhhhhHh
Confidence            66777788888777776653 23677788888888888877  778888876553

>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=91.95  E-value=3.6  Score=39.24  Aligned_cols=131  Identities=15%  Similarity=0.170  Sum_probs=74.7

Q ss_pred             HHHHhcCcHhHHHHHHH-HHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 013323           49 TSLTSQRRFFLLRDVYD-DMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNS  127 (445)
Q Consensus        49 ~~~~~~~~~~~a~~~~~-~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  127 (445)
                      ....-+++++.+.++.+ .-.-..+ | ..-.+.+++-+-+.|..+.|+++-.+-..            -.+...+.|++
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i-~-~~~~~~i~~fL~~~G~~e~AL~~~~D~~~------------rFeLAl~lg~L  334 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNI-P-KDQGQSIARFLEKKGYPELALQFVTDPDH------------RFELALQLGNL  334 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HHH------------HHHHHHHCT-H
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccC-C-hhHHHHHHHHHHHCCCHHHHHhhcCChHH------------HhHHHHhcCCH
Confidence            34455778888766664 1111112 2 44577888888888888888877654322            34456678888


Q ss_pred             HHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHH
Q 013323          128 DQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIE  207 (445)
Q Consensus       128 ~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~  207 (445)
                      +.|.++.++.      .+...|..|-....+.|+++-|.+.|.+...         +..++--|.-.|+.  +...++-+
T Consensus       335 ~~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~--~~L~kl~~  397 (443)
T PF04053_consen  335 DIALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDR--EKLSKLAK  397 (443)
T ss_dssp             HHHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-H--HHHHHHHH
T ss_pred             HHHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCH--HHHHHHHH
Confidence            8887765544      3666888888888888888888888876654         34444444445543  44455544


Q ss_pred             HHH
Q 013323          208 LVE  210 (445)
Q Consensus       208 ~~~  210 (445)
                      ...
T Consensus       398 ~a~  400 (443)
T PF04053_consen  398 IAE  400 (443)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            433

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.

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

Probab=91.92  E-value=9.1  Score=34.43  Aligned_cols=238  Identities=12%  Similarity=0.057  Sum_probs=142.4

Q ss_pred             HHHHhcCcHhHHHHHHHHHHHCCCCCCHH--------------H--HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHH
Q 013323           49 TSLTSQRRFFLLRDVYDDMMLDGVQPTRD--------------L--FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVA  112 (445)
Q Consensus        49 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~--------------~--~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~  112 (445)
                      ..+.+.|.++.|..=|+...++.  |+..              .  ....+..+.-.|+...|......+.+.. +-|..
T Consensus       114 ~vllK~Gele~A~~DF~~vl~~~--~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~  190 (504)
T KOG0624|consen  114 VVLLKQGELEQAEADFDQVLQHE--PSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDAS  190 (504)
T ss_pred             hhhhhcccHHHHHHHHHHHHhcC--CCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhH
Confidence            35677889999998888888764  3211              1  1223334556788888888888888754 24777


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 013323          113 VYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHT  192 (445)
Q Consensus       113 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  192 (445)
                      .|..--.+|...|++.+|+.=++...+.. .-++.++--+-..+-..|+.+.++...++..+-  .||....-..-.-+ 
T Consensus       191 l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKkl-  266 (504)
T KOG0624|consen  191 LRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKL-  266 (504)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHH-
Confidence            88888888999999988876666554432 234556666667777788888888888877764  46654332222211 


Q ss_pred             ccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhh-hHHhhhc-CcccCchhHHHHHHHHHHhc
Q 013323          193 NKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTA-EYVHRRG-GFLSRLLTVYHVAFHACAEL  270 (445)
Q Consensus       193 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~-g~~~~~~~~~~~li~~~~~~  270 (445)
                             ....+.++.+++...-                   ..+...... ...+... .........+..+-.++...
T Consensus       267 -------kKv~K~les~e~~ie~-------------------~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d  320 (504)
T KOG0624|consen  267 -------KKVVKSLESAEQAIEE-------------------KHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYRED  320 (504)
T ss_pred             -------HHHHHHHHHHHHHHhh-------------------hhHHHHHHHHHHHHhcCCcccceeeeeeheeeeccccc
Confidence                   1122222222221100                   000000000 0011110 00011122334455556667


Q ss_pred             ccHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          271 KDVQAMETLLEMLKKDRKSPD-VYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       271 g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      +++.+|.+.-.+..+  +.|| +.++.--..+|.-...++.|+.=|+...+.
T Consensus       321 ~~~~eAiqqC~evL~--~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~  370 (504)
T KOG0624|consen  321 EQFGEAIQQCKEVLD--IDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALEL  370 (504)
T ss_pred             CCHHHHHHHHHHHHh--cCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc
Confidence            889999888888765  4564 778888888888888888888888877664

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=91.92  E-value=2.3  Score=37.31  Aligned_cols=77  Identities=14%  Similarity=0.137  Sum_probs=65.4

Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh-----CCCCccHHHHHHH
Q 013323           78 LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKK-----YEVKPNGQTYVCL  152 (445)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~y~~l  152 (445)
                      ++..++..+...|+.+.+...++++.... +-+...|-.+|.+|.+.|+...|+..|+.+.+     .|+.|...+....
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            45666777788999999999999999875 35889999999999999999999999998865     5899988887766


Q ss_pred             HHH
Q 013323          153 LNA  155 (445)
Q Consensus       153 i~~  155 (445)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            665

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=91.92  E-value=11  Score=35.33  Aligned_cols=374  Identities=9%  Similarity=-0.014  Sum_probs=170.8

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHH--HhcCCChhHHHHHHHHHHHC--CCC-----------
Q 013323           44 YNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVG--TMKGSRLQDTFFFRDQMKAN--GFL-----------  108 (445)
Q Consensus        44 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~--~~~~~~~~~a~~~~~~m~~~--g~~-----------  108 (445)
                      -+.+|++|... +.+.....+..+.+.  .| ...|-.+..+  +-+.+++..|.+.+..=.+.  +-+           
T Consensus        49 ~grilnAffl~-nld~Me~~l~~l~~~--~~-~s~~l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l  124 (549)
T PF07079_consen   49 GGRILNAFFLN-NLDLMEKQLMELRQQ--FG-KSAYLPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQL  124 (549)
T ss_pred             hhHHHHHHHHh-hHHHHHHHHHHHHHh--cC-CchHHHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHH
Confidence            34556665543 344444444444332  13 2334444443  23567777777766654433  222           


Q ss_pred             -CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC----CCccHHHHHHHHHHHHHcCCh---------------hhHHHH
Q 013323          109 -PDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYE----VKPNGQTYVCLLNACAAAGQL---------------DPVYAI  168 (445)
Q Consensus       109 -p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g----~~p~~~~y~~li~~~~~~g~~---------------~~a~~~  168 (445)
                       +|..-=++..+++.+.|.+.++..++++|...=    ..-+..+|+-++-.+++.--+               +.+.-.
T Consensus       125 ~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY  204 (549)
T PF07079_consen  125 FSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFY  204 (549)
T ss_pred             hhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHH
Confidence             223334667777788888888888877776543    335777787766665553211               222222


Q ss_pred             HHHHHHc------CCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccc-cccccchhhcccchhhhcchh
Q 013323          169 VRDMTAA------GAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVET-SGNNAENEMMGVSKEELYNLP  241 (445)
Q Consensus       169 ~~~m~~~------g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  241 (445)
                      .++|...      .+.|.......++...+-.......-..++++..+....-+...- ........+.  ..+++..+.
T Consensus       205 ~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~c  282 (549)
T PF07079_consen  205 LKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFC  282 (549)
T ss_pred             HHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHH
Confidence            3333221      244555555555554433211101112233333322111000000 0000000111  111111111


Q ss_pred             hhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHH---------------------HHHHH--
Q 013323          242 TAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVY---------------------IVMQN--  298 (445)
Q Consensus       242 ~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~---------------------~~~~l--  298 (445)
                      ...-..........-..+|..++....+.+....|.+.+..++-.  .|+..                     .|+.+  
T Consensus       283 e~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l--dp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~  360 (549)
T PF07079_consen  283 EAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL--DPRISVSEKLLLSPKVLQDIVCEDDESYTKLRD  360 (549)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc--CCcchhhhhhhcCHHHHHHHHhcchHHHHHHHH
Confidence            111000000011223357888888888888888888887766532  22211                     11111  


Q ss_pred             -------------------------HHHHHhcCC-hhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCCh----hhHHH
Q 013323          299 -------------------------IRCYLHSGD-IDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTP----KGMQL  348 (445)
Q Consensus       299 -------------------------i~~~~~~g~-~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~----~g~~~  348 (445)
                                               ..-+-+.|. -++|+++++.+..-. .-|...-|......-.+|..    +...+
T Consensus       361 yL~lwe~~qs~DiDrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft-~yD~ec~n~v~~fvKq~Y~qaLs~~~~~r  439 (549)
T PF07079_consen  361 YLNLWEEIQSYDIDRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFT-NYDIECENIVFLFVKQAYKQALSMHAIPR  439 (549)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHHHHHHhhhhHHH
Confidence                                     011112232 456666666665541 12444444443311112211    11133


Q ss_pred             HHHHHHHHHhCCCCCCcc----hhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccCCCCCCCch
Q 013323          349 AQDTLVNMNSRNIFLSPR----MGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRL  424 (445)
Q Consensus       349 a~~~~~~m~~~~~~p~~~----~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  424 (445)
                      -..+-+-..+.|+.|-.+    .-|.+-.+-.+...|++.++...-.-+  ..|.|++.+|.-+--.+.......+|-.+
T Consensus       440 LlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL--~~iaPS~~~~RLlGl~l~e~k~Y~eA~~~  517 (549)
T PF07079_consen  440 LLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWL--TKIAPSPQAYRLLGLCLMENKRYQEAWEY  517 (549)
T ss_pred             HHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHH--HHhCCcHHHHHHHHHHHHHHhhHHHHHHH
Confidence            344444455777766443    234444444456788888874433222  35788999988776555555555555554


Q ss_pred             hhhh
Q 013323          425 VVVS  428 (445)
Q Consensus       425 l~~~  428 (445)
                      +..+
T Consensus       518 l~~L  521 (549)
T PF07079_consen  518 LQKL  521 (549)
T ss_pred             HHhC
Confidence            4443

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=91.72  E-value=13  Score=35.88  Aligned_cols=167  Identities=9%  Similarity=0.073  Sum_probs=104.4

Q ss_pred             HHHHHHHHHHcCChhhHHHHHHHHHHc-CCCCC-----HHHHHHHHHHHHcc--CCCchHHHHHHHHHHHHhcCCccccc
Q 013323          149 YVCLLNACAAAGQLDPVYAIVRDMTAA-GAGLD-----KFCYAGLITAHTNK--IPRADDTATKIIELVEQSKGWSSVET  220 (445)
Q Consensus       149 y~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~-----~~~~~~li~~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~  220 (445)
                      +..++...+=.|+-+.+++.+.+-.+. |+.-.     .-+|..++..++..  ...+.+.+.++++.+.+.        
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--------  262 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--------  262 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--------
Confidence            344555556678888888888876653 33221     23355555555554  455667788888887765        


Q ss_pred             cccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHH-HHhcccHHHHHHHHHHHHhC--CC-CCCHHHHH
Q 013323          221 SGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHA-CAELKDVQAMETLLEMLKKD--RK-SPDVYIVM  296 (445)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~-~~~~g~~~~a~~~~~~m~~~--~~-~p~~~~~~  296 (445)
                                                       .|+...|...-.- +...|++++|.+.|+.....  .. +.....+-
T Consensus       263 ---------------------------------yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~  309 (468)
T PF10300_consen  263 ---------------------------------YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYF  309 (468)
T ss_pred             ---------------------------------CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHH
Confidence                                             6777666554433 45578999999999975532  11 22334455


Q ss_pred             HHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChh----hH-HHHHHHHHHHH
Q 013323          297 QNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPK----GM-QLAQDTLVNMN  357 (445)
Q Consensus       297 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~----g~-~~a~~~~~~m~  357 (445)
                      -+.-.+.-.+++++|.+.|..+.+..-- +..+|.-+..++.....+.    .. ++|.++|.+..
T Consensus       310 El~w~~~~~~~w~~A~~~f~~L~~~s~W-Ska~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  310 ELAWCHMFQHDWEEAAEYFLRLLKESKW-SKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHHHHchHHHHHHHHHHHHhcccc-HHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            5677788899999999999999987322 3444444444432222222    12 67777777654

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.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=91.71  E-value=14  Score=36.22  Aligned_cols=221  Identities=13%  Similarity=0.087  Sum_probs=107.2

Q ss_pred             hhhHHHHHHHHHhcCcHh--HHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCC----CCCCHHHH
Q 013323           41 ASEYNTVVTSLTSQRRFF--LLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANG----FLPDVAVY  114 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~--~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g----~~p~~~~~  114 (445)
                      .-.++..=.+|.+.++..  +...=+++|++.|-.|+.....   ..|+-.|.+.+|-++|.+--..+    +-.|...|
T Consensus       598 AL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iLlA---~~~Ay~gKF~EAAklFk~~G~enRAlEmyTDlRMF  674 (1081)
T KOG1538|consen  598 ALDFETARKAYIRVRDLRYLELISELEERKKRGETPNDLLLA---DVFAYQGKFHEAAKLFKRSGHENRALEMYTDLRMF  674 (1081)
T ss_pred             hhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHHHH---HHHHhhhhHHHHHHHHHHcCchhhHHHHHHHHHHH
Confidence            334555556777766543  3444457788888889866433   33444566666666664432111    00111111


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHh--CCCCccHHHHHHHHHHHHHcCChhhHHHHHHH------HHHcCCCCCH---HH
Q 013323          115 NYLISVCGKCKNSDQAIRIFEEMKK--YEVKPNGQTYVCLLNACAAAGQLDPVYAIVRD------MTAAGAGLDK---FC  183 (445)
Q Consensus       115 ~~ll~~~~~~g~~~~a~~~~~~m~~--~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~------m~~~g~~p~~---~~  183 (445)
                      . ...-+...|..++-..+.++--+  .+++-.    .+....+..+|+.++|..+.-+      +.+-+-+.|.   .+
T Consensus       675 D-~aQE~~~~g~~~eKKmL~RKRA~WAr~~keP----kaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~  749 (1081)
T KOG1538|consen  675 D-YAQEFLGSGDPKEKKMLIRKRADWARNIKEP----KAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREP  749 (1081)
T ss_pred             H-HHHHHhhcCChHHHHHHHHHHHHHhhhcCCc----HHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhH
Confidence            1 23334455555544444433221  111111    2233444456777776655321      1121222222   22


Q ss_pred             HHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHH
Q 013323          184 YAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVA  263 (445)
Q Consensus       184 ~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~l  263 (445)
                      ...+-..+.+....  ..|.++|..|.+.                                                .++
T Consensus       750 l~~~a~ylk~l~~~--gLAaeIF~k~gD~------------------------------------------------ksi  779 (1081)
T KOG1538|consen  750 LLLCATYLKKLDSP--GLAAEIFLKMGDL------------------------------------------------KSL  779 (1081)
T ss_pred             HHHHHHHHhhcccc--chHHHHHHHhccH------------------------------------------------HHH
Confidence            22222222333222  5566666665532                                                234


Q ss_pred             HHHHHhcccHHHHHHHHHHHHhCCCCCCHH-----------HHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          264 FHACAELKDVQAMETLLEMLKKDRKSPDVY-----------IVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       264 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-----------~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      ++.....+++++|..+-+..-+  +.||++           -|...=.+|.++|+-.+|.++++.+...
T Consensus       780 VqlHve~~~W~eAFalAe~hPe--~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  780 VQLHVETQRWDEAFALAEKHPE--FKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             hhheeecccchHhHhhhhhCcc--ccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence            4555566677777766655432  333332           1233345677788888888888777654

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

Probab=91.39  E-value=10  Score=34.07  Aligned_cols=143  Identities=10%  Similarity=0.018  Sum_probs=82.5

Q ss_pred             HHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHH---HHhcCCChhHHHHHHHHHHHCCCCCCHHHHH-HHHHHH
Q 013323           46 TVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIV---GTMKGSRLQDTFFFRDQMKANGFLPDVAVYN-YLISVC  121 (445)
Q Consensus        46 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~---~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~-~ll~~~  121 (445)
                      -+=..+.-+|++..|+.-|....+    -|...|.++.+   .|...|+-.-|+.=++...+.  +||-..-. ---..+
T Consensus        43 ElGk~lla~~Q~sDALt~yHaAve----~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vl  116 (504)
T KOG0624|consen   43 ELGKELLARGQLSDALTHYHAAVE----GDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVL  116 (504)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHc----CCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhh
Confidence            344566667777777777776643    34455555543   355566666666666666653  46533211 112345


Q ss_pred             HccCCHHHHHHHHHHHHhCCCC------------ccHHHH--HHHHHHHHHcCChhhHHHHHHHHHHcCCCC-CHHHHHH
Q 013323          122 GKCKNSDQAIRIFEEMKKYEVK------------PNGQTY--VCLLNACAAAGQLDPVYAIVRDMTAAGAGL-DKFCYAG  186 (445)
Q Consensus       122 ~~~g~~~~a~~~~~~m~~~g~~------------p~~~~y--~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~  186 (445)
                      .+.|.++.|..=|+...+....            +....|  ...+..+.-.|+...|.+....+.+-  .| |...|..
T Consensus       117 lK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi--~~Wda~l~~~  194 (504)
T KOG0624|consen  117 LKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEI--QPWDASLRQA  194 (504)
T ss_pred             hhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhc--CcchhHHHHH
Confidence            6788888888888887764311            111122  22345556667888888877777764  33 4444555


Q ss_pred             HHHHHHccCC
Q 013323          187 LITAHTNKIP  196 (445)
Q Consensus       187 li~~~~~~~~  196 (445)
                      --.+|...|+
T Consensus       195 Rakc~i~~~e  204 (504)
T KOG0624|consen  195 RAKCYIAEGE  204 (504)
T ss_pred             HHHHHHhcCc
Confidence            5556666554

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.35  E-value=1.6  Score=38.41  Aligned_cols=103  Identities=13%  Similarity=0.093  Sum_probs=77.9

Q ss_pred             hcCCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCC---CCCC--HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCC
Q 013323           34 RRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDG---VQPT--RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFL  108 (445)
Q Consensus        34 ~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g---~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~  108 (445)
                      .+|...+..+-..++..-....+++.+...+-.++..-   ..|+  ..+|..++.-    =+.+++..++..=.+.|+-
T Consensus        57 ~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlllk----y~pq~~i~~l~npIqYGiF  132 (418)
T KOG4570|consen   57 ERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLLK----YDPQKAIYTLVNPIQYGIF  132 (418)
T ss_pred             hcCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHHc----cChHHHHHHHhCcchhccc
Confidence            44556677777777887777889999998888776531   2233  2233333332    3667999999999999999


Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 013323          109 PDVAVYNYLISVCGKCKNSDQAIRIFEEMKKY  140 (445)
Q Consensus       109 p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  140 (445)
                      ||-++++.+|+.+.+.+++.+|.++.-.|...
T Consensus       133 ~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  133 PDQFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             cchhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            99999999999999999999999888777643

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=90.85  E-value=3.9  Score=35.44  Aligned_cols=95  Identities=14%  Similarity=0.107  Sum_probs=58.6

Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHHCC----CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC-CCCc-cHHHHHH
Q 013323           78 LFHSLIVGTMKGSRLQDTFFFRDQMKANG----FLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKY-EVKP-NGQTYVC  151 (445)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g----~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-g~~p-~~~~y~~  151 (445)
                      .|+..+..+ +.|++..|...|....+..    +.|+..-|  |-.++...|++++|..+|..+.+. +-.| -+..+--
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yW--LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYW--LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHH--HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            466666544 4556777777777776542    23344444  666777777777777777776653 1111 2355666


Q ss_pred             HHHHHHHcCChhhHHHHHHHHHHc
Q 013323          152 LLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       152 li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      +-.+..+.|+.++|..+|++..+.
T Consensus       221 lg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         221 LGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHH
Confidence            666667777777777777777665

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=90.32  E-value=9.9  Score=31.93  Aligned_cols=55  Identities=11%  Similarity=0.052  Sum_probs=34.3

Q ss_pred             HhcCCChhHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 013323           86 TMKGSRLQDTFFFRDQMKANGF--LPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKY  140 (445)
Q Consensus        86 ~~~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  140 (445)
                      +...|++++|.+.|+.+...--  +--....-.+..++.+.|+++.|...|+++...
T Consensus        15 ~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   15 ALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4457778888888887775421  111234445667777888888888888887653

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=90.23  E-value=15  Score=33.83  Aligned_cols=68  Identities=9%  Similarity=0.070  Sum_probs=49.8

Q ss_pred             cCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          254 SRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSP---DVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       254 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      .....+|..+...+.+.|.++.|...+..+...+..+   +..+.-.-....-..|+-++|...++.....
T Consensus       143 ~~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~  213 (352)
T PF02259_consen  143 EELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC  213 (352)
T ss_pred             hHHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3445678889999999999999999999887643211   2233333455667788999999999888873

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=90.18  E-value=5.2  Score=28.55  Aligned_cols=63  Identities=14%  Similarity=0.132  Sum_probs=51.7

Q ss_pred             cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHH
Q 013323          272 DVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVE  335 (445)
Q Consensus       272 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  335 (445)
                      |.-++.+-++.+....+.|+.....+-+.+|.+.+++..|.++|+.++.+ +..+...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHHH
Confidence            55667777788888889999999999999999999999999999988865 2224567888876

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=90.00  E-value=5.4  Score=28.79  Aligned_cols=62  Identities=15%  Similarity=0.112  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHH
Q 013323          273 VQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVE  335 (445)
Q Consensus       273 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  335 (445)
                      .-+..+-++.+....+.|+..+..+.+.+|.+.+++..|.++|+.++.+ +.+....|..+++
T Consensus        26 ~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   26 GWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHH
Confidence            4466777777777889999999999999999999999999999999877 2223338888887

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 ....

>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=89.84  E-value=5.4  Score=32.66  Aligned_cols=97  Identities=9%  Similarity=0.023  Sum_probs=54.8

Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHhC---CCCccHHHHHHH
Q 013323           78 LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD--VAVYNYLISVCGKCKNSDQAIRIFEEMKKY---EVKPNGQTYVCL  152 (445)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~---g~~p~~~~y~~l  152 (445)
                      .+..+..-+++.|+.+.|.+.|..+.+....|.  ...+-.+|......+++..+...+.+....   |-.++...--.+
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            466666777777777777777777776543333  345566777777777777777666655432   111111111111


Q ss_pred             HHH--HHHcCChhhHHHHHHHHHH
Q 013323          153 LNA--CAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       153 i~~--~~~~g~~~~a~~~~~~m~~  174 (445)
                      ..+  +...+++.+|-+.|-+...
T Consensus       118 ~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  118 YEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHhchHHHHHHHHHccCc
Confidence            111  2335677777777666543

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=89.72  E-value=13  Score=35.62  Aligned_cols=109  Identities=12%  Similarity=0.092  Sum_probs=81.3

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISV  120 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  120 (445)
                      ....+.+++.+-+.|..+.|+++-.+-            ..-+....+.|+++.|.++-++.      .+...|..|-+.
T Consensus       295 ~~~~~~i~~fL~~~G~~e~AL~~~~D~------------~~rFeLAl~lg~L~~A~~~a~~~------~~~~~W~~Lg~~  356 (443)
T PF04053_consen  295 KDQGQSIARFLEKKGYPELALQFVTDP------------DHRFELALQLGNLDIALEIAKEL------DDPEKWKQLGDE  356 (443)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHSS-H------------HHHHHHHHHCT-HHHHHHHCCCC------STHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHhhcCCh------------HHHhHHHHhcCCHHHHHHHHHhc------CcHHHHHHHHHH
Confidence            344789999999999999999885432            12344566788888887765443      477799999999


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcC
Q 013323          121 CGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAG  176 (445)
Q Consensus       121 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g  176 (445)
                      ..+.|+++-|++.|.+...         |..++--|.-.|+.++..++.+.....|
T Consensus       357 AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  357 ALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             HHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             HHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            9999999999999888764         7788888888888888888887777766

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.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=89.35  E-value=17  Score=33.37  Aligned_cols=268  Identities=12%  Similarity=0.075  Sum_probs=151.4

Q ss_pred             CCChhhHHHHHHHHH--hcCcHhHHHHHHHHHHHCCCCCCHHH--HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC-HH
Q 013323           38 ANNASEYNTVVTSLT--SQRRFFLLRDVYDDMMLDGVQPTRDL--FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD-VA  112 (445)
Q Consensus        38 ~p~~~~~~~li~~~~--~~~~~~~a~~~~~~m~~~g~~p~~~~--~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~  112 (445)
                      +-|..-.-.++.+-.  -.|+.+.|.+-|+.|...   |....  ..-|.-..-+.|+.+.|.+.-+..-...  |. ..
T Consensus       115 ssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~A--p~l~W  189 (531)
T COG3898         115 SSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKA--PQLPW  189 (531)
T ss_pred             hccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhc--cCCch
Confidence            344444444444333  358899999999998753   43332  2233334457788888888777766543  33 56


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhC-CCCccHHH--HHHHHHHHHH---cCChhhHHHHHHHHHHcCCCCCHHHHH-
Q 013323          113 VYNYLISVCGKCKNSDQAIRIFEEMKKY-EVKPNGQT--YVCLLNACAA---AGQLDPVYAIVRDMTAAGAGLDKFCYA-  185 (445)
Q Consensus       113 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~--y~~li~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~~~~-  185 (445)
                      .+.+++...|..|+++.|+++++.-+.. -+.++..-  -..++.+-..   .-+...|...-.+-  ..+.||..--. 
T Consensus       190 A~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a--~KL~pdlvPaav  267 (531)
T COG3898         190 AARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEA--NKLAPDLVPAAV  267 (531)
T ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHH--hhcCCccchHHH
Confidence            7889999999999999999999887654 34444322  1222222211   12233333333222  23455543322 


Q ss_pred             HHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHH
Q 013323          186 GLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFH  265 (445)
Q Consensus       186 ~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~  265 (445)
                      ..-.++.+.|+.  .++-++++.+=+.                                         .|...++  .+-
T Consensus       268 ~AAralf~d~~~--rKg~~ilE~aWK~-----------------------------------------ePHP~ia--~lY  302 (531)
T COG3898         268 VAARALFRDGNL--RKGSKILETAWKA-----------------------------------------EPHPDIA--LLY  302 (531)
T ss_pred             HHHHHHHhccch--hhhhhHHHHHHhc-----------------------------------------CCChHHH--HHH
Confidence            223456677665  7777777765543                                         2333322  223


Q ss_pred             HHHhcccHHHHHHHHHHHHh-CCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCCh
Q 013323          266 ACAELKDVQAMETLLEMLKK-DRKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTP  343 (445)
Q Consensus       266 ~~~~~g~~~~a~~~~~~m~~-~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~  343 (445)
                      ...+.|+....  =++..++ ..++| +..+.-.+..+-...|++..|..--+....  ..|....|..|-+.   .-+.
T Consensus       303 ~~ar~gdta~d--RlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdI---eeAe  375 (531)
T COG3898         303 VRARSGDTALD--RLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADI---EEAE  375 (531)
T ss_pred             HHhcCCCcHHH--HHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHH---Hhhc
Confidence            34555552211  1111111 12345 445566677777788888877765554433  45677777777663   3466


Q ss_pred             hhH-HHHHHHHHHHHhCCCCCC
Q 013323          344 KGM-QLAQDTLVNMNSRNIFLS  364 (445)
Q Consensus       344 ~g~-~~a~~~~~~m~~~~~~p~  364 (445)
                      .|+ .++...+.+-.+.--.|+
T Consensus       376 tGDqg~vR~wlAqav~APrdPa  397 (531)
T COG3898         376 TGDQGKVRQWLAQAVKAPRDPA  397 (531)
T ss_pred             cCchHHHHHHHHHHhcCCCCCc
Confidence            677 888888888776544443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=88.57  E-value=28  Score=34.71  Aligned_cols=87  Identities=5%  Similarity=-0.041  Sum_probs=52.8

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHH-CCCCCCHH--------HHHHHHHHHhcCCChhHHHHHHHHHHHCCCC
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMML-DGVQPTRD--------LFHSLIVGTMKGSRLQDTFFFRDQMKANGFL  108 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~g~~p~~~--------~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~  108 (445)
                      .|.+..|..+..+....-.++.|...|-+... .|++.-..        .-.+=++++  -|.+++|+++|-+|.++++ 
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feeaek~yld~drrDL-  765 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDADRRDL-  765 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhccchhhh-
Confidence            58888888888777777788888877766544 23321111        111122222  4888899988888877543 


Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHH
Q 013323          109 PDVAVYNYLISVCGKCKNSDQAIRIFE  135 (445)
Q Consensus       109 p~~~~~~~ll~~~~~~g~~~~a~~~~~  135 (445)
                              .|..+.+.|++-...++++
T Consensus       766 --------Aielr~klgDwfrV~qL~r  784 (1189)
T KOG2041|consen  766 --------AIELRKKLGDWFRVYQLIR  784 (1189)
T ss_pred             --------hHHHHHhhhhHHHHHHHHH
Confidence                    4555556666655544443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=88.47  E-value=1.2  Score=25.21  Aligned_cols=23  Identities=22%  Similarity=0.325  Sum_probs=12.0

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHH
Q 013323          114 YNYLISVCGKCKNSDQAIRIFEE  136 (445)
Q Consensus       114 ~~~ll~~~~~~g~~~~a~~~~~~  136 (445)
                      |+.|-+.|.+.|++++|.++|++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            44455555555555555555555

>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=88.41  E-value=0.24  Score=38.93  Aligned_cols=84  Identities=8%  Similarity=0.133  Sum_probs=50.7

Q ss_pred             HHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCC
Q 013323           82 LIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQ  161 (445)
Q Consensus        82 ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~  161 (445)
                      +++.+.+.+..+....+++.+...+-..+....|.++..|++.+..++..++++..       +..-...++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcch
Confidence            45566666777777777777776655556777777777777777667766666611       11233455555566666


Q ss_pred             hhhHHHHHHHH
Q 013323          162 LDPVYAIVRDM  172 (445)
Q Consensus       162 ~~~a~~~~~~m  172 (445)
                      ++++.-++..+
T Consensus        86 ~~~a~~Ly~~~   96 (143)
T PF00637_consen   86 YEEAVYLYSKL   96 (143)
T ss_dssp             HHHHHHHHHCC
T ss_pred             HHHHHHHHHHc
Confidence            66665555543

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.

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=88.18  E-value=11  Score=29.51  Aligned_cols=94  Identities=10%  Similarity=0.109  Sum_probs=46.9

Q ss_pred             HHHHCCCCCCH--HHHHHHHHHHHccCCHHHHHHHHHHHHhCC-----CCccHHHHHHHHHHHHHcCC-hhhHHHHHHHH
Q 013323          101 QMKANGFLPDV--AVYNYLISVCGKCKNSDQAIRIFEEMKKYE-----VKPNGQTYVCLLNACAAAGQ-LDPVYAIVRDM  172 (445)
Q Consensus       101 ~m~~~g~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g-----~~p~~~~y~~li~~~~~~g~-~~~a~~~~~~m  172 (445)
                      .|.+.+..+++  ...|.+++-...-++....+.+++.+..-.     -..+..+|.+++.+.++..- ---+..+|+.|
T Consensus        27 y~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~L  106 (145)
T PF13762_consen   27 YMQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFL  106 (145)
T ss_pred             HhhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHH
Confidence            34444444433  234555555555555555555555443210     01244556666666544443 23345555666


Q ss_pred             HHcCCCCCHHHHHHHHHHHHcc
Q 013323          173 TAAGAGLDKFCYAGLITAHTNK  194 (445)
Q Consensus       173 ~~~g~~p~~~~~~~li~~~~~~  194 (445)
                      ++.+.+++..-|..+|.++.+.
T Consensus       107 k~~~~~~t~~dy~~li~~~l~g  128 (145)
T PF13762_consen  107 KKNDIEFTPSDYSCLIKAALRG  128 (145)
T ss_pred             HHcCCCCCHHHHHHHHHHHHcC
Confidence            6555566666666666655543

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=88.01  E-value=4.1  Score=29.07  Aligned_cols=43  Identities=19%  Similarity=0.308  Sum_probs=20.0

Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 013323           96 FFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMK  138 (445)
Q Consensus        96 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  138 (445)
                      .+-++.+....+.|++.+.++.+++|-|.+|+..|.++|+..+
T Consensus        27 rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          27 RRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            3334444444444444444444444444444444444444443

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.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=87.25  E-value=8.6  Score=35.36  Aligned_cols=125  Identities=13%  Similarity=0.008  Sum_probs=84.9

Q ss_pred             HHhcCCChhHHHHHHHHHHHC-----CCC---------CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHH
Q 013323           85 GTMKGSRLQDTFFFRDQMKAN-----GFL---------PDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYV  150 (445)
Q Consensus        85 ~~~~~~~~~~a~~~~~~m~~~-----g~~---------p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~  150 (445)
                      .+.+.|++..|..-|+.....     +..         .-..+++.|.-+|.+.+++..|++.-+.....+ ++|.-..-
T Consensus       217 ~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALy  295 (397)
T KOG0543|consen  217 VLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALY  295 (397)
T ss_pred             HHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHH
Confidence            355667777777776664321     111         234577888889999999999999988888765 34665666


Q ss_pred             HHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHh
Q 013323          151 CLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQS  212 (445)
Q Consensus       151 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~  212 (445)
                      -=-.++...|+++.|...|+.+.+.  .|+......=|..|.+.-+...+...++|..|-..
T Consensus       296 RrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  296 RRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            6677888899999999999999984  67777666666555443222224456666665543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=87.14  E-value=8.4  Score=29.99  Aligned_cols=71  Identities=7%  Similarity=0.010  Sum_probs=39.5

Q ss_pred             cCCChhHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHH
Q 013323           88 KGSRLQDTFFFRDQMKANG--FLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA  158 (445)
Q Consensus        88 ~~~~~~~a~~~~~~m~~~g--~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~  158 (445)
                      +.|++++|.+.|+.+..+=  -+-....--.|+.+|.+.+++++|...+++..+..-.-...-|...+.+++.
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            4667777777777666541  0112334445666777777777777777776654211112345555555444

>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=87.09  E-value=21  Score=31.71  Aligned_cols=134  Identities=11%  Similarity=0.038  Sum_probs=70.2

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH---HhcCChhhHHHHHHHHHhCCCCCCHH-HHHH
Q 013323          257 LTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCY---LHSGDIDNGHKVFEDYICSEKFPPAE-LYAT  332 (445)
Q Consensus       257 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~---~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~  332 (445)
                      ..+|-.-+..+.+.++.+.+.+++..|...- ......+..++..+   .... ...|...++.+....+.|... ....
T Consensus       121 ~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~~~l~~i~~l~~~~-~~~a~~~ld~~l~~r~~~~~~~~~e~  198 (278)
T PF08631_consen  121 PEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFDSILHHIKQLAEKS-PELAAFCLDYLLLNRFKSSEDQWLEK  198 (278)
T ss_pred             cHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHHHHHHHHHHHHhhC-cHHHHHHHHHHHHHHhCCChhHHHHH
Confidence            3456566777777899999999999998762 21233444444444   4433 356666777666665666554 2222


Q ss_pred             HHHhHhhcCCh------hhH-HHHHHHHHHHHhC-CCCCCcchhhHHHHHhh-----cccCCChhhHHHHHHH
Q 013323          333 LVEGAMFGYTP------KGM-QLAQDTLVNMNSR-NIFLSPRMGSDLLLVAA-----GEKSGGYTTANYIWDL  392 (445)
Q Consensus       333 li~~~~~~~~~------~g~-~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~-----~~~~g~~~~A~~~~~~  392 (445)
                      ++-..+-...+      ... +.+.++++...+. +-+.+..+-.++.....     ..+.++++.|...|+-
T Consensus       199 ~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~  271 (278)
T PF08631_consen  199 LVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAASAIHTLLWNKGKKHYKAKNYDEAIEWYEL  271 (278)
T ss_pred             HHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHH
Confidence            21111001122      112 4444555543322 22233333222221111     3389999999988874

It is also involved in sporulation [].

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=86.66  E-value=1.7  Score=24.56  Aligned_cols=26  Identities=19%  Similarity=0.326  Sum_probs=19.7

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHH
Q 013323          294 IVMQNIRCYLHSGDIDNGHKVFEDYI  319 (445)
Q Consensus       294 ~~~~li~~~~~~g~~~~a~~~~~~m~  319 (445)
                      +|+.|-..|.+.|++++|.++|+...
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            46677888888888888888888744

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=86.41  E-value=39  Score=34.06  Aligned_cols=77  Identities=13%  Similarity=0.028  Sum_probs=47.6

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCC-------hhHHHHHHHHHHHCCCCCCHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSR-------LQDTFFFRDQMKANGFLPDVA  112 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~-------~~~a~~~~~~m~~~g~~p~~~  112 (445)
                      |...--++|-.|.|.|+.++|.++..... .........|...+..+....+       .+....-|++..+.....|++
T Consensus       110 ~~~p~Wa~Iyy~LR~G~~~~A~~~~~~~~-~~~~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~r~~~~~Dpy  188 (613)
T PF04097_consen  110 NGDPIWALIYYCLRCGDYDEALEVANENR-NQFQKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRIRNSTDGDPY  188 (613)
T ss_dssp             TTEEHHHHHHHHHTTT-HHHHHHHHHHTG-GGS-TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHTTT-TTS-HH
T ss_pred             CCCccHHHHHHHHhcCCHHHHHHHHHHhh-hhhcchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhcCCCCCChH
Confidence            33444588999999999999999996654 3355566778888888876532       234455566555544322543


Q ss_pred             ---HHHHH
Q 013323          113 ---VYNYL  117 (445)
Q Consensus       113 ---~~~~l  117 (445)
                         +|.++
T Consensus       189 K~AvY~il  196 (613)
T PF04097_consen  189 KRAVYKIL  196 (613)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence               45555

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.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=85.74  E-value=5.7  Score=30.91  Aligned_cols=81  Identities=16%  Similarity=0.194  Sum_probs=54.4

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHH
Q 013323          256 LLTVYHVAFHACAELKDVQAMETLLEMLKKD-RKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATL  333 (445)
Q Consensus       256 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  333 (445)
                      ....|+.-.. ..+.|++++|.+.|+.+... ...| ....--.|+.+|.+.|+++.|...+++.++..-.-.-.-|...
T Consensus        10 ~~~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   10 PQELYQEAQE-ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYY   88 (142)
T ss_pred             HHHHHHHHHH-HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHH
Confidence            3344554444 44568999999999998765 1112 3345556889999999999999999998887433233556666


Q ss_pred             HHhH
Q 013323          334 VEGA  337 (445)
Q Consensus       334 i~~~  337 (445)
                      +.++
T Consensus        89 ~~gL   92 (142)
T PF13512_consen   89 MRGL   92 (142)
T ss_pred             HHHH
Confidence            6643

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=85.56  E-value=3  Score=25.46  Aligned_cols=39  Identities=21%  Similarity=0.192  Sum_probs=28.0

Q ss_pred             hHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHh
Q 013323          369 SDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYN  410 (445)
Q Consensus       369 ~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~  410 (445)
                      ..++.+.   +.|-+.++..++++|.+.|+..++..|+.+++
T Consensus         7 GiL~~Ak---~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~   45 (48)
T PF11848_consen    7 GILLLAK---RRGLISEVKPLLDRLQQAGFRISPKLIEEILR   45 (48)
T ss_pred             HHHHHHH---HcCChhhHHHHHHHHHHcCcccCHHHHHHHHH
Confidence            3444444   67777788888888888888888877777665

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>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=85.22  E-value=17  Score=28.91  Aligned_cols=54  Identities=13%  Similarity=0.218  Sum_probs=28.7

Q ss_pred             HHhcCCChhHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 013323           85 GTMKGSRLQDTFFFRDQMKANGF-LPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKY  140 (445)
Q Consensus        85 ~~~~~~~~~~a~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  140 (445)
                      .-.+.++.+++..+++-+.-..- .|...++...+  +.+.|++.+|..+|+++.+.
T Consensus        19 ~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l--~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   19 VALRLGDPDDAEALLDALRVLRPEFPELDLFDGWL--HIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HHHccCChHHHHHHHHHHHHhCCCchHHHHHHHHH--HHHhCCHHHHHHHHHHHhcc
Confidence            33455566666666666665320 12223333333  34566677777777766553

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=84.78  E-value=13  Score=26.98  Aligned_cols=42  Identities=5%  Similarity=0.083  Sum_probs=18.0

Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHH
Q 013323           62 DVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMK  103 (445)
Q Consensus        62 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~  103 (445)
                      .-++.+....+.|+.....+.+++|.+.+++..|.++|+-.+
T Consensus        31 rglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK   72 (108)
T PF02284_consen   31 RGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIK   72 (108)
T ss_dssp             HHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            333344444444555555555555555555555555554444

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 ....

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=84.69  E-value=28  Score=30.79  Aligned_cols=63  Identities=19%  Similarity=0.120  Sum_probs=49.3

Q ss_pred             cCchhHHHHHHHHHHhcccHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChhhHHHHHH
Q 013323          254 SRLLTVYHVAFHACAELKDVQAMETLLEMLKKD-RKSPDVYIVMQNIRCYLHSGDIDNGHKVFE  316 (445)
Q Consensus       254 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  316 (445)
                      .++..+...+|..+++.+++....++++..... +..-|...|..+|......|+..-...+.+
T Consensus       199 ~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~  262 (292)
T PF13929_consen  199 SLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIID  262 (292)
T ss_pred             CCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhh
Confidence            556667788899999999999999888876654 555688889999999999998776655544

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=84.23  E-value=15  Score=28.03  Aligned_cols=91  Identities=13%  Similarity=0.047  Sum_probs=66.5

Q ss_pred             HHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC-CCCCCHHHHHHHHH-hHhhcCCh
Q 013323          266 ACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICS-EKFPPAELYATLVE-GAMFGYTP  343 (445)
Q Consensus       266 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~li~-~~~~~~~~  343 (445)
                      +++..|+++.|.+.|...... .+-....||.-..++.-.|+.++|++=+++..+. |-+ +...+.+.+. ++  -|-.
T Consensus        52 alaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~--lyRl  127 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGL--LYRL  127 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHH--HHHH
Confidence            467889999999999887653 2237788999999999999999999988888776 433 3344444443 33  2455


Q ss_pred             hhH-HHHHHHHHHHHhCC
Q 013323          344 KGM-QLAQDTLVNMNSRN  360 (445)
Q Consensus       344 ~g~-~~a~~~~~~m~~~~  360 (445)
                      .|+ +.|..-|+..-+.|
T Consensus       128 ~g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  128 LGNDDAARADFEAAAQLG  145 (175)
T ss_pred             hCchHHHHHhHHHHHHhC
Confidence            666 78888887777666

>PRK15331 chaperone protein SicA; Provisional

Probab=83.84  E-value=11  Score=30.15  Aligned_cols=92  Identities=10%  Similarity=-0.055  Sum_probs=67.6

Q ss_pred             HHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 013323           46 TVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCK  125 (445)
Q Consensus        46 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g  125 (445)
                      ..-..+...|++++|..+|.-+.-.+. -|..-|..|-..+-..++++.|...|...-..+. -|...+=..-.++...|
T Consensus        42 ~~Ay~~y~~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~  119 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMR  119 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhC
Confidence            344556788999999999999987543 2334445555556667899999999998776543 23333444567888999


Q ss_pred             CHHHHHHHHHHHHh
Q 013323          126 NSDQAIRIFEEMKK  139 (445)
Q Consensus       126 ~~~~a~~~~~~m~~  139 (445)
                      +.+.|..-|+...+
T Consensus       120 ~~~~A~~~f~~a~~  133 (165)
T PRK15331        120 KAAKARQCFELVNE  133 (165)
T ss_pred             CHHHHHHHHHHHHh
Confidence            99999999998876

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=83.58  E-value=43  Score=32.18  Aligned_cols=235  Identities=11%  Similarity=0.020  Sum_probs=130.9

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHH----
Q 013323           79 FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLN----  154 (445)
Q Consensus        79 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~----  154 (445)
                      ...+.++.-+..+++.+.+-++...+..  -++.-++..-.+|...|.+..+...-+.-.+.|-. ...-|+.+-.    
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r  303 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALAR  303 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHH
Confidence            4455556666777888888887777754  55666777777888888877766666555544421 2223333333    


Q ss_pred             ---HHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcc
Q 013323          155 ---ACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMG  231 (445)
Q Consensus       155 ---~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  231 (445)
                         +|.+.++.+.+...|.+....-..|+..+-.              ..+++....-......                
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~l--------------k~~Ek~~k~~e~~a~~----------------  353 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRTPDLLSKL--------------KEAEKALKEAERKAYI----------------  353 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHH--------------HHHHHHHHHHHHHHhh----------------
Confidence               4444566677777777655443333322211              1122222111111000                


Q ss_pred             cchhhhcchhhhhHHhhhcCcccCch-hHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhh
Q 013323          232 VSKEELYNLPTAEYVHRRGGFLSRLL-TVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDN  310 (445)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~g~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  310 (445)
                                            .|+. .-.-.--..+.+.|++..|...+.++.... +-|...|..--.+|.+.|.+..
T Consensus       354 ----------------------~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~  410 (539)
T KOG0548|consen  354 ----------------------NPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPE  410 (539)
T ss_pred             ----------------------ChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHH
Confidence                                  1111 001111334667899999999999988754 3477899999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhh
Q 013323          311 GHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAA  376 (445)
Q Consensus       311 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  376 (445)
                      |+.=-+.-++.    ++......++-.. ++..-.. +.|++.|.+-.+.+  |+..-+..-+.-|.
T Consensus       411 aL~Da~~~ieL----~p~~~kgy~RKg~-al~~mk~ydkAleay~eale~d--p~~~e~~~~~~rc~  470 (539)
T KOG0548|consen  411 ALKDAKKCIEL----DPNFIKAYLRKGA-ALRAMKEYDKALEAYQEALELD--PSNAEAIDGYRRCV  470 (539)
T ss_pred             HHHHHHHHHhc----CchHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHhcC--chhHHHHHHHHHHH
Confidence            88865555544    3333333333110 1111123 77777777776654  44443333333343

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.50  E-value=56  Score=33.43  Aligned_cols=154  Identities=11%  Similarity=0.101  Sum_probs=92.9

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHH----HHCC------------CCCCHHHHHHHHHHHhcCCChhHHHHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDM----MLDG------------VQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMK  103 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m----~~~g------------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~  103 (445)
                      +..+.+.++.++...+++-.-.-+++..    ...+            .....-+...-|+.+.+...++.|..+-+   
T Consensus       282 s~ss~~~i~~~~d~~n~~v~ys~vl~~l~d~l~~w~~~~~vltsdg~~~~L~ek~le~kL~iL~kK~ly~~Ai~LAk---  358 (933)
T KOG2114|consen  282 SNSSSNRIFKAYDLRNRYVLYSSVLEDLSDNLIEWSFDCLVLTSDGVVHELIEKDLETKLDILFKKNLYKVAINLAK---  358 (933)
T ss_pred             CccchhheeehhhhcCcccchHHhHHHHHHHHHhcCCcEEEEecCCceeeeeeccHHHHHHHHHHhhhHHHHHHHHH---
Confidence            4455677888888887764433333333    2222            01112234445555666666666655443   


Q ss_pred             HCCCCCCHHHHHHHHHH----HHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCC
Q 013323          104 ANGFLPDVAVYNYLISV----CGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGL  179 (445)
Q Consensus       104 ~~g~~p~~~~~~~ll~~----~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  179 (445)
                      ..+  .|..+-..+...    +.+.|++++|...|-+-... +.|     ..+|.-|.....+..-..+++.+.+.|+. 
T Consensus       359 ~~~--~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLdaq~IknLt~YLe~L~~~gla-  429 (933)
T KOG2114|consen  359 SQH--LDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDAQRIKNLTSYLEALHKKGLA-  429 (933)
T ss_pred             hcC--CCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCHHHHHHHHHHHHHHHHcccc-
Confidence            333  233333444444    45689999998887665531 122     45677777777888888899999999875 


Q ss_pred             CHHHHHHHHHHHHccCCCchHHHHHHHH
Q 013323          180 DKFCYAGLITAHTNKIPRADDTATKIIE  207 (445)
Q Consensus       180 ~~~~~~~li~~~~~~~~~~~~~a~~~~~  207 (445)
                      +......|+.+|.+.++.  +....+.+
T Consensus       430 ~~dhttlLLncYiKlkd~--~kL~efI~  455 (933)
T KOG2114|consen  430 NSDHTTLLLNCYIKLKDV--EKLTEFIS  455 (933)
T ss_pred             cchhHHHHHHHHHHhcch--HHHHHHHh
Confidence            666667888999998754  44444433

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=82.94  E-value=5.4  Score=23.63  Aligned_cols=27  Identities=15%  Similarity=0.279  Sum_probs=15.7

Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          295 VMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       295 ~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      +..+-.+|...|++++|.++|++..+.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            444555566666666666666665554

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=82.78  E-value=4.9  Score=23.79  Aligned_cols=24  Identities=17%  Similarity=0.194  Sum_probs=10.5

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHh
Q 013323          116 YLISVCGKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus       116 ~ll~~~~~~g~~~~a~~~~~~m~~  139 (445)
                      .+-..|.+.|++++|.++|++..+
T Consensus         6 ~la~~~~~~G~~~~A~~~~~~~l~   29 (44)
T PF13428_consen    6 ALARAYRRLGQPDEAERLLRRALA   29 (44)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH
Confidence            334444444444444444444443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=82.14  E-value=10  Score=32.93  Aligned_cols=94  Identities=20%  Similarity=0.234  Sum_probs=53.9

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhCC----CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC-CCCCCH-HHHHH
Q 013323          259 VYHVAFHACAELKDVQAMETLLEMLKKDR----KSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICS-EKFPPA-ELYAT  332 (445)
Q Consensus       259 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~----~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~-~~~~~  332 (445)
                      .|+..+..+- .|++..|..-|....+..    ..||..-|  |-.++...|++++|-.+|..+.+. +-.|.. ...--
T Consensus       144 ~Y~~A~~~~k-sgdy~~A~~~F~~fi~~YP~s~~~~nA~yW--LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallK  220 (262)
T COG1729         144 LYNAALDLYK-SGDYAEAEQAFQAFIKKYPNSTYTPNAYYW--LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLK  220 (262)
T ss_pred             HHHHHHHHHH-cCCHHHHHHHHHHHHHcCCCCcccchhHHH--HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHH
Confidence            5776665554 355777777777766542    23333333  577777778888877777777665 222211 22222


Q ss_pred             HHHhHhhcCChhhH-HHHHHHHHHHHhC
Q 013323          333 LVEGAMFGYTPKGM-QLAQDTLVNMNSR  359 (445)
Q Consensus       333 li~~~~~~~~~~g~-~~a~~~~~~m~~~  359 (445)
                      |-.    ...+.|. ++|..+|++..++
T Consensus       221 lg~----~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         221 LGV----SLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHH----HHHHhcCHHHHHHHHHHHHHH
Confidence            222    2345555 7777777776665

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=81.94  E-value=3.8  Score=23.55  Aligned_cols=25  Identities=20%  Similarity=0.282  Sum_probs=11.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHH
Q 013323          113 VYNYLISVCGKCKNSDQAIRIFEEM  137 (445)
Q Consensus       113 ~~~~ll~~~~~~g~~~~a~~~~~~m  137 (445)
                      +++.|-..|...|++++|+.++++.
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            4444555555555555555555444

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=81.69  E-value=27  Score=33.34  Aligned_cols=75  Identities=17%  Similarity=0.175  Sum_probs=54.3

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhC-CCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCC-CHHHHHHHHHH
Q 013323          116 YLISVCGKCKNSDQAIRIFEEMKKY-EVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGL-DKFCYAGLITA  190 (445)
Q Consensus       116 ~ll~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~  190 (445)
                      -|-.++-+.|+.++|.+.|++|.+. ...-+......++.++...+.+.++..++.+..+...+. -..+|+..+--
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLk  340 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLK  340 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHH
Confidence            3455566789999999999999754 222234577889999999999999999999986544332 24567765543

The molecular function of this protein is uncertain.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=80.78  E-value=4.2  Score=23.36  Aligned_cols=29  Identities=10%  Similarity=0.190  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 013323          292 VYIVMQNIRCYLHSGDIDNGHKVFEDYIC  320 (445)
Q Consensus       292 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~  320 (445)
                      ..+++.|-..|...|++++|.+++++...
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            35678888888888999988888887654

>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=80.50  E-value=0.7  Score=36.28  Aligned_cols=86  Identities=12%  Similarity=0.182  Sum_probs=61.2

Q ss_pred             HHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 013323           46 TVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCK  125 (445)
Q Consensus        46 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g  125 (445)
                      .+|+.+.+.+.+......++.+...+..-+....+.++..|++.+..+...++++..       +..-...+++.|-+.|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHG   84 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcc
Confidence            457777888889999999999988776667888999999999998878877777621       1122245667777777


Q ss_pred             CHHHHHHHHHHHH
Q 013323          126 NSDQAIRIFEEMK  138 (445)
Q Consensus       126 ~~~~a~~~~~~m~  138 (445)
                      .++++.-++.++.
T Consensus        85 l~~~a~~Ly~~~~   97 (143)
T PF00637_consen   85 LYEEAVYLYSKLG   97 (143)
T ss_dssp             SHHHHHHHHHCCT
T ss_pred             hHHHHHHHHHHcc
Confidence            7777776666543

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.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=80.48  E-value=47  Score=30.48  Aligned_cols=53  Identities=13%  Similarity=0.139  Sum_probs=28.3

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          118 ISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       118 l~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      ..+..+.|+++...++.......  .++...|.++...  +.++.+++....+....
T Consensus         5 ~eaaWrl~~Wd~l~~~~~~~~~~--~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~   57 (352)
T PF02259_consen    5 AEAAWRLGDWDLLEEYLSQSNED--SPEYSFYRALLAL--RQGDYDEAKKYIEKARQ   57 (352)
T ss_pred             HHHHHhcCChhhHHHHHhhccCC--ChhHHHHHHHHHH--hCccHHHHHHHHHHHHH
Confidence            45566677777655554444422  1234444444333  66677766666665544

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.48  E-value=69  Score=32.38  Aligned_cols=226  Identities=13%  Similarity=0.096  Sum_probs=122.6

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCC----CCHHHHHHHHHHHhcCCChhHHHHHHHHHHHC---------
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQ----PTRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN---------  105 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~----p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---------  105 (445)
                      -.-.+|..+.+-....|+++.|..+++.=...+-.    .+..-+...+.-+.+.|+.+....++-.+.+.         
T Consensus       505 ~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~  584 (829)
T KOG2280|consen  505 TPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMT  584 (829)
T ss_pred             CCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHH
Confidence            34567777777778888888888887765554321    13344666777777777777777666655432         


Q ss_pred             --CCCCCHHHHHHHHH--------HHHccCCHHHHHHHHH--HHH----hCCCCccHHHHHHHHHHHHHcCC--------
Q 013323          106 --GFLPDVAVYNYLIS--------VCGKCKNSDQAIRIFE--EMK----KYEVKPNGQTYVCLLNACAAAGQ--------  161 (445)
Q Consensus       106 --g~~p~~~~~~~ll~--------~~~~~g~~~~a~~~~~--~m~----~~g~~p~~~~y~~li~~~~~~g~--------  161 (445)
                        ..+.....|--+++        .+.+.++-..+..-|.  ...    ..|..|+..   ..-+.|.+...        
T Consensus       585 l~~~p~a~~lY~~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk---~~a~~~a~sk~~s~e~ka~  661 (829)
T KOG2280|consen  585 LRNQPLALSLYRQFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALK---TAANAFAKSKEKSFEAKAL  661 (829)
T ss_pred             HHhchhhhHHHHHHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHH---HHHHHHhhhhhhhhHHHHH
Confidence              11111222333332        1223443333333222  111    123334432   23333333322        


Q ss_pred             --hhhHHHHHHHHHH-cCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhc
Q 013323          162 --LDPVYAIVRDMTA-AGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELY  238 (445)
Q Consensus       162 --~~~a~~~~~~m~~-~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  238 (445)
                        ..+-+.+.+.+.. .|..-..-+.+-.+..+...|..  ..|.++-...+                            
T Consensus       662 ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~--k~a~ql~~~Fk----------------------------  711 (829)
T KOG2280|consen  662 EDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQN--KRAEQLKSDFK----------------------------  711 (829)
T ss_pred             HHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccch--HHHHHHHHhcC----------------------------
Confidence              1222333344433 23333334444444445555544  55666655433                            


Q ss_pred             chhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHH
Q 013323          239 NLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDY  318 (445)
Q Consensus       239 ~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m  318 (445)
                                     .||...|-.=+.+++..+++++.+++-..++.      ..-|.-++.+|.+.|+.++|.+++...
T Consensus       712 ---------------ipdKr~~wLk~~aLa~~~kweeLekfAkskks------PIGy~PFVe~c~~~~n~~EA~KYiprv  770 (829)
T KOG2280|consen  712 ---------------IPDKRLWWLKLTALADIKKWEELEKFAKSKKS------PIGYLPFVEACLKQGNKDEAKKYIPRV  770 (829)
T ss_pred             ---------------CcchhhHHHHHHHHHhhhhHHHHHHHHhccCC------CCCchhHHHHHHhcccHHHHhhhhhcc
Confidence                           56777788888888888888887776655431      233555778888888888888887655

---

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	445
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-13
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-10
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-08

>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 = 72.2 bits (176), Expect = 1e-13
 Identities = 77/519 (14%), Positives = 142/519 (27%), Gaps = 140/519 (26%)

Query: 2   RLLQSIYRHHKS-----VGGALGRRF-FVTSAGAEEYARRNYANNASEYNTVVTSLTSQR 55
           RL  ++    +      V   L   + F+ S    E   R  +     Y      L +  
Sbjct: 66  RLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQ--RQPSMMTRMYIEQRDRLYNDN 123

Query: 56  RFFLLRDVY-DDMM------LDGVQPTRDLFHSLIVGTMKGS-------------RLQDT 95
           + F   +V            L  ++P +++    I G + GS             ++Q  
Sbjct: 124 QVFAKYNVSRLQPYLKLRQALLELRPAKNVL---IDG-VLGSGKTWVALDVCLSYKVQCK 179

Query: 96  FFF-------RDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRI---FEEMK------- 138
             F       ++       L  +    Y I        SD +  I      ++       
Sbjct: 180 MDFKIFWLNLKNCNSPETVLEMLQKLLYQID-PNWTSRSDHSSNIKLRIHSIQAELRRLL 238

Query: 139 KYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKF---CYAGLITAHTNKI 195
           K +   N     CLL        L  V     +  A     + F   C   L+T  T   
Sbjct: 239 KSKPYEN-----CLL-------VLLNVQ----NAKA----WNAFNLSCKI-LLT--TRFK 275

Query: 196 PRADD---TATKIIELVEQSKGWSSVETSG---NNAENEMMGVSKEELYNLPTA------ 243
              D      T  I L   S   +  E         +     + +E L   P        
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAE 335

Query: 244 ---EYVHRRGGFL----SRLLTV------------YHVAFHACAEL-KDVQAMETLLEML 283
              + +     +      +L T+            Y   F   +           LL ++
Sbjct: 336 SIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLI 395

Query: 284 KKDRKSPDVYIVMQ-------------NIRCYLHSGDIDNG---------HKVF-EDYIC 320
             D    DV +V+                   + S  ++           H+   + Y  
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNI 455

Query: 321 SEKFPPAELYATLVEGAMF---GYTPKGMQLAQDTLVNMNSRNIFLSPR-MGSDLLLVAA 376
            + F   +L    ++   +   G+  K ++  +   +    R +FL  R +   +   + 
Sbjct: 456 PKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTL---FRMVFLDFRFLEQKIRHDST 512

Query: 377 GEKSGGYTTANYIWDLMQARK-ITPSLPAVEAYYNGLKD 414
              + G    N +  L   +  I  + P  E   N + D
Sbjct: 513 AWNASGSIL-NTLQQLKFYKPYICDNDPKYERLVNAILD 550

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 60.2 bits (144), Expect = 8e-10
 Identities = 14/129 (10%), Positives = 37/129 (28%), Gaps = 4/129 (3%)

Query: 67  MMLDGVQPTRDLFHSLIVGTMKGSRL---QDTFFFRDQMKANGFLPDVAVYNYLISVCGK 123
                +   +    +     +   +L             +    L  + +YN ++    +
Sbjct: 118 HSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWAR 177

Query: 124 CKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQ-LDPVYAIVRDMTAAGAGLDKF 182
                + + +   +K   + P+  +Y   L       Q    +   +  M+  G  L   
Sbjct: 178 QGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQAL 237

Query: 183 CYAGLITAH 191
             A L++  
Sbjct: 238 FTAVLLSEE 246

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 54.8 bits (130), Expect = 4e-08
 Identities = 35/312 (11%), Positives = 90/312 (28%), Gaps = 18/312 (5%)

Query: 27  AGAEEYARRNYANNASEYNTVVTSLTSQRRF---FLLRDVYDDMMLDGVQPTRDLFHSLI 83
           A + ++++   +                 +      L  V+          T D++++++
Sbjct: 113 APSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVM 172

Query: 84  VGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAI-RIFEEMKKYEV 142
           +G  +    ++  +    +K  G  PD+  Y   +   G+       I R  E+M +  +
Sbjct: 173 LGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGL 232

Query: 143 KPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTA 202
           K        LL+    A  L  V+ +    +           + L+     K  R     
Sbjct: 233 KLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPK 292

Query: 203 TKII--ELVEQSKGWSSVETSG-NNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTV 259
             +    L    +    +E +      +        +            R  +   L   
Sbjct: 293 LHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEKALCRA 352

Query: 260 YHV--AFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGD------IDNG 311
                        +   ++   L +L +      V +++Q ++     G+       +  
Sbjct: 353 LRETKNRLEREVYEGRFSLYPFLCLLDEREV---VRMLLQVLQALPAQGESFTTLARELS 409

Query: 312 HKVFEDYICSEK 323
            + F  ++   +
Sbjct: 410 ARTFSRHVVQRQ 421

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	445
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	99.96
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.87
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.87
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.86
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.85
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.85
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.77
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.75
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.74
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.72
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.66
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.66
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.64
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.62
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.61
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.61
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.6
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.6
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.59
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.59
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.58
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.56
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.55
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.53
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.48
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.41
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.41
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.4
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.38
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.38
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.38
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.37
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.35
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.35
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.35
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.35
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.34
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.33
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.27
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.27
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.27
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.26
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.25
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.24
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.24
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.21
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.2
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.15
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.13
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.12
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.12
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.1
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.1
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.1
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.08
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.07
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.06
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.05
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.04
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.02
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.02
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.01
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.01
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.99
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.94
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.93
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.92
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.9
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.88
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.84
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.83
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.8
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.77
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.72
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.7
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.7
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.69
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.69
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.68
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.66
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.64
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.62
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.61
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.59
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.59
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.59
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.42
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.39
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.38
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.36
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.33
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.3
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.28
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.27
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.27
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.26
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.26
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.25
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.22
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.2
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.18
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.17
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.17
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.15
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.14
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.14
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.13
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.13
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.12
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.11
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.1
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.1
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.07
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.06
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.06
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.05
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.03
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.01
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	97.99
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	97.98
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	97.97
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	97.96
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	97.95
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.94
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	97.94
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	97.92
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	97.92
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.92
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.88
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.88
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.84
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	97.84
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	97.84
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	97.82
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.81
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	97.81
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	97.81
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.8
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	97.79
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	97.79
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.79
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.79
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.79
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.78
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.76
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.75
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.75
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.73
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.7
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.69
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.68
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.67
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	97.67
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.65
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.64
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.64
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.63
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.59
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.57
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.57
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	97.56
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.55
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.54
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.52
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.51
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	97.45
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.43
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.42
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.4
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.37
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.36
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.36
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.34
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.19
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.17
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.14
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.14
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.09
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.06
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.01
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	96.88
2l6j_A	111	TPR repeat-containing protein associated with HSP;	96.85
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.81
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	96.8
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	96.79
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	96.78
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	96.7
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	96.67
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	96.6
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	96.52
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	96.52
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	96.49
2l6j_A	111	TPR repeat-containing protein associated with HSP;	96.4
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.35
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	96.29
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.21
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.18
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.15
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	95.94
1klx_A	138	Cysteine rich protein B; structural genomics, heli	95.88
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.68
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	95.68
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	95.49
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	95.43
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	95.43
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	95.39
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	95.28
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	95.01
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	94.97
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	94.93
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.8
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	94.79
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	94.77
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	94.02
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	93.85
1pc2_A	152	Mitochondria fission protein; unknown function; NM	93.63
1pc2_A	152	Mitochondria fission protein; unknown function; NM	93.44
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	93.33
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	93.29
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.12
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	92.45
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	92.04
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	91.92
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	91.51
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	91.18
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	91.11
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	90.82
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	90.75
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	88.66
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	88.45
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	88.41
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	87.86
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	87.73
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	87.71
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	87.35
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	87.12
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	86.66
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	83.91
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	83.53
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	82.91

>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=3.3e-33  Score=266.87  Aligned_cols=202  Identities=13%  Similarity=0.163  Sum_probs=173.6

Q ss_pred             HHHHHhcCCCCCh-hhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCC---------hhHHHHH
Q 013323           29 AEEYARRNYANNA-SEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSR---------LQDTFFF   98 (445)
Q Consensus        29 ~~~~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~---------~~~a~~~   98 (445)
                      ..++.+++..+++ ..++.+|.+|++.|++++|+++|++|.+.|++||..||++||.+|++.+.         ++.|.++
T Consensus        13 ~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~l   92 (501)
T 4g26_A           13 SRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI   92 (501)
T ss_dssp             -----------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHH
T ss_pred             HHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHH
Confidence            3455566665554 35888999999999999999999999999999999999999999987654         6789999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCC
Q 013323           99 RDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAG  178 (445)
Q Consensus        99 ~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~  178 (445)
                      |++|.+.|+.||..|||+||++|++.|++++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|.+.|+.
T Consensus        93 f~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~  172 (501)
T 4g26_A           93 FKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVV  172 (501)
T ss_dssp             HHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchh
Q 013323          179 LDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLT  258 (445)
Q Consensus       179 p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~  258 (445)
                      ||..||+++|.+|++.|+.  +.|.++++.|...+.                                       .|+..
T Consensus       173 Pd~~ty~~Li~~~~~~g~~--d~A~~ll~~Mr~~g~---------------------------------------~ps~~  211 (501)
T 4g26_A          173 PEEPELAALLKVSMDTKNA--DKVYKTLQRLRDLVR---------------------------------------QVSKS  211 (501)
T ss_dssp             CCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHTS---------------------------------------SBCHH
T ss_pred             CCHHHHHHHHHHHhhCCCH--HHHHHHHHHHHHhCC---------------------------------------CcCHH
Confidence            9999999999999999976  889999999887642                                       78889


Q ss_pred             HHHHHHHHHHhcc
Q 013323          259 VYHVAFHACAELK  271 (445)
Q Consensus       259 ~~~~li~~~~~~g  271 (445)
                      ||+.++..|+..+
T Consensus       212 T~~~l~~~F~s~~  224 (501)
T 4g26_A          212 TFDMIEEWFKSEV  224 (501)
T ss_dssp             HHHHHHHHHHSHH
T ss_pred             HHHHHHHHHhcCc
Confidence            9999999888754

>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=9e-34  Score=270.76  Aligned_cols=169  Identities=18%  Similarity=0.186  Sum_probs=162.3

Q ss_pred             chHHHHHHhcCCCCChhhHHHHHHHHHhcCc---------HhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHH
Q 013323           26 SAGAEEYARRNYANNASEYNTVVTSLTSQRR---------FFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTF   96 (445)
Q Consensus        26 ~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~---------~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~   96 (445)
                      ..-..+|.++|++||.++||+||.+|++.+.         ++.|.++|++|.+.|+.||..||++||++|++.|++++|.
T Consensus        46 ~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~  125 (501)
T 4g26_A           46 LRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAF  125 (501)
T ss_dssp             HHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHH
Confidence            3456789999999999999999999997654         6889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcC
Q 013323           97 FFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAG  176 (445)
Q Consensus        97 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g  176 (445)
                      ++|++|.+.|+.||..|||+||.+|++.|++++|.++|++|.+.|+.||..||++||.+|++.|++++|.++|++|.+.|
T Consensus       126 ~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g  205 (501)
T 4g26_A          126 DMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLV  205 (501)
T ss_dssp             HHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHcc
Q 013323          177 AGLDKFCYAGLITAHTNK  194 (445)
Q Consensus       177 ~~p~~~~~~~li~~~~~~  194 (445)
                      +.|+..||+.++..|+..
T Consensus       206 ~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          206 RQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             SSBCHHHHHHHHHHHHSH
T ss_pred             CCcCHHHHHHHHHHHhcC
Confidence            999999999999999764

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.96  E-value=1.4e-27  Score=236.30  Aligned_cols=366  Identities=9%  Similarity=-0.059  Sum_probs=276.8

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYL  117 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  117 (445)
                      .+++..|+.++..+.+.|++++|..+|++|..  ..|+..++..+..+|.+.|++++|..+|+.+...  +++..+++.+
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l  156 (597)
T 2xpi_A           81 LSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLA  156 (597)
T ss_dssp             -CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHH
Confidence            36889999999999999999999999999985  4689999999999999999999999999988653  5899999999


Q ss_pred             HHHHHccCCHHHHHHHHHHH-HhC--------------CCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHH
Q 013323          118 ISVCGKCKNSDQAIRIFEEM-KKY--------------EVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKF  182 (445)
Q Consensus       118 l~~~~~~g~~~~a~~~~~~m-~~~--------------g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  182 (445)
                      +.+|.+.|++++|.++|+++ ...              |..++..+|+.++.+|.+.|++++|.++|++|.+.+.. +..
T Consensus       157 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~  235 (597)
T 2xpi_A          157 AFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAK-CYE  235 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHH
T ss_pred             HHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCch-hhH
Confidence            99999999999999999953 222              33457899999999999999999999999999886421 222


Q ss_pred             HHHHH--------------------------------------HHHHHccCCCchHHHHHHHHHHHHhcCCccccccccc
Q 013323          183 CYAGL--------------------------------------ITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNN  224 (445)
Q Consensus       183 ~~~~l--------------------------------------i~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  224 (445)
                      .+..+                                      +..|.+.|+.  +.|.++++.+....  .........
T Consensus       236 ~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~--~~A~~~~~~~~~~~--~~~~~~~~l  311 (597)
T 2xpi_A          236 AFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDEL--RRAEDYLSSINGLE--KSSDLLLCK  311 (597)
T ss_dssp             HHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHH--HHHHHHHHTSTTGG--GCHHHHHHH
T ss_pred             HHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchH--HHHHHHHHHhhcCC--chHHHHHHH
Confidence            22222                                      2333344433  56666666554321  000000000


Q ss_pred             cchhh-cccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 013323          225 AENEM-MGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYL  303 (445)
Q Consensus       225 ~~~~~-~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  303 (445)
                      ..... .+...++. .....   +..  ..+.+..+|+.++.++.+.|++++|..+++.+.+. .+.+..+++.+...|.
T Consensus       312 ~~~~~~~g~~~~A~-~~~~~---~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~  384 (597)
T 2xpi_A          312 ADTLFVRSRFIDVL-AITTK---ILE--IDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDR-HPEKAVTWLAVGIYYL  384 (597)
T ss_dssp             HHHHHHTTCHHHHH-HHHHH---HHH--HCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTSHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHH-HHHHH---HHH--cCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHH
Confidence            00000 01111111 11000   000  01446778999999999999999999999998754 2457889999999999


Q ss_pred             hcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCC
Q 013323          304 HSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGG  382 (445)
Q Consensus       304 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~  382 (445)
                      +.|++++|.++|+++.+.. ..+..+|+.++.    .|.+.|+ ++|.++|+++.+.+ +.+..+|..+..+|.  +.|+
T Consensus       385 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~----~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~--~~g~  456 (597)
T 2xpi_A          385 CVNKISEARRYFSKSSTMD-PQFGPAWIGFAH----SFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHM--QLGN  456 (597)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH----HHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHH--HHTC
T ss_pred             HhccHHHHHHHHHHHHHhC-CCCHHHHHHHHH----HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHH--HcCC
Confidence            9999999999999998752 236779999988    6788998 99999999998875 347788999988887  9999


Q ss_pred             hhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccCCCCCCCchhhhh
Q 013323          383 YTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRLVVVS  428 (445)
Q Consensus       383 ~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~l~~~  428 (445)
                      +++|.++|++|.+.. ..+..+|..+...+.+.|..++|..++..+
T Consensus       457 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  501 (597)
T 2xpi_A          457 ILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNA  501 (597)
T ss_dssp             HHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            999999999998653 346889999999999999999988866554

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.96  E-value=2.7e-27  Score=234.26  Aligned_cols=370  Identities=10%  Similarity=-0.069  Sum_probs=263.8

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHH-HC-----------
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMK-AN-----------  105 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~-~~-----------  105 (445)
                      .|+..+|+.+..+|.+.|++++|..+|+.+..  ..++..+++.++.++.+.|++++|.++|+++. ..           
T Consensus       114 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  191 (597)
T 2xpi_A          114 TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDL--YNRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLM  191 (597)
T ss_dssp             HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCG--GGTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------C
T ss_pred             CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhc--cccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccc
Confidence            46667777777777777777777777776643  24667777777777777777777777777432 21           


Q ss_pred             ---CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC----------------------------------------
Q 013323          106 ---GFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEV----------------------------------------  142 (445)
Q Consensus       106 ---g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~----------------------------------------  142 (445)
                         |.+++..+|+.++.+|.+.|++++|.++|++|.+.+.                                        
T Consensus       192 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  271 (597)
T 2xpi_A          192 QDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFL  271 (597)
T ss_dssp             CCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHH
T ss_pred             cccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHH
Confidence               2334567777777777777777777777776653221                                        


Q ss_pred             ------------------------------CccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 013323          143 ------------------------------KPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHT  192 (445)
Q Consensus       143 ------------------------------~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  192 (445)
                                                    .++..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..++..++..+.
T Consensus       272 ~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~  350 (597)
T 2xpi_A          272 RSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLH  350 (597)
T ss_dssp             HHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHH
Confidence                                          2678889999999999999999999999998765 236777888888888


Q ss_pred             ccCCCchHHHHHHHHHHHHhcCCccccccccccc-hhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcc
Q 013323          193 NKIPRADDTATKIIELVEQSKGWSSVETSGNNAE-NEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELK  271 (445)
Q Consensus       193 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g  271 (445)
                      +.|+.  +.+..+++.+........... ..... ....+...++. .......     ...+.+..+|+.++..|.+.|
T Consensus       351 ~~g~~--~~A~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~-~~~~~~~-----~~~~~~~~~~~~l~~~~~~~g  421 (597)
T 2xpi_A          351 ESGEK--NKLYLISNDLVDRHPEKAVTW-LAVGIYYLCVNKISEAR-RYFSKSS-----TMDPQFGPAWIGFAHSFAIEG  421 (597)
T ss_dssp             HHTCH--HHHHHHHHHHHHHCTTSHHHH-HHHHHHHHHTTCHHHHH-HHHHHHH-----HHCTTCHHHHHHHHHHHHHHT
T ss_pred             HhCCH--HHHHHHHHHHHhhCcccHHHH-HHHHHHHHHhccHHHHH-HHHHHHH-----HhCCCCHHHHHHHHHHHHHcC
Confidence            88866  888888888765432111000 00000 00111111111 1110000     011456778999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHH
Q 013323          272 DVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQ  350 (445)
Q Consensus       272 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~  350 (445)
                      ++++|.++|+++.+.+ +.+..+|+.+..+|.+.|++++|.++|+.+.+.. ..+..+|+.+..    .|.+.|. ++|.
T Consensus       422 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~----~~~~~g~~~~A~  495 (597)
T 2xpi_A          422 EHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGV----VAFNKSDMQTAI  495 (597)
T ss_dssp             CHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH----HHHHTTCHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHH----HHHHhCCHHHHH
Confidence            9999999999888653 3477889999999999999999999999988763 236788888888    5778888 9999


Q ss_pred             HHHHHHHhC----CCCCC--cchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccCCCCCCCch
Q 013323          351 DTLVNMNSR----NIFLS--PRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRL  424 (445)
Q Consensus       351 ~~~~~m~~~----~~~p~--~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  424 (445)
                      ++|+++.+.    +..|+  ..+|..+..+|.  +.|++++|.++|+++.+.+ +.+..+|..+...+.+.|..++|..+
T Consensus       496 ~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~--~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~  572 (597)
T 2xpi_A          496 NHFQNALLLVKKTQSNEKPWAATWANLGHAYR--KLKMYDAAIDALNQGLLLS-TNDANVHTAIALVYLHKKIPGLAITH  572 (597)
T ss_dssp             HHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHhhhccccchhhHHHHHHHHHHHHH--HhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHH
Confidence            999998776    66677  568888888887  9999999999999988755 34788899999999999999888876


Q ss_pred             hhhh
Q 013323          425 VVVS  428 (445)
Q Consensus       425 l~~~  428 (445)
                      +...
T Consensus       573 ~~~~  576 (597)
T 2xpi_A          573 LHES  576 (597)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5543

>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=99.87  E-value=1.8e-18  Score=161.46  Aligned_cols=331  Identities=11%  Similarity=-0.065  Sum_probs=174.6

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISV  120 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  120 (445)
                      ...+..+-..+.+.|++++|...++...+.. +.+..+|..+..++.+.|++++|...|+.+.+.. +.+..+|..+..+
T Consensus        33 ~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  110 (388)
T 1w3b_A           33 TGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAA  110 (388)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHH
Confidence            3344444455556666666666666555432 3355566666666666666666666666665532 1234456666666


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCcc-HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCch
Q 013323          121 CGKCKNSDQAIRIFEEMKKYEVKPN-GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRAD  199 (445)
Q Consensus       121 ~~~~g~~~~a~~~~~~m~~~g~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~  199 (445)
                      +.+.|++++|.+.|+++.+..  |+ ...+..+-..+...|++++|.+.|+++.+.. +-+..+|..+...+...|+.  
T Consensus       111 ~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~--  185 (388)
T 1w3b_A          111 LVAAGDMEGAVQAYVSALQYN--PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEI--  185 (388)
T ss_dssp             HHHHSCSSHHHHHHHHHHHHC--TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCH--
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH--
Confidence            666666666666666665532  33 3345555555556666666666666665542 12355566666666666544  


Q ss_pred             HHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhh-cCcccCchhHHHHHHHHHHhcccHHHHHH
Q 013323          200 DTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRR-GGFLSRLLTVYHVAFHACAELKDVQAMET  278 (445)
Q Consensus       200 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~~~~~~li~~~~~~g~~~~a~~  278 (445)
                      +.|...++.......-...       .....+.................+ -...+.+..++..+...+.+.|++++|..
T Consensus       186 ~~A~~~~~~al~~~p~~~~-------~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~  258 (388)
T 1w3b_A          186 WLAIHHFEKAVTLDPNFLD-------AYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAID  258 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHH-------HHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCcHH-------HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            5666666655443210000       000000000000000000000000 00013345566666666667777777777


Q ss_pred             HHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHH
Q 013323          279 LLEMLKKDRKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNM  356 (445)
Q Consensus       279 ~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m  356 (445)
                      .++.+.+.  .| +..+|..+...+.+.|++++|.+.|+.+.+. .+.+..++..+..    .+.+.|. ++|.+.++++
T Consensus       259 ~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~----~~~~~g~~~~A~~~~~~a  331 (388)
T 1w3b_A          259 TYRRAIEL--QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLAN----IKREQGNIEEAVRLYRKA  331 (388)
T ss_dssp             HHHHHHHT--CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHH----HHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CcccHHHHHHHHH----HHHHcCCHHHHHHHHHHH
Confidence            77666653  23 3456666666677777777777777666654 2335556665555    3455565 6677777666


Q ss_pred             HhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHH
Q 013323          357 NSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQA  395 (445)
Q Consensus       357 ~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~  395 (445)
                      .+.. +.+..++..+...+.  +.|++++|...|+++.+
T Consensus       332 l~~~-p~~~~~~~~l~~~~~--~~g~~~~A~~~~~~a~~  367 (388)
T 1w3b_A          332 LEVF-PEFAAAHSNLASVLQ--QQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             TTSC-TTCHHHHHHHHHHHH--TTTCCHHHHHHHHHHHT
T ss_pred             HhcC-CCcHHHHHHHHHHHH--HcCCHHHHHHHHHHHHh
Confidence            6542 223345555555554  66777777777766664

>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=99.87  E-value=6.7e-19  Score=164.38  Aligned_cols=356  Identities=13%  Similarity=0.012  Sum_probs=264.5

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 013323           48 VTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNS  127 (445)
Q Consensus        48 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  127 (445)
                      ...+.+.|++++|.+.++.+.+.. +.+...+..+-..+...|++++|...++...+.. +.+..+|..+..+|.+.|++
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~   83 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCH
Confidence            456778999999999999987753 2345566677778889999999999999988754 45788999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCCchHHHHHH
Q 013323          128 DQAIRIFEEMKKYEVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLD-KFCYAGLITAHTNKIPRADDTATKI  205 (445)
Q Consensus       128 ~~a~~~~~~m~~~g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~~~~~~~a~~~  205 (445)
                      ++|...|+++...  .| +..+|..+..++.+.|++++|...|+++.+..  |+ ...+..+-..+...|+.  +.|...
T Consensus        84 ~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~--~~A~~~  157 (388)
T 1w3b_A           84 QEAIEHYRHALRL--KPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN--PDLYCVRSDLGNLLKALGRL--EEAKAC  157 (388)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC--TTCTHHHHHHHHHHHTTSCH--HHHHHH
T ss_pred             HHHHHHHHHHHHc--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHccCH--HHHHHH
Confidence            9999999999874  34 45689999999999999999999999998864  54 45566666777788866  899999


Q ss_pred             HHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHh
Q 013323          206 IELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKK  285 (445)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  285 (445)
                      ++.+.....................+...+..... ...  ..   ..+.+...|..+-..+...|++++|...++...+
T Consensus       158 ~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~-~~a--l~---~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~  231 (388)
T 1w3b_A          158 YLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHF-EKA--VT---LDPNFLDAYINLGNVLKEARIFDRAVAAYLRALS  231 (388)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHH-HHH--HH---HCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHH-HHH--Hh---cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            98877653211100000000000001111111100 000  00   1134556777788888888889999888887765


Q ss_pred             CCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCC
Q 013323          286 DRKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFL  363 (445)
Q Consensus       286 ~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p  363 (445)
                      .  .| +..++..+...|.+.|++++|.+.|+.+.+..- .+..+|..+..    .+.+.|+ ++|.+.|+++.+.. +.
T Consensus       232 ~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~----~~~~~g~~~~A~~~~~~al~~~-p~  303 (388)
T 1w3b_A          232 L--SPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQP-HFPDAYCNLAN----ALKEKGSVAEAEDCYNTALRLC-PT  303 (388)
T ss_dssp             H--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCS-SCHHHHHHHHH----HHHHHSCHHHHHHHHHHHHHHC-TT
T ss_pred             h--CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHH----HHHHcCCHHHHHHHHHHHHhhC-cc
Confidence            3  45 567888999999999999999999999988632 24667777777    5778888 99999999998764 34


Q ss_pred             CcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccCCCCCCCchhhhh
Q 013323          364 SPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRLVVVS  428 (445)
Q Consensus       364 ~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~l~~~  428 (445)
                      +..++..+...+.  +.|++++|...|+++.+.. +.+..++..+...+.+.|..++|...+...
T Consensus       304 ~~~~~~~l~~~~~--~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  365 (388)
T 1w3b_A          304 HADSLNNLANIKR--EQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEA  365 (388)
T ss_dssp             CHHHHHHHHHHHH--TTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHH--HcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            6678888877776  9999999999999997642 345778888999999999999998866543

>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=1e-21  Score=193.08  Aligned_cols=151  Identities=14%  Similarity=0.124  Sum_probs=129.4

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHH---CCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMML---DGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNY  116 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~---~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  116 (445)
                      -..+||++|++|++.|++++|.++|++|.+   .|+.||..|||+||+++|+.|++++|.++|++|.+.|+.||.+|||+
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            356899999999999999999999988864   58999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHccCCH-HHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCC------HHHHHHHHH
Q 013323          117 LISVCGKCKNS-DQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLD------KFCYAGLIT  189 (445)
Q Consensus       117 ll~~~~~~g~~-~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~------~~~~~~li~  189 (445)
                      ||+++|+.|+. ++|.++|++|.+.|+.||..+|+.++.++.+.    .+++..+++ ..++.|+      ..+...|.+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv-~P~f~p~~~~~~~~~t~~LL~d  280 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKV-KPTFSLPPQLPPPVNTSKLLRD  280 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGG-CCCCCCCCCCCCCCCCCTTTHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHh-CcccCCCCCCcccccchHHHHH
Confidence            99999999984 78999999999999999999999999877764    344444444 3455554      556666777


Q ss_pred             HHHccC
Q 013323          190 AHTNKI  195 (445)
Q Consensus       190 ~~~~~~  195 (445)
                      .+.+.+
T Consensus       281 l~s~d~  286 (1134)
T 3spa_A          281 VYAKDG  286 (1134)
T ss_dssp             HHCCCS
T ss_pred             HHccCC
Confidence            777655

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.85  E-value=2.7e-21  Score=190.24  Aligned_cols=118  Identities=12%  Similarity=0.135  Sum_probs=111.0

Q ss_pred             HHHHHHHHHHHhcCCChhHHHHHHHHHHH---CCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHH
Q 013323           76 RDLFHSLIVGTMKGSRLQDTFFFRDQMKA---NGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCL  152 (445)
Q Consensus        76 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~---~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~l  152 (445)
                      ..||++||++|++.|++++|.++|++|.+   .|+.||++|||+||++||+.|++++|.++|++|.+.|+.||.+|||++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            45899999999999999999999998874   489999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHcCCh-hhHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 013323          153 LNACAAAGQL-DPVYAIVRDMTAAGAGLDKFCYAGLITAHTN  193 (445)
Q Consensus       153 i~~~~~~g~~-~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  193 (445)
                      |.++++.|+. ++|.++|++|.+.|+.||..+|++++.+..+
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR  248 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDR  248 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhH
Confidence            9999999985 7899999999999999999999999876544

>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=99.85  E-value=1.1e-17  Score=159.32  Aligned_cols=312  Identities=9%  Similarity=-0.043  Sum_probs=254.1

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYL  117 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  117 (445)
                      +.++..|..+...+.+.|++++|..+|+.+.+.. +.+..+|..+..++...|++++|...|+.+.+.+ +.+..+|..+
T Consensus        23 p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  100 (450)
T 2y4t_A           23 MADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQR  100 (450)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHH
Confidence            3467788999999999999999999999998753 3478889999999999999999999999999865 3468899999


Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCcc-H---HHHHHHHH------------HHHHcCChhhHHHHHHHHHHcCCCCCH
Q 013323          118 ISVCGKCKNSDQAIRIFEEMKKYEVKPN-G---QTYVCLLN------------ACAAAGQLDPVYAIVRDMTAAGAGLDK  181 (445)
Q Consensus       118 l~~~~~~g~~~~a~~~~~~m~~~g~~p~-~---~~y~~li~------------~~~~~g~~~~a~~~~~~m~~~g~~p~~  181 (445)
                      ..+|.+.|++++|...|+++.+..  |+ .   ..+..+..            .+.+.|++++|...|+++.+.. +.+.
T Consensus       101 ~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~  177 (450)
T 2y4t_A          101 GHLLLKQGKLDEAEDDFKKVLKSN--PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDA  177 (450)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCh
Confidence            999999999999999999998753  43 3   56666544            4889999999999999998864 3478


Q ss_pred             HHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHH
Q 013323          182 FCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYH  261 (445)
Q Consensus       182 ~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~  261 (445)
                      .++..+...+.+.|+.  +.|...++.+....                                        +.+..+|.
T Consensus       178 ~~~~~l~~~~~~~g~~--~~A~~~~~~~~~~~----------------------------------------~~~~~~~~  215 (450)
T 2y4t_A          178 ELRELRAECFIKEGEP--RKAISDLKAASKLK----------------------------------------NDNTEAFY  215 (450)
T ss_dssp             HHHHHHHHHHHHTTCG--GGGHHHHHHHHHHH----------------------------------------CSCHHHHH
T ss_pred             HHHHHHHHHHHHCCCH--HHHHHHHHHHHHhC----------------------------------------CCCHHHHH
Confidence            8899999999999977  88999998876542                                        55677899


Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhCCCCCC-HHHHHHH------------HHHHHhcCChhhHHHHHHHHHhCCCCCC--
Q 013323          262 VAFHACAELKDVQAMETLLEMLKKDRKSPD-VYIVMQN------------IRCYLHSGDIDNGHKVFEDYICSEKFPP--  326 (445)
Q Consensus       262 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~l------------i~~~~~~g~~~~a~~~~~~m~~~~~~p~--  326 (445)
                      .+...+...|++++|...++.+.+.  .|+ ...+..+            ...|.+.|++++|...|+.+.+.  .|+  
T Consensus       216 ~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~  291 (450)
T 2y4t_A          216 KISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIA  291 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcch
Confidence            9999999999999999999998864  453 3444444            78899999999999999999875  344  


Q ss_pred             ---HHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCC-
Q 013323          327 ---AELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPS-  401 (445)
Q Consensus       327 ---~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~-  401 (445)
                         ..+|..+..    .+.+.|. ++|...++++.+.. +.+...+..+..+|.  +.|++++|...|++..+  +.|+ 
T Consensus       292 ~~~~~~~~~l~~----~~~~~g~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~--~~~~~~~A~~~~~~al~--~~p~~  362 (450)
T 2y4t_A          292 EYTVRSKERICH----CFSKDEKPVEAIRVCSEVLQME-PDNVNALKDRAEAYL--IEEMYDEAIQDYETAQE--HNEND  362 (450)
T ss_dssp             HHHHHHHHHHHH----HHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH--HTTCHHHHHHHHHHHHT--TSSSC
T ss_pred             HHHHHHHHHHHH----HHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH--HhcCHHHHHHHHHHHHH--hCcch
Confidence               335555555    5677888 99999999988764 235677888888777  99999999999999986  4455 


Q ss_pred             HHHHHHHH
Q 013323          402 LPAVEAYY  409 (445)
Q Consensus       402 ~~~~~~l~  409 (445)
                      ...+..+-
T Consensus       363 ~~~~~~l~  370 (450)
T 2y4t_A          363 QQIREGLE  370 (450)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444444

>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=99.77  E-value=1.3e-15  Score=144.86  Aligned_cols=328  Identities=8%  Similarity=-0.048  Sum_probs=251.1

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC-H---HH
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD-V---AV  113 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~-~---~~  113 (445)
                      ..+..+|..+..++...|++++|.+.|+.+.+.+ +.+...+..+..++.+.|++++|...|+.+.+..  |+ .   .+
T Consensus        57 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~  133 (450)
T 2y4t_A           57 PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN--PSENEEKEA  133 (450)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC--CCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCChhhHHH
Confidence            4578899999999999999999999999998865 2357789999999999999999999999999864  54 3   56


Q ss_pred             HHHHHHH------------HHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCH
Q 013323          114 YNYLISV------------CGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDK  181 (445)
Q Consensus       114 ~~~ll~~------------~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  181 (445)
                      +..+...            +.+.|++++|..+|+++.+.. +.+..++..+..+|.+.|++++|..+|+++.+.. +.+.
T Consensus       134 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~  211 (450)
T 2y4t_A          134 QSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNT  211 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCH
Confidence            6666444            889999999999999998753 3467889999999999999999999999998753 3468


Q ss_pred             HHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHH
Q 013323          182 FCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYH  261 (445)
Q Consensus       182 ~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~  261 (445)
                      .++..+...+...|+.  +.|...++.+....                                        +.+...+.
T Consensus       212 ~~~~~l~~~~~~~g~~--~~A~~~~~~~~~~~----------------------------------------p~~~~~~~  249 (450)
T 2y4t_A          212 EAFYKISTLYYQLGDH--ELSLSEVRECLKLD----------------------------------------QDHKRCFA  249 (450)
T ss_dssp             HHHHHHHHHHHHTTCH--HHHHHHHHHHHHHC----------------------------------------TTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCH--HHHHHHHHHHHHhC----------------------------------------CChHHHHH
Confidence            8999999999999876  89999998877542                                        22223333


Q ss_pred             H------------HHHHHHhcccHHHHHHHHHHHHhCCCCCC-----HHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCC
Q 013323          262 V------------AFHACAELKDVQAMETLLEMLKKDRKSPD-----VYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKF  324 (445)
Q Consensus       262 ~------------li~~~~~~g~~~~a~~~~~~m~~~~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  324 (445)
                      .            +...+.+.|++++|...++.+.+.  .|+     ...|..+...+.+.|++++|...++.+.+.. +
T Consensus       250 ~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~-p  326 (450)
T 2y4t_A          250 HYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME-P  326 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-c
Confidence            3            378899999999999999998873  354     4578889999999999999999999988752 2


Q ss_pred             CCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcc-hhhHHHHH----------hhcccCC-----ChhhHH
Q 013323          325 PPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPR-MGSDLLLV----------AAGEKSG-----GYTTAN  387 (445)
Q Consensus       325 p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~-~~~~ll~~----------~~~~~~g-----~~~~A~  387 (445)
                      .+...|..+..    .|...|+ ++|...++++.+.  .|+.. .+..+-.+          ..+...|     +.+++.
T Consensus       327 ~~~~~~~~l~~----~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~  400 (450)
T 2y4t_A          327 DNVNALKDRAE----AYLIEEMYDEAIQDYETAQEH--NENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEII  400 (450)
T ss_dssp             TCHHHHHHHHH----HHHHTTCHHHHHHHHHHHHTT--SSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHH
T ss_pred             ccHHHHHHHHH----HHHHhcCHHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHH
Confidence            36778888777    5678888 9999999999884  45543 33333311          0112333     667778


Q ss_pred             HHHHHHH-HC--CCCCCH-------HHHHHHHhhhhccCCCCCC
Q 013323          388 YIWDLMQ-AR--KITPSL-------PAVEAYYNGLKDREVPADD  421 (445)
Q Consensus       388 ~~~~~m~-~~--~~~p~~-------~~~~~l~~~~~~~~~~~~a  421 (445)
                      +.|+++. +.  +..|+.       ..+..+..++...+.++..
T Consensus       401 ~~y~~~~l~~~pd~~~~~~~~~~a~~~~~~i~~ay~~L~d~~~r  444 (450)
T 2y4t_A          401 KAYRKLALQWHPDNFQNEEEKKKAEKKFIDIAAAKEVLSDPEMR  444 (450)
T ss_dssp             HHHHHHHHHSCGGGCCSHHHHHHHHHHHHHHHHHHHHSSGGGGC
T ss_pred             HHHHHHHHHhCCCCCCCchHHHHHHHHHHHHHHHHHHhCCHHHH
Confidence            8887643 21  112332       3666777777766666543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.75  E-value=5.5e-16  Score=149.95  Aligned_cols=334  Identities=8%  Similarity=-0.070  Sum_probs=209.9

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCC----------
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFL----------  108 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~----------  108 (445)
                      |+...|..+..++.+.|++++|.+.|+...+.+ +.+..+|..+..++.+.|++++|...|+.+.+.+-.          
T Consensus        37 p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  115 (514)
T 2gw1_A           37 EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKFADAMFDLSVLSLNGDFNDASIEPMLE  115 (514)
T ss_dssp             CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHH
T ss_pred             ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCccchHHHHHH
Confidence            788888888888888888888888888887754 235567888888888888888888888887665410          


Q ss_pred             -------------------------------------------------------------------C-CHHHHHHHHHH
Q 013323          109 -------------------------------------------------------------------P-DVAVYNYLISV  120 (445)
Q Consensus       109 -------------------------------------------------------------------p-~~~~~~~ll~~  120 (445)
                                                                                         | +...+..+...
T Consensus       116 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  195 (514)
T 2gw1_A          116 RNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGLS  195 (514)
T ss_dssp             HHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHH
Confidence                                                                               0 02222222233


Q ss_pred             HH---ccCCHHHHHHHHHHHHh-----CCC--------CccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHH
Q 013323          121 CG---KCKNSDQAIRIFEEMKK-----YEV--------KPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCY  184 (445)
Q Consensus       121 ~~---~~g~~~~a~~~~~~m~~-----~g~--------~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  184 (445)
                      +.   +.|++++|..+|+++.+     ..-        +.+..+|..+...+...|++++|...|+++.+..  |+...+
T Consensus       196 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~  273 (514)
T 2gw1_A          196 NLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSY  273 (514)
T ss_dssp             HHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHH
T ss_pred             HHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHH
Confidence            33   27888888888888776     211        2235667777888888888888888888887764  336777


Q ss_pred             HHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHH
Q 013323          185 AGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAF  264 (445)
Q Consensus       185 ~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li  264 (445)
                      ..+...+...|+.  +.+...++......                                        +.+...|..+.
T Consensus       274 ~~l~~~~~~~~~~--~~A~~~~~~~~~~~----------------------------------------~~~~~~~~~l~  311 (514)
T 2gw1_A          274 IYMALIMADRNDS--TEYYNYFDKALKLD----------------------------------------SNNSSVYYHRG  311 (514)
T ss_dssp             HHHHHHHHTSSCC--TTGGGHHHHHHTTC----------------------------------------TTCTHHHHHHH
T ss_pred             HHHHHHHHHCCCH--HHHHHHHHHHhhcC----------------------------------------cCCHHHHHHHH
Confidence            7777777777766  67777777665432                                        33445566666


Q ss_pred             HHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChh
Q 013323          265 HACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPK  344 (445)
Q Consensus       265 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~  344 (445)
                      ..+...|++++|...++...+.. +.+...+..+...|...|++++|.++|+.+.+.. +.+...+..+..    .+...
T Consensus       312 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~----~~~~~  385 (514)
T 2gw1_A          312 QMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAE----ILTDK  385 (514)
T ss_dssp             HHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHH----HHHHT
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHH----HHHHC
Confidence            66666777777777776665532 1244566666666667777777777777666542 113344444444    34555


Q ss_pred             hH-HHHHHHHHHHHhCCCC-CC----cchhhHHHHHhhccc---CCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhcc
Q 013323          345 GM-QLAQDTLVNMNSRNIF-LS----PRMGSDLLLVAAGEK---SGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDR  415 (445)
Q Consensus       345 g~-~~a~~~~~~m~~~~~~-p~----~~~~~~ll~~~~~~~---~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~  415 (445)
                      |. ++|...++++.+.... ++    ...+..+...+.  +   .|++++|...|++..+.. +.+..++..+...+.+.
T Consensus       386 ~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~  462 (514)
T 2gw1_A          386 NDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLT--RNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQ  462 (514)
T ss_dssp             TCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHH--TSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHh--hhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHh
Confidence            65 6666666666543211 11    114444444444  5   677777777776666432 22345555566666666


Q ss_pred             CCCCCCCchhh
Q 013323          416 EVPADDPRLVV  426 (445)
Q Consensus       416 ~~~~~a~~~l~  426 (445)
                      |..++|...+.
T Consensus       463 g~~~~A~~~~~  473 (514)
T 2gw1_A          463 EDIDEAITLFE  473 (514)
T ss_dssp             TCHHHHHHHHH
T ss_pred             cCHHHHHHHHH
Confidence            66666665433

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.74  E-value=8.1e-16  Score=148.78  Aligned_cols=333  Identities=8%  Similarity=-0.081  Sum_probs=256.8

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISV  120 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  120 (445)
                      ...|-..-..+.+.|++++|...|+++.+..  ||..+|..+..++.+.|++++|...++.+.+.+ +.+..+|..+..+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHH
Confidence            3456667788899999999999999999865  899999999999999999999999999999865 3467899999999


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCc--------------------------------------------------------
Q 013323          121 CGKCKNSDQAIRIFEEMKKYEVKP--------------------------------------------------------  144 (445)
Q Consensus       121 ~~~~g~~~~a~~~~~~m~~~g~~p--------------------------------------------------------  144 (445)
                      +.+.|++++|...|+++...+-..                                                        
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVT  162 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHH
T ss_pred             HHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhH
Confidence            999999999999999987654210                                                        


Q ss_pred             ----------------------cHHHHHHHHHHHHH---cCChhhHHHHHHHHHH-----cCCC--------CCHHHHHH
Q 013323          145 ----------------------NGQTYVCLLNACAA---AGQLDPVYAIVRDMTA-----AGAG--------LDKFCYAG  186 (445)
Q Consensus       145 ----------------------~~~~y~~li~~~~~---~g~~~~a~~~~~~m~~-----~g~~--------p~~~~~~~  186 (445)
                                            +...+......+..   .|++++|..+|+++.+     ..-.        .+..++..
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (514)
T 2gw1_A          163 SMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEH  242 (514)
T ss_dssp             HHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHH
Confidence                                  12223333333333   7889999999999887     3111        23456666


Q ss_pred             HHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHH
Q 013323          187 LITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHA  266 (445)
Q Consensus       187 li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~  266 (445)
                      +...+...|+.  +.|...++.....                                         .|+...+..+...
T Consensus       243 ~~~~~~~~~~~--~~A~~~~~~~l~~-----------------------------------------~~~~~~~~~l~~~  279 (514)
T 2gw1_A          243 TGIFKFLKNDP--LGAHEDIKKAIEL-----------------------------------------FPRVNSYIYMALI  279 (514)
T ss_dssp             HHHHHHHSSCH--HHHHHHHHHHHHH-----------------------------------------CCCHHHHHHHHHH
T ss_pred             HHHHHHHCCCH--HHHHHHHHHHHhh-----------------------------------------CccHHHHHHHHHH
Confidence            77777888865  8888888877654                                         2236778889999


Q ss_pred             HHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH
Q 013323          267 CAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM  346 (445)
Q Consensus       267 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~  346 (445)
                      +...|++++|...++...+.. +.+..++..+...|...|++++|...|+......-. +...+..+..    .+...|.
T Consensus       280 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~----~~~~~~~  353 (514)
T 2gw1_A          280 MADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPE-NIFPYIQLAC----LAYRENK  353 (514)
T ss_dssp             HHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSS-CSHHHHHHHH----HTTTTTC
T ss_pred             HHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChh-hHHHHHHHHH----HHHHcCC
Confidence            999999999999999988653 336678888999999999999999999999886322 4556666666    5788888


Q ss_pred             -HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCC-CCC----HHHHHHHHhhhhc---cCC
Q 013323          347 -QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKI-TPS----LPAVEAYYNGLKD---REV  417 (445)
Q Consensus       347 -~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~-~p~----~~~~~~l~~~~~~---~~~  417 (445)
                       ++|...++++.+.. +.+...+..+...+.  +.|++++|...|+++.+..- .|+    ...+..+...+.+   .|.
T Consensus       354 ~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~--~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  430 (514)
T 2gw1_A          354 FDDCETLFSEAKRKF-PEAPEVPNFFAEILT--DKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVEN  430 (514)
T ss_dssp             HHHHHHHHHHHHHHS-TTCSHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTH
T ss_pred             HHHHHHHHHHHHHHc-ccCHHHHHHHHHHHH--HCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCC
Confidence             99999999998764 234566666666666  99999999999999875321 122    3377778888888   888


Q ss_pred             CCCCCchhhhh
Q 013323          418 PADDPRLVVVS  428 (445)
Q Consensus       418 ~~~a~~~l~~~  428 (445)
                      .++|...+...
T Consensus       431 ~~~A~~~~~~a  441 (514)
T 2gw1_A          431 FIEATNLLEKA  441 (514)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            88887755443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.72  E-value=5.6e-14  Score=128.91  Aligned_cols=317  Identities=9%  Similarity=-0.056  Sum_probs=243.9

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLIS  119 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  119 (445)
                      |+..|..+-..+...|++++|.+.|+...+.. +.+..++..+...+...|++++|...|+.+.+.. +.+...|..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            45677788889999999999999999998753 2467788889999999999999999999998764 236789999999


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCc----cHHHHHHH------------HHHHHHcCChhhHHHHHHHHHHcCCCCCHHH
Q 013323          120 VCGKCKNSDQAIRIFEEMKKYEVKP----NGQTYVCL------------LNACAAAGQLDPVYAIVRDMTAAGAGLDKFC  183 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~~g~~p----~~~~y~~l------------i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  183 (445)
                      .+.+.|++++|...|++..+.  .|    +...+..+            ...+...|++++|..+++++.+.. +.+...
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  156 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAEL  156 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHH
Confidence            999999999999999999875  34    44445444            578899999999999999998864 346788


Q ss_pred             HHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHH
Q 013323          184 YAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVA  263 (445)
Q Consensus       184 ~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~l  263 (445)
                      +..+...+...|+.  +.|...++......                                        +.+..++..+
T Consensus       157 ~~~~~~~~~~~~~~--~~A~~~~~~~~~~~----------------------------------------~~~~~~~~~l  194 (359)
T 3ieg_A          157 RELRAECFIKEGEP--RKAISDLKAASKLK----------------------------------------SDNTEAFYKI  194 (359)
T ss_dssp             HHHHHHHHHHTTCH--HHHHHHHHHHHTTC----------------------------------------SCCHHHHHHH
T ss_pred             HHHHHHHHHHCCCH--HHHHHHHHHHHHhC----------------------------------------CCCHHHHHHH
Confidence            88888889988876  88999888876542                                        5566788899


Q ss_pred             HHHHHhcccHHHHHHHHHHHHhCCCCCC-HHHHH------------HHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHH
Q 013323          264 FHACAELKDVQAMETLLEMLKKDRKSPD-VYIVM------------QNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELY  330 (445)
Q Consensus       264 i~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~------------~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~  330 (445)
                      ...+...|++++|...++...+.  .|+ ...+.            .+...+.+.|++++|...|+...+..-. +...+
T Consensus       195 a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~  271 (359)
T 3ieg_A          195 STLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYT  271 (359)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhh--CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHH
Confidence            99999999999999999988764  233 33232            2356688999999999999998886322 23222


Q ss_pred             HHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCC-HHHHHHH
Q 013323          331 ATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKITPS-LPAVEAY  408 (445)
Q Consensus       331 ~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l  408 (445)
                      ..+...+...+...|. +.|.+.+++..+.. +.++..+..+...+.  +.|++++|...|++..+.  .|+ ...+..+
T Consensus       272 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~--~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l  346 (359)
T 3ieg_A          272 VRSKERICHCFSKDEKPVEAIRICSEVLQME-PDNVNALKDRAEAYL--IEEMYDEAIQDYEAAQEH--NENDQQIREGL  346 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTT--CTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH--HcCCHHHHHHHHHHHHhc--CCCChHHHHHH
Confidence            2221111125677888 99999999998864 225566666666666  999999999999999864  455 4444444


Q ss_pred             Hhh
Q 013323          409 YNG  411 (445)
Q Consensus       409 ~~~  411 (445)
                      .++
T Consensus       347 ~~~  349 (359)
T 3ieg_A          347 EKA  349 (359)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            444

>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=99.66  E-value=6.8e-14  Score=126.87  Aligned_cols=168  Identities=8%  Similarity=-0.008  Sum_probs=112.3

Q ss_pred             CCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHH
Q 013323           36 NYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYN  115 (445)
Q Consensus        36 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~  115 (445)
                      ....+...+..+...+...|++++|.++|+++.+.. +.+...+..+...+...|++++|..+++++.+.. +.+..+|.
T Consensus        17 ~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~   94 (330)
T 3hym_B           17 GLQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWF   94 (330)
T ss_dssp             ---CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHH
T ss_pred             hchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHH
Confidence            345667777778888888888888888888887653 2244456666677778888888888888887753 23567777


Q ss_pred             HHHHHHHccC-CHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 013323          116 YLISVCGKCK-NSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNK  194 (445)
Q Consensus       116 ~ll~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  194 (445)
                      .+...+...| ++++|...|++..... +.+...|..+...+...|++++|...|++..+..- .+...+..+...+...
T Consensus        95 ~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~  172 (330)
T 3hym_B           95 AVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMK-GCHLPMLYIGLEYGLT  172 (330)
T ss_dssp             HHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTT-TCSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHH
Confidence            8888888888 8888888888887653 23466788888888888888888888887776531 1223333344444444


Q ss_pred             CCCchHHHHHHHHHH
Q 013323          195 IPRADDTATKIIELV  209 (445)
Q Consensus       195 ~~~~~~~a~~~~~~~  209 (445)
                      |+.  +.|...++..
T Consensus       173 ~~~--~~A~~~~~~a  185 (330)
T 3hym_B          173 NNS--KLAERFFSQA  185 (330)
T ss_dssp             TCH--HHHHHHHHHH
T ss_pred             hhH--HHHHHHHHHH
Confidence            433  4444444443

>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=99.66  E-value=5.3e-14  Score=127.63  Aligned_cols=286  Identities=9%  Similarity=-0.041  Sum_probs=226.6

Q ss_pred             CCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHH
Q 013323           72 VQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVC  151 (445)
Q Consensus        72 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~  151 (445)
                      .+.+...+..+...+...|++++|.++|+++.+.. +.+..++..+..++.+.|++++|..+++++.+.. +.+...|..
T Consensus        18 ~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~   95 (330)
T 3hym_B           18 LQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFA   95 (330)
T ss_dssp             --CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHH
T ss_pred             chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHH
Confidence            34455667778888888999999999999998764 2455677778899999999999999999998753 235778999


Q ss_pred             HHHHHHHcC-ChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhc
Q 013323          152 LLNACAAAG-QLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMM  230 (445)
Q Consensus       152 li~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  230 (445)
                      +...+...| ++++|...|++..+.. +.+...+..+...+...|+.  +.|...++......                 
T Consensus        96 l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~--~~A~~~~~~a~~~~-----------------  155 (330)
T 3hym_B           96 VGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEH--DQAMAAYFTAAQLM-----------------  155 (330)
T ss_dssp             HHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCH--HHHHHHHHHHHHHT-----------------
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCH--HHHHHHHHHHHHhc-----------------
Confidence            999999999 9999999999998764 23567788888889888876  88999988877642                 


Q ss_pred             ccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhh
Q 013323          231 GVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDN  310 (445)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  310 (445)
                                             +.+...+..+...+...|++++|...++...+.. +.+..++..+...|...|++++
T Consensus       156 -----------------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~  211 (330)
T 3hym_B          156 -----------------------KGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKT  211 (330)
T ss_dssp             -----------------------TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             -----------------------cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHH
Confidence                                   3345567778889999999999999999988753 3367789999999999999999


Q ss_pred             HHHHHHHHHhCC--------CCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCC
Q 013323          311 GHKVFEDYICSE--------KFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSG  381 (445)
Q Consensus       311 a~~~~~~m~~~~--------~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g  381 (445)
                      |...|+...+..        .......+..+-.    .|...|. ++|...+++..+.. +.+...+..+...+.  +.|
T Consensus       212 A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~----~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~--~~g  284 (330)
T 3hym_B          212 AEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGH----VCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHS--LMG  284 (330)
T ss_dssp             HHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHH----HHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHH--HHT
T ss_pred             HHHHHHHHHHHhhhccccccccHHHHHHHHHHH----HHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHH--Hhc
Confidence            999999987641        1233567777766    5678888 99999999998765 235566777777676  999


Q ss_pred             ChhhHHHHHHHHHHCCCCC-CHHHHHHHHhhh
Q 013323          382 GYTTANYIWDLMQARKITP-SLPAVEAYYNGL  412 (445)
Q Consensus       382 ~~~~A~~~~~~m~~~~~~p-~~~~~~~l~~~~  412 (445)
                      ++++|...|++..+.  .| +...+..+..++
T Consensus       285 ~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~  314 (330)
T 3hym_B          285 NFENAVDYFHTALGL--RRDDTFSVTMLGHCI  314 (330)
T ss_dssp             CHHHHHHHHHTTTTT--CSCCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHcc--CCCchHHHHHHHHHH
Confidence            999999999988753  35 566666666666

>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=99.64  E-value=7.7e-14  Score=135.69  Aligned_cols=225  Identities=11%  Similarity=-0.019  Sum_probs=128.7

Q ss_pred             HHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccch
Q 013323          148 TYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAEN  227 (445)
Q Consensus       148 ~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  227 (445)
                      +|..+-..+...|++++|...|++..+.  .|+...+..+-..+...|+.  +.|...++......              
T Consensus       245 ~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~--~~A~~~~~~~~~~~--------------  306 (537)
T 3fp2_A          245 ALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENS--QEFFKFFQKAVDLN--------------  306 (537)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCC--HHHHHHHHHHHHHC--------------
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCH--HHHHHHHHHHhccC--------------
Confidence            3444555566666667777776666664  24455555566666666655  66666666554432              


Q ss_pred             hhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 013323          228 EMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGD  307 (445)
Q Consensus       228 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  307 (445)
                                                +.+..+|..+...+...|++++|...++...+.. +.+...+..+...|...|+
T Consensus       307 --------------------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~  359 (537)
T 3fp2_A          307 --------------------------PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGK  359 (537)
T ss_dssp             --------------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTC
T ss_pred             --------------------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence                                      3345566667777777777777777777666532 1234566667777777777


Q ss_pred             hhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhh------HHHHHhhcccC
Q 013323          308 IDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGS------DLLLVAAGEKS  380 (445)
Q Consensus       308 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~------~ll~~~~~~~~  380 (445)
                      +++|.+.|+...+.. +.+...+..+-.    .+...|. +.|.+.++++.+.... +...+.      .....+.  +.
T Consensus       360 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~----~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~~~~~~~~a~~~~--~~  431 (537)
T 3fp2_A          360 FTESEAFFNETKLKF-PTLPEVPTFFAE----ILTDRGDFDTAIKQYDIAKRLEEV-QEKIHVGIGPLIGKATILA--RQ  431 (537)
T ss_dssp             HHHHHHHHHHHHHHC-TTCTHHHHHHHH----HHHHTTCHHHHHHHHHHHHHHHHH-CSSCSSTTHHHHHHHHHHH--HH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHH----HHHHhCCHHHHHHHHHHHHHcCCc-chhhHHHHHHHHHHHHHHH--HH
Confidence            777777777766552 123445555544    3455666 7777777766544311 111111      1112222  44


Q ss_pred             ----------CChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccCCCCCCCchhh
Q 013323          381 ----------GGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRLVV  426 (445)
Q Consensus       381 ----------g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~l~  426 (445)
                                |++++|...|++..+.. +.+...+..+...+.+.|..++|...+.
T Consensus       432 ~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~  486 (537)
T 3fp2_A          432 SSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQMEKIDEAIELFE  486 (537)
T ss_dssp             HTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHH
Confidence                      77777777777766432 2234556666666667776666665433

>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=99.62  E-value=2.9e-15  Score=137.06  Aligned_cols=272  Identities=12%  Similarity=0.097  Sum_probs=123.6

Q ss_pred             HHHhcCCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC
Q 013323           31 EYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD  110 (445)
Q Consensus        31 ~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~  110 (445)
                      +.+++.  ++..+|..+..++.+.|++++|.+.|.+.      +|..+|..++.++...|++++|...++..++.  .++
T Consensus        24 ~fae~~--~~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~   93 (449)
T 1b89_A           24 EFAERC--NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARE   93 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHhC--CChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--Ccc
Confidence            344444  44569999999999999999999999653      68889999999999999999999988877764  467


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 013323          111 VAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITA  190 (445)
Q Consensus       111 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  190 (445)
                      +.+.+.|+.+|.+.|+++++.++++       .|+..+|..+...|...|.+++|...|..+         ..|..+..+
T Consensus        94 ~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~  157 (449)
T 1b89_A           94 SYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLAST  157 (449)
T ss_dssp             ---------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHH
T ss_pred             chhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHH
Confidence            8899999999999999999998885       378889999999999999999999999977         479999999


Q ss_pred             HHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhc
Q 013323          191 HTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAEL  270 (445)
Q Consensus       191 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~  270 (445)
                      +.+.|+.  +.|.+.+...                                             .++.+|..++.+|...
T Consensus       158 L~~Lg~y--q~AVea~~KA---------------------------------------------~~~~~Wk~v~~aCv~~  190 (449)
T 1b89_A          158 LVHLGEY--QAAVDGARKA---------------------------------------------NSTRTWKEVCFACVDG  190 (449)
T ss_dssp             HHTTTCH--HHHHHHHHHH---------------------------------------------TCHHHHHHHHHHHHHT
T ss_pred             HHHhccH--HHHHHHHHHc---------------------------------------------CCchhHHHHHHHHHHc
Confidence            9999976  7787777754                                             2557899999999999


Q ss_pred             ccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChh--hH-H
Q 013323          271 KDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPK--GM-Q  347 (445)
Q Consensus       271 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~--g~-~  347 (445)
                      |+++.|......     +..+..-...++..|.+.|++++|..+++...... +--...|+-|--    .|++-  +. .
T Consensus       191 ~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~i----l~~ky~p~k~~  260 (449)
T 1b89_A          191 KEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAI----LYSKFKPQKMR  260 (449)
T ss_dssp             TCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHH----HHHTTCHHHHH
T ss_pred             CcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHH----HHHhcCHHHHH
Confidence            999999654443     22333335579999999999999999999887653 223445554433    23333  33 4


Q ss_pred             HHHHHHHHHHhCCCCC------CcchhhHHHHHhhcccCCChhhHHHH
Q 013323          348 LAQDTLVNMNSRNIFL------SPRMGSDLLLVAAGEKSGGYTTANYI  389 (445)
Q Consensus       348 ~a~~~~~~m~~~~~~p------~~~~~~~ll~~~~~~~~g~~~~A~~~  389 (445)
                      +.++.|.  .+-+++|      +...|.-+...|.  +.++++.|..+
T Consensus       261 ehl~~~~--~~ini~k~~~~~~~~~~w~e~~~ly~--~~~e~d~A~~t  304 (449)
T 1b89_A          261 EHLELFW--SRVNIPKVLRAAEQAHLWAELVFLYD--KYEEYDNAIIT  304 (449)
T ss_dssp             HHHHHHS--TTSCHHHHHHHHHTTTCHHHHHHHHH--HTTCHHHHHHH
T ss_pred             HHHHHHH--HHhcCcHHHHHHHHHHHHHHHHHHHH--hhchHHHHHHH
Confidence            5555443  2223333      4567777777666  99999998765

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.61  E-value=8.1e-13  Score=121.13  Aligned_cols=301  Identities=9%  Similarity=-0.016  Sum_probs=230.9

Q ss_pred             CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHH
Q 013323           75 TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLN  154 (445)
Q Consensus        75 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~  154 (445)
                      |...+..+-..+.+.|++++|...|+.+.+.. +.+..+|..+...+...|++++|...|++..+.. +-+...|..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            34567777888999999999999999998864 3468899999999999999999999999998753 235788999999


Q ss_pred             HHHHcCChhhHHHHHHHHHHcCCCC----CHHHHHHH------------HHHHHccCCCchHHHHHHHHHHHHhcCCccc
Q 013323          155 ACAAAGQLDPVYAIVRDMTAAGAGL----DKFCYAGL------------ITAHTNKIPRADDTATKIIELVEQSKGWSSV  218 (445)
Q Consensus       155 ~~~~~g~~~~a~~~~~~m~~~g~~p----~~~~~~~l------------i~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  218 (445)
                      .+...|++++|...|++..+..  |    +...+..+            ...+...|+.  +.|...++......     
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~A~~~~~~~~~~~-----  150 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSN--PSEQEEKEAESQLVKADEMQRLRSQALDAFDGADY--TAAITFLDKILEVC-----  150 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHC-----
T ss_pred             HHHHcCChHHHHHHHHHHHhcC--CcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCH--HHHHHHHHHHHHhC-----
Confidence            9999999999999999998753  4    33333333            3566677765  88888888876542     


Q ss_pred             cccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 013323          219 ETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQN  298 (445)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  298 (445)
                                                         +.+...+..+...+...|++++|...++...+.. +.+..++..+
T Consensus       151 -----------------------------------~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l  194 (359)
T 3ieg_A          151 -----------------------------------VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKI  194 (359)
T ss_dssp             -----------------------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHH
T ss_pred             -----------------------------------CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence                                               4566788889999999999999999999988753 3467789999


Q ss_pred             HHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHH--------hHhhcCChhhH-HHHHHHHHHHHhCCCCCCcch--
Q 013323          299 IRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVE--------GAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRM--  367 (445)
Q Consensus       299 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~--------~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~--  367 (445)
                      ...|...|++++|.+.|+...+..- .+...+..+..        .....+.+.|. ++|...+++..+..  |+...  
T Consensus       195 a~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~  271 (359)
T 3ieg_A          195 STLYYQLGDHELSLSEVRECLKLDQ-DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSVAEYT  271 (359)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCc-cchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHH
Confidence            9999999999999999999887522 12333322211        00113667787 99999999998765  44322  


Q ss_pred             ---hhHHHHHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccCCCCCCCchhhhh
Q 013323          368 ---GSDLLLVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVPADDPRLVVVS  428 (445)
Q Consensus       368 ---~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~l~~~  428 (445)
                         +..+...+.  +.|++++|...+++..+.. +.+..++..+...+.+.|..++|...+...
T Consensus       272 ~~~~~~la~~~~--~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a  332 (359)
T 3ieg_A          272 VRSKERICHCFS--KDEKPVEAIRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAA  332 (359)
T ss_dssp             HHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH--HccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence               222334444  9999999999999998752 336778888889999999999888765544

>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=99.61  E-value=4e-14  Score=130.72  Aligned_cols=300  Identities=10%  Similarity=-0.048  Sum_probs=162.9

Q ss_pred             HhcCcHhHHHH-HHHHHHHCCC-CC--CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 013323           52 TSQRRFFLLRD-VYDDMMLDGV-QP--TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNS  127 (445)
Q Consensus        52 ~~~~~~~~a~~-~~~~m~~~g~-~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  127 (445)
                      ...|+++.|.+ .|++.....- .|  +...+..+-..+.+.|++++|...|+.+.+.. +.+..+|..+..++.+.|++
T Consensus        36 ~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           36 PWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             ----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCH
Confidence            34567777777 6664433210 11  34457777788888999999999999988865 34677888888999999999


Q ss_pred             HHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCCCchHHHHHHH
Q 013323          128 DQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKF-CYAGLITAHTNKIPRADDTATKII  206 (445)
Q Consensus       128 ~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~~~~~~~~a~~~~  206 (445)
                      ++|...|++..+.. +.+..+|..+...+...|++++|...|+++.+..  |+.. .+..+-..   .+..         
T Consensus       115 ~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~---~~~~---------  179 (368)
T 1fch_A          115 LLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYT--PAYAHLVTPAEEG---AGGA---------  179 (368)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTTGGGCC---------------------
T ss_pred             HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHH---hhhh---------
Confidence            99999999887754 2367788888899999999999999999888753  2211 11100000   0000         


Q ss_pred             HHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhC
Q 013323          207 ELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKD  286 (445)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  286 (445)
                                                                     .+.. .+. .+..+...|++++|...++.+.+.
T Consensus       180 -----------------------------------------------~~~~-~~~-~~~~~~~~~~~~~A~~~~~~a~~~  210 (368)
T 1fch_A          180 -----------------------------------------------GLGP-SKR-ILGSLLSDSLFLEVKELFLAAVRL  210 (368)
T ss_dssp             ------------------------------------------------------C-TTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -----------------------------------------------cccH-HHH-HHHHHhhcccHHHHHHHHHHHHHh
Confidence                                                           0000 011 111122455566666666555543


Q ss_pred             CCC-CCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCC
Q 013323          287 RKS-PDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLS  364 (445)
Q Consensus       287 ~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~  364 (445)
                      ... ++..++..+...|...|++++|...|+...... +.+...|..+..    .+...|. ++|...++++.+.. +.+
T Consensus       211 ~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~----~~~~~g~~~~A~~~~~~al~~~-~~~  284 (368)
T 1fch_A          211 DPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGA----TLANGNQSEEAVAAYRRALELQ-PGY  284 (368)
T ss_dssp             STTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH----HHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             CcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHH----HHHHcCCHHHHHHHHHHHHHhC-CCc
Confidence            211 134555555566666666666666666555431 113444444444    3444555 56666666555433 123


Q ss_pred             cchhhHHHHHhhcccCCChhhHHHHHHHHHHCCC---CC-------CHHHHHHHHhhhhccCCCCCCCch
Q 013323          365 PRMGSDLLLVAAGEKSGGYTTANYIWDLMQARKI---TP-------SLPAVEAYYNGLKDREVPADDPRL  424 (445)
Q Consensus       365 ~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~~---~p-------~~~~~~~l~~~~~~~~~~~~a~~~  424 (445)
                      ...+..+...+.  +.|++++|...|++..+..-   .|       ...+|..+...+...|..++|..+
T Consensus       285 ~~~~~~l~~~~~--~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  352 (368)
T 1fch_A          285 IRSRYNLGISCI--NLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAA  352 (368)
T ss_dssp             HHHHHHHHHHHH--HHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HHHHHHHHHHHH--HCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHh
Confidence            344444444444  56666666666655553110   00       145555555666666655555543

>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=99.60  E-value=2.9e-13  Score=124.86  Aligned_cols=235  Identities=7%  Similarity=-0.066  Sum_probs=165.6

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLIS  119 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  119 (445)
                      +...|..+-..+.+.|++++|...|+++.+.. +.+..+|..+...+.+.|++++|...|+.+.+.. +.+..++..+..
T Consensus        63 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~  140 (368)
T 1fch_A           63 DHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAV  140 (368)
T ss_dssp             TCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            45678889999999999999999999999864 3467789999999999999999999999998865 347889999999


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCccHHHHHH---------------HHHHHHHcCChhhHHHHHHHHHHcCCC-CCHHH
Q 013323          120 VCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVC---------------LLNACAAAGQLDPVYAIVRDMTAAGAG-LDKFC  183 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~---------------li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~  183 (445)
                      .+...|++++|...|+++...... +...+..               .+..+...|++++|...|+++.+.... ++..+
T Consensus       141 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~  219 (368)
T 1fch_A          141 SFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDV  219 (368)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHH
Confidence            999999999999999999876422 2222221               233444777888888888877764311 13566


Q ss_pred             HHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHH
Q 013323          184 YAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVA  263 (445)
Q Consensus       184 ~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~l  263 (445)
                      +..+...+...|+.  +.|...++......                                        +.+..+|..+
T Consensus       220 ~~~l~~~~~~~g~~--~~A~~~~~~al~~~----------------------------------------~~~~~~~~~l  257 (368)
T 1fch_A          220 QCGLGVLFNLSGEY--DKAVDCFTAALSVR----------------------------------------PNDYLLWNKL  257 (368)
T ss_dssp             HHHHHHHHHHTTCH--HHHHHHHHHHHHHC----------------------------------------TTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCH--HHHHHHHHHHHHhC----------------------------------------cCCHHHHHHH
Confidence            66666666666654  66666666544331                                        3344556666


Q ss_pred             HHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 013323          264 FHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYIC  320 (445)
Q Consensus       264 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  320 (445)
                      ...+...|++++|...++...+.. +.+..++..+...|.+.|++++|...|+...+
T Consensus       258 ~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  313 (368)
T 1fch_A          258 GATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALN  313 (368)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            666666666666666666655431 22445566666666666666666666666554

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.60  E-value=2.2e-13  Score=125.66  Aligned_cols=234  Identities=7%  Similarity=-0.041  Sum_probs=177.6

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLIS  119 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  119 (445)
                      +...|..+...+.+.|++++|.+.|+.+.+.. +.+..+|..+...+.+.|++++|...|++..+.. +.+..+|..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            45568888899999999999999999998754 3467788999999999999999999999988764 345888999999


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCcc-----------HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCC-CCHHHHHHH
Q 013323          120 VCGKCKNSDQAIRIFEEMKKYEVKPN-----------GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAG-LDKFCYAGL  187 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~~g~~p~-----------~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~l  187 (445)
                      +|.+.|++++|...|+++.+..  |+           ...+..+...+.+.|++++|..+|+++.+..-. ++..++..+
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l  219 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGL  219 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHH
Confidence            9999999999999999987642  32           223344577888889999999999998876422 257788888


Q ss_pred             HHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHH
Q 013323          188 ITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHAC  267 (445)
Q Consensus       188 i~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~  267 (445)
                      ...+...|+.  +.|...++......                                        +.+..+|..+...+
T Consensus       220 ~~~~~~~g~~--~~A~~~~~~al~~~----------------------------------------p~~~~~~~~l~~~~  257 (365)
T 4eqf_A          220 GVLFHLSGEF--NRAIDAFNAALTVR----------------------------------------PEDYSLWNRLGATL  257 (365)
T ss_dssp             HHHHHHHTCH--HHHHHHHHHHHHHC----------------------------------------TTCHHHHHHHHHHH
T ss_pred             HHHHHHCCCH--HHHHHHHHHHHHhC----------------------------------------CCCHHHHHHHHHHH
Confidence            8888888866  78888887766542                                        44566788888888


Q ss_pred             HhcccHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          268 AELKDVQAMETLLEMLKKDRKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       268 ~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      ...|++++|...++...+.  .| +..++..+...|.+.|++++|...|+...+.
T Consensus       258 ~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  310 (365)
T 4eqf_A          258 ANGDRSEEAVEAYTRALEI--QPGFIRSRYNLGISCINLGAYREAVSNFLTALSL  310 (365)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            8888888888888887764  34 4667888888888888888888888887654

>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=99.59  E-value=2.5e-12  Score=124.94  Aligned_cols=306  Identities=9%  Similarity=-0.048  Sum_probs=231.9

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHC------------
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN------------  105 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------------  105 (445)
                      +.++.+|..+..++.+.|++++|.+.|++..+.+ +.+..++..+..++...|++++|...|+.+...            
T Consensus        56 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  134 (537)
T 3fp2_A           56 PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFTDAMFDLSVLSLNGDFDGASIEPML  134 (537)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHC-----------CHH
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCCCCChHHHHHHH
Confidence            3467888888888899999999999999887754 235667777778888888888887766432100            


Q ss_pred             --------------------------------------------------------------------------------
Q 013323          106 --------------------------------------------------------------------------------  105 (445)
Q Consensus       106 --------------------------------------------------------------------------------  105 (445)
                                                                                                      
T Consensus       135 ~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a  214 (537)
T 3fp2_A          135 ERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVA  214 (537)
T ss_dssp             HHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHH
Confidence                                                                                            


Q ss_pred             ---------------CCCCC--------HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCCh
Q 013323          106 ---------------GFLPD--------VAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQL  162 (445)
Q Consensus       106 ---------------g~~p~--------~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~  162 (445)
                                     ...|+        ..+|..+-..+...|++++|...|++....  .|+..+|..+...+...|++
T Consensus       215 ~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~  292 (537)
T 3fp2_A          215 NDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENS  292 (537)
T ss_dssp             HHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCC
T ss_pred             HHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCH
Confidence                           01122        224555667778889999999999999875  46688899999999999999


Q ss_pred             hhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhh
Q 013323          163 DPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPT  242 (445)
Q Consensus       163 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (445)
                      ++|...|++..+.. +.+..++..+...+...|+.  +.|...++......                             
T Consensus       293 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~--~~A~~~~~~a~~~~-----------------------------  340 (537)
T 3fp2_A          293 QEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDY--KNAKEDFQKAQSLN-----------------------------  340 (537)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHC-----------------------------
T ss_pred             HHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCH--HHHHHHHHHHHHhC-----------------------------
Confidence            99999999998864 33678888888889888876  88999998877642                             


Q ss_pred             hhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCC
Q 013323          243 AEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSE  322 (445)
Q Consensus       243 ~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  322 (445)
                                 +.+...|..+...+...|++++|...++...+.. +.+...+..+...|...|++++|.+.|+...+..
T Consensus       341 -----------~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  408 (537)
T 3fp2_A          341 -----------PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLE  408 (537)
T ss_dssp             -----------TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             -----------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC
Confidence                       3455678889999999999999999999988753 3356788889999999999999999999987642


Q ss_pred             -----CCCCHHHHHHHHHhHhhcCChh----------hH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhH
Q 013323          323 -----KFPPAELYATLVEGAMFGYTPK----------GM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTA  386 (445)
Q Consensus       323 -----~~p~~~~~~~li~~~~~~~~~~----------g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A  386 (445)
                           .......+..+-.    .+...          |+ ++|...|++..+.. +.+...+..+...+.  +.|++++|
T Consensus       409 ~~~~~~~~~~~~~~~~a~----~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~--~~g~~~~A  481 (537)
T 3fp2_A          409 EVQEKIHVGIGPLIGKAT----ILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKL--QMEKIDEA  481 (537)
T ss_dssp             HHCSSCSSTTHHHHHHHH----HHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH--HTTCHHHH
T ss_pred             CcchhhHHHHHHHHHHHH----HHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH--HhccHHHH
Confidence                 1111111222222    24455          88 99999999998765 234556666777666  99999999


Q ss_pred             HHHHHHHHHCC
Q 013323          387 NYIWDLMQARK  397 (445)
Q Consensus       387 ~~~~~~m~~~~  397 (445)
                      ...|++..+..
T Consensus       482 ~~~~~~al~~~  492 (537)
T 3fp2_A          482 IELFEDSAILA  492 (537)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHhC
Confidence            99999998643

>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=99.59  E-value=7.8e-16  Score=140.78  Aligned_cols=281  Identities=9%  Similarity=-0.007  Sum_probs=122.4

Q ss_pred             hcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 013323           53 SQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIR  132 (445)
Q Consensus        53 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~  132 (445)
                      +.|++++|.++++++      ++..+|..+..++.+.|++++|.+.|...      +|..+|..++.++...|++++|+.
T Consensus        15 ~~~~ld~A~~fae~~------~~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~   82 (449)
T 1b89_A           15 HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK   82 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhC------CChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHH
Confidence            567899999999998      33459999999999999999999999652      688899999999999999999999


Q ss_pred             HHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHh
Q 013323          133 IFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQS  212 (445)
Q Consensus       133 ~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~  212 (445)
                      +++...+.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|..+-..|...|..  +.|...|..+.  
T Consensus        83 yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~y--eeA~~~Y~~a~--  149 (449)
T 1b89_A           83 YLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMY--DAAKLLYNNVS--  149 (449)
T ss_dssp             ----------------------------CHHHHTTTTT-------CC----------------CT--TTHHHHHHHTT--
T ss_pred             HHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCH--HHHHHHHHHhh--
Confidence            88766663  4668889999999999999999998885       37888999999999999988  88999998541  


Q ss_pred             cCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCH
Q 013323          213 KGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDV  292 (445)
Q Consensus       213 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  292 (445)
                                                                    .|..+..++.+.|++++|.+.+..+      .++
T Consensus       150 ----------------------------------------------n~~~LA~~L~~Lg~yq~AVea~~KA------~~~  177 (449)
T 1b89_A          150 ----------------------------------------------NFGRLASTLVHLGEYQAAVDGARKA------NST  177 (449)
T ss_dssp             ----------------------------------------------CHHHHHHHHHTTTCHHHHHHHHHHH------TCH
T ss_pred             ----------------------------------------------hHHHHHHHHHHhccHHHHHHHHHHc------CCc
Confidence                                                          4999999999999999999999987      378


Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHH
Q 013323          293 YIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDL  371 (445)
Q Consensus       293 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~l  371 (445)
                      .+|..++.+|+..|+++.|......     +...+.....++.    .|.+.|. ++|..+++...... +-....|+-+
T Consensus       178 ~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~----~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel  247 (449)
T 1b89_A          178 RTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELIN----YYQDRGYFEELITMLEAALGLE-RAHMGMFTEL  247 (449)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHH----HHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHH
T ss_pred             hhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHH----HHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHH
Confidence            9999999999999999999655443     3334445556776    5788898 99999999987655 4455677777


Q ss_pred             HHHhhcccCCChhhHHHHHHHHHHCCCCC------CHHHHHHHHhhhhccCCCCCCC
Q 013323          372 LLVAAGEKSGGYTTANYIWDLMQARKITP------SLPAVEAYYNGLKDREVPADDP  422 (445)
Q Consensus       372 l~~~~~~~~g~~~~A~~~~~~m~~~~~~p------~~~~~~~l~~~~~~~~~~~~a~  422 (445)
                      -..++-.+.++..+..+.|.  ..-.++|      +...|..+.--|.+-+..++|+
T Consensus       248 ~il~~ky~p~k~~ehl~~~~--~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~  302 (449)
T 1b89_A          248 AILYSKFKPQKMREHLELFW--SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  302 (449)
T ss_dssp             HHHHHTTCHHHHHHHHHHHS--TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHH--HHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHH
Confidence            66676334555555555442  1233433      3444555555555555554443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.58  E-value=4e-13  Score=119.61  Aligned_cols=251  Identities=10%  Similarity=0.056  Sum_probs=155.5

Q ss_pred             HHHHhcCcHhHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC
Q 013323           49 TSLTSQRRFFLLRDVYDDMMLDGVQPTR--DLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKN  126 (445)
Q Consensus        49 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  126 (445)
                      +.....|+++.|+..++....  ..|+.  .....+..++...|+.+.|...++.   . -+|+..++..+...+.+.++
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~--~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~   80 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKP--SSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSR   80 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCC--CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTT
T ss_pred             HHHHHHHHHHHHHHHHHhccc--CCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCc
Confidence            444556777777776665432  22432  2344556677777777777665533   1 23566677777777777777


Q ss_pred             HHHHHHHHHHHHhCCCCcc-HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHH
Q 013323          127 SDQAIRIFEEMKKYEVKPN-GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKI  205 (445)
Q Consensus       127 ~~~a~~~~~~m~~~g~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~  205 (445)
                      .++|.+.++++...+..|+ ...+..+-..+...|++++|++.+++      +.+...+..+...+.+.|+.  +.|.+.
T Consensus        81 ~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~--~~A~~~  152 (291)
T 3mkr_A           81 RDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRL--DLARKE  152 (291)
T ss_dssp             HHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCH--HHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCH--HHHHHH
Confidence            7777777777766554453 44455555667777777777777766      34566666667777777755  777777


Q ss_pred             HHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhH---HHHHHHHHHhcccHHHHHHHHHH
Q 013323          206 IELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTV---YHVAFHACAELKDVQAMETLLEM  282 (445)
Q Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~---~~~li~~~~~~g~~~~a~~~~~~  282 (445)
                      ++.+...                                         .|+...   ....+..+...|++++|..+|++
T Consensus       153 l~~~~~~-----------------------------------------~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~  191 (291)
T 3mkr_A          153 LKKMQDQ-----------------------------------------DEDATLTQLATAWVSLAAGGEKLQDAYYIFQE  191 (291)
T ss_dssp             HHHHHHH-----------------------------------------CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHH
T ss_pred             HHHHHhh-----------------------------------------CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            7766553                                         122111   11222333345778888888887


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-H-HHHHHHHHHHhCC
Q 013323          283 LKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-Q-LAQDTLVNMNSRN  360 (445)
Q Consensus       283 m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~-~a~~~~~~m~~~~  360 (445)
                      +.+. .+.+...++.+..++.+.|++++|...|++..+.. +-++.++..+..    .+...|. + .+.++++++.+..
T Consensus       192 ~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~----~~~~~g~~~eaa~~~~~~~~~~~  265 (291)
T 3mkr_A          192 MADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVV----LSQHLGKPPEVTNRYLSQLKDAH  265 (291)
T ss_dssp             HHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH----HHHHTTCCHHHHHHHHHHHHHHC
T ss_pred             HHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH----HHHHcCCCHHHHHHHHHHHHHhC
Confidence            7765 34466777778888888888888888888876652 125556666665    3445555 4 4567777776644

>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=99.56  E-value=8.1e-13  Score=119.56  Aligned_cols=235  Identities=10%  Similarity=-0.037  Sum_probs=155.7

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLIS  119 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  119 (445)
                      +...|..+...+...|++++|..+|+++.+.. +.+...|..+...+...|++++|...|+.+.+.. +.+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            55667777888899999999999999988754 2367778888888999999999999999988764 346788888999


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCccHHHHHHH--------------HH-HHHHcCChhhHHHHHHHHHHcCCCCCHHHH
Q 013323          120 VCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCL--------------LN-ACAAAGQLDPVYAIVRDMTAAGAGLDKFCY  184 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~l--------------i~-~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  184 (445)
                      .+...|++++|...|++...... .+...+..+              .. .+...|++++|...++++.+.. +.+...+
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  175 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQP-QYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLH  175 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTST-TTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHH
Confidence            99999999999999999887531 122223222              11 2555667777777777776643 2245556


Q ss_pred             HHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHH
Q 013323          185 AGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAF  264 (445)
Q Consensus       185 ~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li  264 (445)
                      ..+...+...|+.  +.|...++......                                        +.+..++..+.
T Consensus       176 ~~la~~~~~~~~~--~~A~~~~~~~~~~~----------------------------------------~~~~~~~~~l~  213 (327)
T 3cv0_A          176 ASLGVLYNLSNNY--DSAAANLRRAVELR----------------------------------------PDDAQLWNKLG  213 (327)
T ss_dssp             HHHHHHHHHTTCH--HHHHHHHHHHHHHC----------------------------------------TTCHHHHHHHH
T ss_pred             HHHHHHHHHhccH--HHHHHHHHHHHHhC----------------------------------------CCcHHHHHHHH
Confidence            6666666666544  56666665544321                                        23344556666


Q ss_pred             HHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          265 HACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       265 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      ..+...|++++|...++...+.. +.+..++..+...|...|++++|.+.|+.....
T Consensus       214 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  269 (327)
T 3cv0_A          214 ATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYM  269 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            66666666666666666655432 123455666666666666666666666665543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.55  E-value=4.4e-13  Score=123.66  Aligned_cols=265  Identities=8%  Similarity=-0.061  Sum_probs=176.2

Q ss_pred             CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHH
Q 013323           75 TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLN  154 (445)
Q Consensus        75 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~  154 (445)
                      +...|..+...+.+.|++++|...|+.+.+.. +.+..+|..+..+|.+.|++++|...|++..+.. +.+..+|..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            34457788888999999999999999998765 3568899999999999999999999999998753 235788999999


Q ss_pred             HHHHcCChhhHHHHHHHHHHcCCCCC-----------HHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCcccccccc
Q 013323          155 ACAAAGQLDPVYAIVRDMTAAGAGLD-----------KFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGN  223 (445)
Q Consensus       155 ~~~~~g~~~~a~~~~~~m~~~g~~p~-----------~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  223 (445)
                      .|...|++++|...|+++.+..  |+           ...+..+...+...|+.  +.|...++........        
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--~~A~~~~~~al~~~p~--------  209 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVL--EGVKELYLEAAHQNGD--------  209 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHH--HHHHHHHHHHHHHSCS--------
T ss_pred             HHHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhH--HHHHHHHHHHHHhCcC--------
Confidence            9999999999999999998742  22           12222334455555543  6666666665543100        


Q ss_pred             ccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 013323          224 NAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYL  303 (445)
Q Consensus       224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  303 (445)
                                                    ..+..++..+...+...|++++|...++...+.. +.+..+|..+..+|.
T Consensus       210 ------------------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~  258 (365)
T 4eqf_A          210 ------------------------------MIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLA  258 (365)
T ss_dssp             ------------------------------SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             ------------------------------ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence                                          1145567777777777777777777777766532 224567777777777


Q ss_pred             hcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCC-----------CCcchhhHH
Q 013323          304 HSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIF-----------LSPRMGSDL  371 (445)
Q Consensus       304 ~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~-----------p~~~~~~~l  371 (445)
                      ..|++++|...|+...+.. +.+...+..+-.    .|...|. ++|...|++..+..-.           .+...|..+
T Consensus       259 ~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~----~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l  333 (365)
T 4eqf_A          259 NGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGI----SCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAAL  333 (365)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH----HHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhcC-CCchHHHHHHHH----HHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHH
Confidence            7777777777777766642 113555555555    4566666 7777777776543210           024455555


Q ss_pred             HHHhhcccCCChhhHHHHHH
Q 013323          372 LLVAAGEKSGGYTTANYIWD  391 (445)
Q Consensus       372 l~~~~~~~~g~~~~A~~~~~  391 (445)
                      -.++.  ..|+.+.+..+.+
T Consensus       334 ~~~~~--~~g~~~~a~~~~~  351 (365)
T 4eqf_A          334 RIALS--LMDQPELFQAANL  351 (365)
T ss_dssp             HHHHH--HHTCHHHHHHHHT
T ss_pred             HHHHH--HcCcHHHHHHHHH
Confidence            55555  6677666655543

>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=99.53  E-value=1.3e-12  Score=118.15  Aligned_cols=262  Identities=6%  Similarity=-0.054  Sum_probs=164.5

Q ss_pred             HHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHH
Q 013323           77 DLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNAC  156 (445)
Q Consensus        77 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~  156 (445)
                      ..+..+...+...|++++|..+|+++.+.. +.+..+|..+..++.+.|++++|...|++..+.. +.+..+|..+...+
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~   99 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSH   99 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHH
Confidence            345666677889999999999999998764 3477889999999999999999999999998753 34678899999999


Q ss_pred             HHcCChhhHHHHHHHHHHcCCCCCHHHHHHHH-------------HH--HHccCCCchHHHHHHHHHHHHhcCCcccccc
Q 013323          157 AAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLI-------------TA--HTNKIPRADDTATKIIELVEQSKGWSSVETS  221 (445)
Q Consensus       157 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li-------------~~--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  221 (445)
                      ...|++++|...+++..+.... +...+..+.             ..  +...|+.  +.+...++......        
T Consensus       100 ~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~A~~~~~~~~~~~--------  168 (327)
T 3cv0_A          100 TNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEY--RECRTLLHAALEMN--------  168 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHTSTT-TTTC--------------------CCTTSHHHH--HHHHHHHHHHHHHS--------
T ss_pred             HHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccH--HHHHHHHHHHHhhC--------
Confidence            9999999999999999875321 111222210             11  2222222  44455444443321        


Q ss_pred             ccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 013323          222 GNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRC  301 (445)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  301 (445)
                                                      +.+...+..+...+...|++++|...++...+.. +.+..++..+...
T Consensus       169 --------------------------------~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~  215 (327)
T 3cv0_A          169 --------------------------------PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGAT  215 (327)
T ss_dssp             --------------------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             --------------------------------CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence                                            2344556666666666666666666666655432 2245566666666


Q ss_pred             HHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCC-----------Ccchhh
Q 013323          302 YLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFL-----------SPRMGS  369 (445)
Q Consensus       302 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p-----------~~~~~~  369 (445)
                      |...|++++|.+.|+...+.. +.+...+..+..    .|...|. ++|.+.+++..+.....           +...+.
T Consensus       216 ~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~----~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  290 (327)
T 3cv0_A          216 LANGNRPQEALDAYNRALDIN-PGYVRVMYNMAV----SYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWD  290 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH----HHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHH----HHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHH
Confidence            666666666666666665542 123444544444    3455555 66666666665433111           233444


Q ss_pred             HHHHHhhcccCCChhhHHHHHH
Q 013323          370 DLLLVAAGEKSGGYTTANYIWD  391 (445)
Q Consensus       370 ~ll~~~~~~~~g~~~~A~~~~~  391 (445)
                      .+...+.  +.|++++|..+++
T Consensus       291 ~l~~~~~--~~g~~~~A~~~~~  310 (327)
T 3cv0_A          291 FFRMLLN--VMNRPDLVELTYA  310 (327)
T ss_dssp             HHHHHHH--HTTCHHHHHHHTT
T ss_pred             HHHHHHH--hcCCHHHHHHHHH
Confidence            4444444  6666666666654

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.48  E-value=1.7e-11  Score=109.03  Aligned_cols=224  Identities=12%  Similarity=0.029  Sum_probs=181.1

Q ss_pred             hHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHH
Q 013323           43 EYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLP-DVAVYNYLISVC  121 (445)
Q Consensus        43 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~  121 (445)
                      ..-.+..+|...|+++.|+.-++.    .-.|+..++..+...+...++.++|.+.++++...+..| +...+..+-..+
T Consensus        36 ~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~  111 (291)
T 3mkr_A           36 RDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIY  111 (291)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHH
Confidence            445577899999999999986654    245677788999999999999999999999999887556 466677777999


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHH---HHHHHHHHccCCCc
Q 013323          122 GKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCY---AGLITAHTNKIPRA  198 (445)
Q Consensus       122 ~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~---~~li~~~~~~~~~~  198 (445)
                      .+.|++++|++.+++      +.+...+..+...+.+.|++++|.+.|+.+.+..  |+....   ..++..+...|+. 
T Consensus       112 ~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~-  182 (291)
T 3mkr_A          112 FYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKL-  182 (291)
T ss_dssp             HHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHH-
T ss_pred             HHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHH-
Confidence            999999999999997      4678899999999999999999999999999874  553221   2233333334544 


Q ss_pred             hHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHH
Q 013323          199 DDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMET  278 (445)
Q Consensus       199 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~  278 (445)
                       +.|..+|+.+....                                        +.+...|+.+..++.+.|++++|..
T Consensus       183 -~eA~~~~~~~l~~~----------------------------------------p~~~~~~~~la~~~~~~g~~~eA~~  221 (291)
T 3mkr_A          183 -QDAYYIFQEMADKC----------------------------------------SPTLLLLNGQAACHMAQGRWEAAEG  221 (291)
T ss_dssp             -HHHHHHHHHHHHHS----------------------------------------CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             -HHHHHHHHHHHHhC----------------------------------------CCcHHHHHHHHHHHHHcCCHHHHHH
Confidence             88999999887652                                        6677889999999999999999999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCChhh-HHHHHHHHHhC
Q 013323          279 LLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDN-GHKVFEDYICS  321 (445)
Q Consensus       279 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~~  321 (445)
                      .+++..+.. +-+..++..++..+...|+.++ +.++++.+.+.
T Consensus       222 ~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          222 VLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            999987642 2367789999999999999976 67899888765

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.41  E-value=2.9e-10  Score=110.40  Aligned_cols=133  Identities=7%  Similarity=0.087  Sum_probs=102.4

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLI  118 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  118 (445)
                      -|...|..++. +.+.|+++.|..+|+++.+. .+-+...|..++..+.+.|+.++|..+|+...+..  |+...|...+
T Consensus        11 ~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~-~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~   86 (530)
T 2ooe_A           11 YDLDAWSILIR-EAQNQPIDKARKTYERLVAQ-FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYL   86 (530)
T ss_dssp             TCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTT-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHH
T ss_pred             CCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHH
Confidence            36778888888 47889999999999999875 33467789999999999999999999999998864  7888888777


Q ss_pred             HHH-HccCCHHHHHH----HHHHHHh-CCCCc-cHHHHHHHHHHHHH---------cCChhhHHHHHHHHHHc
Q 013323          119 SVC-GKCKNSDQAIR----IFEEMKK-YEVKP-NGQTYVCLLNACAA---------AGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       119 ~~~-~~~g~~~~a~~----~~~~m~~-~g~~p-~~~~y~~li~~~~~---------~g~~~~a~~~~~~m~~~  175 (445)
                      ... ...|+.+.|.+    +|+.... .|..| +...|...+....+         .|+++.|..+|++..+.
T Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~  159 (530)
T 2ooe_A           87 SYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVN  159 (530)
T ss_dssp             HHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhc
Confidence            533 34577666554    7776654 35544 45677777776654         68899999999998873

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.41  E-value=5.3e-11  Score=103.56  Aligned_cols=226  Identities=7%  Similarity=-0.042  Sum_probs=154.6

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCC--CCCC----HHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANG--FLPD----VAVY  114 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g--~~p~----~~~~  114 (445)
                      ...|..+-..+...|++++|.+.|++..+..  ++...|..+...+...|++++|...++...+..  ..|+    ..+|
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            3456677778888888888888888887766  677778888888888888888888888876542  1112    4677


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 013323          115 NYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNK  194 (445)
Q Consensus       115 ~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  194 (445)
                      ..+...+.+.|++++|...|++....  .|+.       ..+.+.|++++|...++.+.... +.+...+..+...+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHh
Confidence            88888888888888888888887763  3443       23555677788888887777642 12344555566666666


Q ss_pred             CCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHH
Q 013323          195 IPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQ  274 (445)
Q Consensus       195 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~  274 (445)
                      |+.  +.|...++......                                        +.+..+|..+...+...|+++
T Consensus       153 ~~~--~~A~~~~~~a~~~~----------------------------------------~~~~~~~~~l~~~~~~~~~~~  190 (258)
T 3uq3_A          153 SDW--PNAVKAYTEMIKRA----------------------------------------PEDARGYSNRAAALAKLMSFP  190 (258)
T ss_dssp             TCH--HHHHHHHHHHHHHC----------------------------------------TTCHHHHHHHHHHHHHTTCHH
T ss_pred             cCH--HHHHHHHHHHHhcC----------------------------------------cccHHHHHHHHHHHHHhCCHH
Confidence            654  66777766655432                                        334556667777777777777


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          275 AMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       275 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      +|...++...+.. +.+...|..+...|.+.|++++|.+.|+...+.
T Consensus       191 ~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          191 EAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            7777777666532 224556666777777777777777777766543

>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=99.40  E-value=1e-10  Score=101.56  Aligned_cols=201  Identities=8%  Similarity=-0.061  Sum_probs=138.8

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISV  120 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  120 (445)
                      ...|..+...+...|++++|.+.|++..+.. +.+...+..+...+...|++++|.+.|+++.+.. +.+..+|..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            5667777788888888888888888877653 2356677777778888888888888888877654 2356777778888


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCch
Q 013323          121 CGKCKNSDQAIRIFEEMKKYEVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRAD  199 (445)
Q Consensus       121 ~~~~g~~~~a~~~~~~m~~~g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~  199 (445)
                      |...|++++|.++|++....+..| +...|..+...+...|++++|...|++..+..                       
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-----------------------  171 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-----------------------  171 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-----------------------
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-----------------------
Confidence            888888888888888877633334 45667777777778888888888877766542                       


Q ss_pred             HHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHH
Q 013323          200 DTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETL  279 (445)
Q Consensus       200 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~  279 (445)
                                                                            +.+...+..+...+...|++++|...
T Consensus       172 ------------------------------------------------------~~~~~~~~~la~~~~~~g~~~~A~~~  197 (252)
T 2ho1_A          172 ------------------------------------------------------RNQPSVALEMADLLYKEREYVPARQY  197 (252)
T ss_dssp             ------------------------------------------------------SCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ------------------------------------------------------cccHHHHHHHHHHHHHcCCHHHHHHH
Confidence                                                                  11223455555666666677777777


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          280 LEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       280 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      ++...+.. +.+...+..+...+...|+.++|.++++.+.+.
T Consensus       198 ~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          198 YDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            76665432 234555666666677777777777777776654

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.38  E-value=1.1e-08  Score=98.29  Aligned_cols=357  Identities=7%  Similarity=-0.084  Sum_probs=232.6

Q ss_pred             CCChhhHHHHHHHHHh----cCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----CCChhHHHHHHHHHHHCCCCC
Q 013323           38 ANNASEYNTVVTSLTS----QRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMK----GSRLQDTFFFRDQMKANGFLP  109 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~g~~p  109 (445)
                      .-++.++..+-..|..    .+++++|.+.|+...+.|   +...+..|-..+..    .++.++|...|+...+.|   
T Consensus        36 ~g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---  109 (490)
T 2xm6_A           36 SGEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---  109 (490)
T ss_dssp             TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---
T ss_pred             CCCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---
Confidence            3467777777777877    899999999999888765   55667777777777    889999999999988865   


Q ss_pred             CHHHHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHH----cCChhhHHHHHHHHHHcCCCCCH
Q 013323          110 DVAVYNYLISVCGK----CKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA----AGQLDPVYAIVRDMTAAGAGLDK  181 (445)
Q Consensus       110 ~~~~~~~ll~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~  181 (445)
                      +...+..|-..|..    .+++++|..+|++..+.|   +...+..+-..|..    .++.++|.+.|++..+.|   +.
T Consensus       110 ~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~  183 (490)
T 2xm6_A          110 LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NV  183 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            56677777778877    789999999999988865   55667777777777    778999999999988875   56


Q ss_pred             HHHHHHHHHHHcc--CCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhH
Q 013323          182 FCYAGLITAHTNK--IPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTV  259 (445)
Q Consensus       182 ~~~~~li~~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~  259 (445)
                      ..+..+-..+...  ...+.+.+...++.....+.....   .........+...  ..+.........+.- ...+...
T Consensus       184 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~---~~lg~~y~~g~g~--~~~~~~A~~~~~~a~-~~~~~~a  257 (490)
T 2xm6_A          184 WSCNQLGYMYSRGLGVERNDAISAQWYRKSATSGDELGQ---LHLADMYYFGIGV--TQDYTQSRVLFSQSA-EQGNSIA  257 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHH---HHHHHHHHHTSSS--CCCHHHHHHHHHHHH-TTTCHHH
T ss_pred             HHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCCCHHHH---HHHHHHHHcCCCC--CCCHHHHHHHHHHHH-HCCCHHH
Confidence            6666666666541  122447888888776654321110   0000000000000  000000000011100 0223344


Q ss_pred             HHHHHHHHHh----cccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-----CChhhHHHHHHHHHhCCCCCCHHHH
Q 013323          260 YHVAFHACAE----LKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHS-----GDIDNGHKVFEDYICSEKFPPAELY  330 (445)
Q Consensus       260 ~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~~~~p~~~~~  330 (445)
                      +..+-..+..    .++.++|...|+...+.|   +...+..|-..|...     ++.++|..+|+...+.|   +...+
T Consensus       258 ~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~  331 (490)
T 2xm6_A          258 QFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQ  331 (490)
T ss_dssp             HHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHH
Confidence            5555555666    788999999999887654   445666677777776     89999999999988875   33444


Q ss_pred             HHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhccc----CCChhhHHHHHHHHHHCCCCCCHHHH
Q 013323          331 ATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEK----SGGYTTANYIWDLMQARKITPSLPAV  405 (445)
Q Consensus       331 ~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~~~  405 (445)
                      ..|-..+..+ ....+ ++|.+.|++..+.|   ++..+..+-..+.  .    .+++++|...|++..+.+   ++..+
T Consensus       332 ~~lg~~y~~~-g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~--~g~g~~~~~~~A~~~~~~A~~~~---~~~a~  402 (490)
T 2xm6_A          332 ANLGAIYFRL-GSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALL--QGKGVKKDEQQAAIWMRKAAEQG---LSAAQ  402 (490)
T ss_dssp             HHHHHHHHHS-CCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHH--HTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHhC-CCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHH--cCCCCCCCHHHHHHHHHHHHhCC---CHHHH
Confidence            4444422212 11235 89999999988875   4556666655554  5    789999999999988766   35555


Q ss_pred             HHHHhhhhc----cCCCCCCCchhhh
Q 013323          406 EAYYNGLKD----REVPADDPRLVVV  427 (445)
Q Consensus       406 ~~l~~~~~~----~~~~~~a~~~l~~  427 (445)
                      ..|-..+.+    .+..++|...+..
T Consensus       403 ~~Lg~~y~~g~g~~~d~~~A~~~~~~  428 (490)
T 2xm6_A          403 VQLGEIYYYGLGVERDYVQAWAWFDT  428 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            556655555    4555556554433

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.38  E-value=4.5e-10  Score=95.34  Aligned_cols=134  Identities=8%  Similarity=-0.092  Sum_probs=97.2

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLIS  119 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  119 (445)
                      +...|..+...+...|++++|.+.|+...+.. +.+...|..+...+...|++++|...++...+.. +.+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            45567777778888888888888888777643 2346677777777888888888888888877653 235677777788


Q ss_pred             HHHcc-CCHHHHHHHHHHHHhCCCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHc
Q 013323          120 VCGKC-KNSDQAIRIFEEMKKYEVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       120 ~~~~~-g~~~~a~~~~~~m~~~g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      .+... |++++|...|++..+.+..| +...|..+...+...|++++|...|+++.+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  142 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAA  142 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            88888 88888888888877632223 2566777777777888888888877777654

>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=99.38  E-value=2.9e-10  Score=98.63  Aligned_cols=210  Identities=6%  Similarity=-0.051  Sum_probs=144.7

Q ss_pred             HHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHH
Q 013323           77 DLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNAC  156 (445)
Q Consensus        77 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~  156 (445)
                      ..|..+...+...|++++|...|+.+.+.. +.+..++..+...+.+.|++++|.+.|++..+.. +.+...|..+...+
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            345555566666777777777777666543 2345666666666777777777777776665542 12455666666666


Q ss_pred             HHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhh
Q 013323          157 AAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEE  236 (445)
Q Consensus       157 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  236 (445)
                      ...|++++|...|+++.+.+..                                                          
T Consensus       116 ~~~g~~~~A~~~~~~~~~~~~~----------------------------------------------------------  137 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQDTLY----------------------------------------------------------  137 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTTCTTC----------------------------------------------------------
T ss_pred             HHHhHHHHHHHHHHHHHhCccC----------------------------------------------------------
Confidence            6666666666666665541111                                                          


Q ss_pred             hcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHH
Q 013323          237 LYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFE  316 (445)
Q Consensus       237 ~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  316 (445)
                                       +.+...+..+...+...|++++|...++...+.. +.+...+..+...|...|++++|...|+
T Consensus       138 -----------------~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~  199 (252)
T 2ho1_A          138 -----------------PERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPARQYYD  199 (252)
T ss_dssp             -----------------TTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             -----------------cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence                             2234456777778888999999999999887643 2357788899999999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHH
Q 013323          317 DYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDL  371 (445)
Q Consensus       317 ~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~l  371 (445)
                      ...+.. ..+...+..+..    .+...|. +.|.+.++++.+..  |+...+..+
T Consensus       200 ~~~~~~-~~~~~~~~~~~~----~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~  248 (252)
T 2ho1_A          200 LFAQGG-GQNARSLLLGIR----LAKVFEDRDTAASYGLQLKRLY--PGSLEYQEF  248 (252)
T ss_dssp             HHHTTS-CCCHHHHHHHHH----HHHHTTCHHHHHHHHHHHHHHC--TTSHHHHHH
T ss_pred             HHHHhC-cCcHHHHHHHHH----HHHHccCHHHHHHHHHHHHHHC--CCCHHHHHH
Confidence            988753 235666666666    4677888 99999999998864  555444433

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.37  E-value=3.7e-10  Score=95.86  Aligned_cols=213  Identities=7%  Similarity=-0.019  Sum_probs=150.4

Q ss_pred             CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHH
Q 013323           75 TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLN  154 (445)
Q Consensus        75 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~  154 (445)
                      +...|..+...+...|++++|.+.|+...+.. +.+..+|..+...+...|++++|...|++..+.. +.+..+|..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            34567777788888899999999998888754 2457788888888888999999999988887643 235677888888


Q ss_pred             HHHHc-CChhhHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhccc
Q 013323          155 ACAAA-GQLDPVYAIVRDMTAAGAGLD-KFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGV  232 (445)
Q Consensus       155 ~~~~~-g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  232 (445)
                      .+... |++++|...++++.+.+..|+ ...+..+...+...|+.  +.|...++......                   
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~A~~~~~~~~~~~-------------------  143 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQF--GLAEAYLKRSLAAQ-------------------  143 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHS-------------------
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHhC-------------------
Confidence            88888 899999999888887433343 45566666677777755  77777777655431                   


Q ss_pred             chhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHH
Q 013323          233 SKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGH  312 (445)
Q Consensus       233 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  312 (445)
                                           +.+...+..+...+...|++++|...++...+.....+...+..+...+...|+.+.|.
T Consensus       144 ---------------------~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  202 (225)
T 2vq2_A          144 ---------------------PQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAY  202 (225)
T ss_dssp             ---------------------TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ---------------------CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHH
Confidence                                 33455677777777778888888887777665422135556666667777778888887


Q ss_pred             HHHHHHHhCCCCCCHHHHHHH
Q 013323          313 KVFEDYICSEKFPPAELYATL  333 (445)
Q Consensus       313 ~~~~~m~~~~~~p~~~~~~~l  333 (445)
                      .+++.+...  .|+...+..+
T Consensus       203 ~~~~~~~~~--~p~~~~~~~~  221 (225)
T 2vq2_A          203 EYEAQLQAN--FPYSEELQTV  221 (225)
T ss_dssp             HHHHHHHHH--CTTCHHHHHH
T ss_pred             HHHHHHHHh--CCCCHHHHHH
Confidence            777777643  2444444333

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.35  E-value=6.4e-11  Score=104.18  Aligned_cols=223  Identities=12%  Similarity=-0.020  Sum_probs=164.2

Q ss_pred             HhcCcHhHHHHHHHHHHHCCCC--C-CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHH
Q 013323           52 TSQRRFFLLRDVYDDMMLDGVQ--P-TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSD  128 (445)
Q Consensus        52 ~~~~~~~~a~~~~~~m~~~g~~--p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~  128 (445)
                      ...|++++|++.|+++.+....  | +..+|..+...+...|++++|...|+...+.. +.+..+|..+...+...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHH
Confidence            3458899999999999876321  1 35568888888999999999999999998864 246889999999999999999


Q ss_pred             HHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHH
Q 013323          129 QAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIEL  208 (445)
Q Consensus       129 ~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~  208 (445)
                      +|...|++..+.. +.+..+|..+...+.+.|++++|...|+++.+..  |+.......+..+...|+.  +.+...++.
T Consensus        95 ~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~--~~A~~~~~~  169 (275)
T 1xnf_A           95 AAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDE--KQAKEVLKQ  169 (275)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCH--HHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCH--HHHHHHHHH
Confidence            9999999988753 2357889999999999999999999999998853  4444433344444444544  777777765


Q ss_pred             HHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCC
Q 013323          209 VEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRK  288 (445)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  288 (445)
                      .....                                        +++...+. +...+...++.++|...+....+...
T Consensus       170 ~~~~~----------------------------------------~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~  208 (275)
T 1xnf_A          170 HFEKS----------------------------------------DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNT  208 (275)
T ss_dssp             HHHHS----------------------------------------CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHH
T ss_pred             HHhcC----------------------------------------CcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccc
Confidence            44431                                        23333333 66667777777888888877654321


Q ss_pred             C--C-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          289 S--P-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       289 ~--p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      .  | +..++..+...|.+.|++++|...|+.....
T Consensus       209 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          209 SLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             cccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            1  1 1467778888888889999999988888775

>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=99.35  E-value=3.8e-09  Score=92.86  Aligned_cols=224  Identities=7%  Similarity=-0.078  Sum_probs=174.3

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----CCChhHHHHHHHHHHHCCCCCCHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMK----GSRLQDTFFFRDQMKANGFLPDVAVYN  115 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~  115 (445)
                      ++.++..+-..+...|++++|.+.|++..+.   -+...+..+-..+..    .+++++|...|+...+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4566777778888999999999999998873   355677777788888    999999999999999876   778888


Q ss_pred             HHHHHHHc----cCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHH----cCChhhHHHHHHHHHHcCCCCCHHHHHHH
Q 013323          116 YLISVCGK----CKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA----AGQLDPVYAIVRDMTAAGAGLDKFCYAGL  187 (445)
Q Consensus       116 ~ll~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  187 (445)
                      .+-..|..    .+++++|...|++..+.+   +...+..+-..|..    .+++++|...|++..+.+   +...+..+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            88899998    999999999999998865   67788888889998    999999999999998876   45555555


Q ss_pred             HHHHHc----cCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHH
Q 013323          188 ITAHTN----KIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVA  263 (445)
Q Consensus       188 i~~~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~l  263 (445)
                      -..+..    .++  .+.|...++...+.                                          .+...+..+
T Consensus       153 g~~~~~~~~~~~~--~~~A~~~~~~a~~~------------------------------------------~~~~a~~~l  188 (273)
T 1ouv_A          153 GSLYDAGRGTPKD--LKKALASYDKACDL------------------------------------------KDSPGCFNA  188 (273)
T ss_dssp             HHHHHHTSSSCCC--HHHHHHHHHHHHHT------------------------------------------TCHHHHHHH
T ss_pred             HHHHHcCCCCCCC--HHHHHHHHHHHHHC------------------------------------------CCHHHHHHH
Confidence            555554    443  37777777765542                                          123456666


Q ss_pred             HHHHHh----cccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhhHHHHHHHHHhCC
Q 013323          264 FHACAE----LKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLH----SGDIDNGHKVFEDYICSE  322 (445)
Q Consensus       264 i~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~  322 (445)
                      -..+..    .+++++|...++...+.+   +...+..+-..|..    .+++++|.+.|+...+.|
T Consensus       189 g~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          189 GNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            677777    888888888888877654   25566667777777    888888888888877764

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.35  E-value=1.4e-10  Score=100.91  Aligned_cols=191  Identities=9%  Similarity=-0.038  Sum_probs=117.3

Q ss_pred             HHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC--CCcc----HHHHH
Q 013323           77 DLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYE--VKPN----GQTYV  150 (445)
Q Consensus        77 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g--~~p~----~~~y~  150 (445)
                      ..|..+-..+...|++++|...|++..+..  .+..+|..+..++...|++++|...|++..+..  ..|+    ..+|.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            456666677778888888888888887766  677788888888888888888888888776531  1111    46777


Q ss_pred             HHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhc
Q 013323          151 CLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMM  230 (445)
Q Consensus       151 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  230 (445)
                      .+...+...|++++|...|++..+..  |+..+       +.+.|+.  +.+...++......                 
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~-------~~~~~~~--~~a~~~~~~~~~~~-----------------  135 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTEH--RTADI-------LTKLRNA--EKELKKAEAEAYVN-----------------  135 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHH-------HHHHHHH--HHHHHHHHHHHHCC-----------------
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcC--chhHH-------HHHHhHH--HHHHHHHHHHHHcC-----------------
Confidence            78888888888888888888777642  33222       2222221  44444444433321                 


Q ss_pred             ccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhh
Q 013323          231 GVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDN  310 (445)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  310 (445)
                                             +.+...+..+...+...|++++|...++...+.. +.+..++..+...|...|++++
T Consensus       136 -----------------------~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~  191 (258)
T 3uq3_A          136 -----------------------PEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPE  191 (258)
T ss_dssp             -----------------------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             -----------------------cchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHH
Confidence                                   2233445555555666666666666666555432 1234455555556666666666


Q ss_pred             HHHHHHHHHhC
Q 013323          311 GHKVFEDYICS  321 (445)
Q Consensus       311 a~~~~~~m~~~  321 (445)
                      |...|+...+.
T Consensus       192 A~~~~~~al~~  202 (258)
T 3uq3_A          192 AIADCNKAIEK  202 (258)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            66666555443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.35  E-value=2.2e-09  Score=104.15  Aligned_cols=378  Identities=8%  Similarity=0.007  Sum_probs=232.6

Q ss_pred             CCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHH-hcCCChhHHHH----HHHHHHH-CCCCC
Q 013323           36 NYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGT-MKGSRLQDTFF----FRDQMKA-NGFLP  109 (445)
Q Consensus        36 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~-~~~~~~~~a~~----~~~~m~~-~g~~p  109 (445)
                      .++-+...|..++..+.+.|+++.|..+|++.....  |+...|...+... ...|+.+.|.+    +|+.... .|..|
T Consensus        41 ~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~  118 (530)
T 2ooe_A           41 QFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEI  118 (530)
T ss_dssp             TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTST
T ss_pred             HCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCc
Confidence            345567789999999999999999999999998753  7888887777533 45677777665    7777654 36544


Q ss_pred             -CHHHHHHHHHHHHc---------cCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHH-------------HHcCChhhHH
Q 013323          110 -DVAVYNYLISVCGK---------CKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNAC-------------AAAGQLDPVY  166 (445)
Q Consensus       110 -~~~~~~~ll~~~~~---------~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~-------------~~~g~~~~a~  166 (445)
                       +...|...+....+         .|+++.|..+|++.......+....|.......             .+.++++.|.
T Consensus       119 ~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~  198 (530)
T 2ooe_A          119 MSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNAR  198 (530)
T ss_dssp             TCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHH
T ss_pred             ccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHH
Confidence             56788888877654         688999999999998732222234444332211             1234566777


Q ss_pred             HHHHHHHH------cC---CCCC--------HHHHHHHHHHHHccC----CC--chHHHHHHHHHHHHhcCCcccccccc
Q 013323          167 AIVRDMTA------AG---AGLD--------KFCYAGLITAHTNKI----PR--ADDTATKIIELVEQSKGWSSVETSGN  223 (445)
Q Consensus       167 ~~~~~m~~------~g---~~p~--------~~~~~~li~~~~~~~----~~--~~~~a~~~~~~~~~~~~~~~~~~~~~  223 (445)
                      .+++++..      ..   +.|+        ...|...+.......    +.  ..+.+..+++.........+... ..
T Consensus       199 ~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~p~~~~~w-~~  277 (530)
T 2ooe_A          199 RVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVLGHHPDIW-YE  277 (530)
T ss_dssp             HHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHHTTCHHHH-HH
T ss_pred             HHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhCCCCHHHH-HH
Confidence            77766431      11   2444        234544443332211    11  01244555655444322211110 00


Q ss_pred             ccchhh--------cccchhhhcchhhhhHHhhhc--CcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCC--
Q 013323          224 NAENEM--------MGVSKEELYNLPTAEYVHRRG--GFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPD--  291 (445)
Q Consensus       224 ~~~~~~--------~~~~~~~~~~~~~~~~~~~~~--g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--  291 (445)
                      +.....        .+.......-.........+.  ...+.+...|..+...+.+.|++++|..+|+...+.  .|+  
T Consensus       278 ~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~  355 (530)
T 2ooe_A          278 AAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDP  355 (530)
T ss_dssp             HHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCH
T ss_pred             HHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCc
Confidence            011100        111110000000000111111  122456788999999999999999999999998873  564  


Q ss_pred             HHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHH--HHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchh
Q 013323          292 VYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYA--TLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMG  368 (445)
Q Consensus       292 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~--~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~  368 (445)
                      ...|..+...+.+.|++++|.++|+...+..- .+...|.  .++.     +...|. +.|..+|++..+.. +-++..|
T Consensus       356 ~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~-~~~~~~~~~a~~~-----~~~~~~~~~A~~~~e~al~~~-p~~~~~~  428 (530)
T 2ooe_A          356 TLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALME-----YYCSKDKSVAFKIFELGLKKY-GDIPEYV  428 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTT-CCTHHHHHHHHHH-----HHHTCCHHHHHHHHHHHHHHH-TTCHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHhccC-CchHHHHHHHHHH-----HHHcCChhHHHHHHHHHHHHC-CCCHHHH
Confidence            25789899999999999999999999887621 1222222  2222     334666 99999999987754 2245677


Q ss_pred             hHHHHHhhcccCCChhhHHHHHHHHHHCC-CCCC--HHHHHHHHhhhhccCCCCCCCchhhh
Q 013323          369 SDLLLVAAGEKSGGYTTANYIWDLMQARK-ITPS--LPAVEAYYNGLKDREVPADDPRLVVV  427 (445)
Q Consensus       369 ~~ll~~~~~~~~g~~~~A~~~~~~m~~~~-~~p~--~~~~~~l~~~~~~~~~~~~a~~~l~~  427 (445)
                      ..++....  +.|+.++|..+|++..... ..|+  ...|..+++-..+.|..+++..+..-
T Consensus       429 ~~~~~~~~--~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r  488 (530)
T 2ooe_A          429 LAYIDYLS--HLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  488 (530)
T ss_dssp             HHHHHHHT--TTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHH
T ss_pred             HHHHHHHH--hCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            77777776  8999999999999998763 3332  44677777766777877666654433

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.34  E-value=2.2e-10  Score=97.19  Aligned_cols=200  Identities=10%  Similarity=-0.033  Sum_probs=156.8

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYL  117 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  117 (445)
                      +++...|..+-..+.+.|++++|...|++..+.. +.+...|..+-..+.+.|++++|...|+...+.. +.+...|..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            4677888889999999999999999999988753 2367778888899999999999999999999865 2457889999


Q ss_pred             HHHHHcc-----------CCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHH
Q 013323          118 ISVCGKC-----------KNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAG  186 (445)
Q Consensus       118 l~~~~~~-----------g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~  186 (445)
                      -..+.+.           |++++|...|++..+.. +-+...|..+-..+...|++++|...|++..+..  .+...+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            9999999           99999999999998753 1257788999999999999999999999999877  68888999


Q ss_pred             HHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHH
Q 013323          187 LITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHA  266 (445)
Q Consensus       187 li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~  266 (445)
                      +-..+...|+.  +.|...++......                                        +.+...+..+...
T Consensus       157 la~~~~~~g~~--~~A~~~~~~al~~~----------------------------------------P~~~~~~~~la~~  194 (217)
T 2pl2_A          157 LAELYLSMGRL--DEALAQYAKALEQA----------------------------------------PKDLDLRVRYASA  194 (217)
T ss_dssp             HHHHHHHHTCH--HHHHHHHHHHHHHS----------------------------------------TTCHHHHHHHHHH
T ss_pred             HHHHHHHcCCH--HHHHHHHHHHHHhC----------------------------------------CCChHHHHHHHHH
Confidence            99999999976  88999998876542                                        5566778888888


Q ss_pred             HHhcccHHHHHHHHHHHH
Q 013323          267 CAELKDVQAMETLLEMLK  284 (445)
Q Consensus       267 ~~~~g~~~~a~~~~~~m~  284 (445)
                      +...|++++|...++...
T Consensus       195 ~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          195 LLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HTC---------------
T ss_pred             HHHccCHHHHHHHHHHHh
Confidence            999999999988887643

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.33  E-value=1.6e-08  Score=97.02  Aligned_cols=335  Identities=9%  Similarity=-0.097  Sum_probs=210.3

Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHhc----CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHH
Q 013323           61 RDVYDDMMLDGVQPTRDLFHSLIVGTMK----GSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGK----CKNSDQAIR  132 (445)
Q Consensus        61 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~g~~~~a~~  132 (445)
                      ++.+....+.|   +...+..+-..+..    .++.+.|...|+...+.|   +...+..|-..|..    .+++++|..
T Consensus        27 ~~~~~~~a~~g---~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~  100 (490)
T 2xm6_A           27 LEQLKQKAESG---EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVI  100 (490)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHH
T ss_pred             HHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            44455444443   55666666666665    899999999999999875   56778888888888    899999999


Q ss_pred             HHHHHHhCCCCccHHHHHHHHHHHHH----cCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc--CCCchHHHHHHH
Q 013323          133 IFEEMKKYEVKPNGQTYVCLLNACAA----AGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNK--IPRADDTATKII  206 (445)
Q Consensus       133 ~~~~m~~~g~~p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~--~~~~~~~a~~~~  206 (445)
                      +|++..+.|   +...+..+-..|..    .+++++|...|++..+.|   +...+..+-..|...  ...+.+.|...+
T Consensus       101 ~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  174 (490)
T 2xm6_A          101 WYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWY  174 (490)
T ss_dssp             HHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHH
T ss_pred             HHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            999998865   56677778888888    789999999999998876   455566665666541  123458888888


Q ss_pred             HHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHh----cccHHHHHHHHHH
Q 013323          207 ELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAE----LKDVQAMETLLEM  282 (445)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~  282 (445)
                      +.....+.....   .........+...  ..+.........+.-. ..+...+..+-..+..    .++.++|...|+.
T Consensus       175 ~~a~~~~~~~a~---~~Lg~~y~~g~g~--~~~~~~A~~~~~~a~~-~~~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~  248 (490)
T 2xm6_A          175 SKAAEQGNVWSC---NQLGYMYSRGLGV--ERNDAISAQWYRKSAT-SGDELGQLHLADMYYFGIGVTQDYTQSRVLFSQ  248 (490)
T ss_dssp             HHHHHTTCHHHH---HHHHHHHHHTSSS--CCCHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHH
T ss_pred             HHHHHCCCHHHH---HHHHHHHhcCCCC--CcCHHHHHHHHHHHHH-CCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            877654321100   0000000000000  0000000000111000 2344456666666665    7789999999988


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHh----cCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhc-CChhhH-HHHHHHHHHH
Q 013323          283 LKKDRKSPDVYIVMQNIRCYLH----SGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFG-YTPKGM-QLAQDTLVNM  356 (445)
Q Consensus       283 m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-~~~~g~-~~a~~~~~~m  356 (445)
                      ..+.|   +...+..+-..|..    .++.++|..+|+...+.|   +...+..|-..+..+ ....++ ++|...+++.
T Consensus       249 a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a  322 (490)
T 2xm6_A          249 SAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKS  322 (490)
T ss_dssp             HHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHH
T ss_pred             HHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHH
Confidence            87654   34555556666776    789999999999887764   334444443321111 111255 8999999998


Q ss_pred             HhCCCCCCcchhhHHHHHhhcccCC---ChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhc----cCCCCCCCchhhh
Q 013323          357 NSRNIFLSPRMGSDLLLVAAGEKSG---GYTTANYIWDLMQARKITPSLPAVEAYYNGLKD----REVPADDPRLVVV  427 (445)
Q Consensus       357 ~~~~~~p~~~~~~~ll~~~~~~~~g---~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~l~~  427 (445)
                      .+.+   ++..+..+-..+.  +.|   ++++|...|++..+.|   ++..+..|-..+..    .+.+++|..++..
T Consensus       323 ~~~~---~~~a~~~lg~~y~--~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~  392 (490)
T 2xm6_A          323 AEQG---DATAQANLGAIYF--RLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQAAIWMRK  392 (490)
T ss_dssp             HHTT---CHHHHHHHHHHHH--HSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHH
T ss_pred             HhcC---CHHHHHHHHHHHH--hCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            8876   3444555544444  435   7888999999888764   45566666666655    4555555554433

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.27  E-value=5.6e-10  Score=96.12  Aligned_cols=134  Identities=9%  Similarity=0.007  Sum_probs=82.6

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLI  118 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  118 (445)
                      .+...|..+-..+...|++++|...|++..+.. +.+...+..+...+...|++++|...|+...+.. +.+..++..+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la   98 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAG   98 (243)
T ss_dssp             ---------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHH
Confidence            455666777777788888888888888877643 2356677777777888888888888888877653 23567777777


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHc
Q 013323          119 SVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      ..+...|++++|..+|++..+.. +.+...|..+...+.+.|++++|...+++..+.
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~  154 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL  154 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            88888888888888888776643 235667777777778888888888887777664

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.27  E-value=7.2e-10  Score=95.41  Aligned_cols=201  Identities=6%  Similarity=-0.045  Sum_probs=146.3

Q ss_pred             CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHH
Q 013323           75 TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLN  154 (445)
Q Consensus        75 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~  154 (445)
                      +..+|..+-..+...|++++|...|++..+.. +.+..++..+...+.+.|++++|...|++..+.. +.+..+|..+..
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHH
Confidence            44557777778889999999999999998754 3468889999999999999999999999988753 236788899999


Q ss_pred             HHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccch
Q 013323          155 ACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSK  234 (445)
Q Consensus       155 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  234 (445)
                      .+...|++++|...+++..+.. +.+...+..+...+...|+.  +.|...++......                     
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~--~~A~~~~~~~~~~~---------------------  155 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQP--KLALPYLQRAVELN---------------------  155 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCH--HHHHHHHHHHHHHC---------------------
T ss_pred             HHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccH--HHHHHHHHHHHHhC---------------------
Confidence            9999999999999999998864 33567777777888888865  88888888766542                     


Q ss_pred             hhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHH
Q 013323          235 EELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKV  314 (445)
Q Consensus       235 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  314 (445)
                                         +.+...+..+...+...|++++|...++...+.. +.+..++..+...|...|++++|.+.
T Consensus       156 -------------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~  215 (243)
T 2q7f_A          156 -------------------ENDTEARFQFGMCLANEGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEM  215 (243)
T ss_dssp             -------------------TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHH
T ss_pred             -------------------CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHH
Confidence                               3455677888888888999999999998877642 23567788888889999999999999


Q ss_pred             HHHHHhC
Q 013323          315 FEDYICS  321 (445)
Q Consensus       315 ~~~m~~~  321 (445)
                      |+...+.
T Consensus       216 ~~~~~~~  222 (243)
T 2q7f_A          216 LDKAIDI  222 (243)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHcc
Confidence            9988775

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.27  E-value=7.7e-10  Score=93.80  Aligned_cols=208  Identities=14%  Similarity=0.028  Sum_probs=99.0

Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHH
Q 013323          108 LPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGL  187 (445)
Q Consensus       108 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  187 (445)
                      +++...+..+-..+.+.|++++|...|++..+.. +.+...|..+-..+.+.|++++|...|++..+.. +-+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            3455566666667777777777777777766543 2245666667777777777777777777766643 1133444444


Q ss_pred             HHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHH
Q 013323          188 ITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHAC  267 (445)
Q Consensus       188 i~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~  267 (445)
                      -..+...+..                                                        ...         ..
T Consensus        80 g~~~~~~~~~--------------------------------------------------------~~~---------~~   94 (217)
T 2pl2_A           80 SEAYVALYRQ--------------------------------------------------------AED---------RE   94 (217)
T ss_dssp             HHHHHHHHHT--------------------------------------------------------CSS---------HH
T ss_pred             HHHHHHhhhh--------------------------------------------------------hhh---------hc
Confidence            3333332000                                                        000         01


Q ss_pred             HhcccHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH
Q 013323          268 AELKDVQAMETLLEMLKKDRKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM  346 (445)
Q Consensus       268 ~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~  346 (445)
                      ...|++++|...++...+.  .| +...+..+-..|...|++++|...|++..+..  .+...+..+-.    .|...|+
T Consensus        95 ~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~----~~~~~g~  166 (217)
T 2pl2_A           95 RGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAE----LYLSMGR  166 (217)
T ss_dssp             HHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHH----HHHHHTC
T ss_pred             ccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHH----HHHHcCC
Confidence            1235555555555554442  23 33445555555555555555555555555544  34444444444    3445555


Q ss_pred             -HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHH
Q 013323          347 -QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLM  393 (445)
Q Consensus       347 -~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m  393 (445)
                       ++|...|++..+.. +-++..+..+...+.  +.|++++|...|++.
T Consensus       167 ~~~A~~~~~~al~~~-P~~~~~~~~la~~~~--~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          167 LDEALAQYAKALEQA-PKDLDLRVRYASALL--LKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHHHHHHHHS-TTCHHHHHHHHHHHT--C--------------
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHH--HccCHHHHHHHHHHH
Confidence             55555555555433 113334444444444  556666666555543

>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=99.26  E-value=5.5e-09  Score=96.17  Aligned_cols=244  Identities=9%  Similarity=0.005  Sum_probs=190.2

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhcCCC-hhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQP-TRDLFHSLIVGTMKGSR-LQDTFFFRDQMKANGFLPDVAVYNYLI  118 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~-~~~a~~~~~~m~~~g~~p~~~~~~~ll  118 (445)
                      ...|+.+-..+.+.|++++|++.|++..+..  | +...|+.+-.++...|+ +++|...|++..+.. +-+...|+.+-
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~--P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g  173 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRR  173 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC--ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHH
Confidence            4667888888999999999999999998754  4 56778888899999996 999999999999865 23688999999


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHc-cCCC
Q 013323          119 SVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTN-KIPR  197 (445)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~-~~~~  197 (445)
                      .++.+.|++++|+..|++..+.. +-+...|..+-.++.+.|++++|+..|+++.+... -+...|+.+-..+.. .|..
T Consensus       174 ~~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          174 VLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcc
Confidence            99999999999999999998854 23678999999999999999999999999998642 267788888888877 5543


Q ss_pred             chHHH-----HHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcc-
Q 013323          198 ADDTA-----TKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELK-  271 (445)
Q Consensus       198 ~~~~a-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g-  271 (445)
                        +.+     ...++......                                        +.+...|+.+-..+...| 
T Consensus       252 --~eA~~~~el~~~~~Al~l~----------------------------------------P~~~~a~~~l~~ll~~~g~  289 (382)
T 2h6f_A          252 --DRAVLEREVQYTLEMIKLV----------------------------------------PHNESAWNYLKGILQDRGL  289 (382)
T ss_dssp             --SHHHHHHHHHHHHHHHHHS----------------------------------------TTCHHHHHHHHHHHTTTCG
T ss_pred             --hHHHHHHHHHHHHHHHHHC----------------------------------------CCCHHHHHHHHHHHHccCc
Confidence              333     24444433321                                        456678888888888887 


Q ss_pred             -cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---------ChhhHHHHHHHH-HhCCCCC-CHHHHHHHHH
Q 013323          272 -DVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSG---------DIDNGHKVFEDY-ICSEKFP-PAELYATLVE  335 (445)
Q Consensus       272 -~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g---------~~~~a~~~~~~m-~~~~~~p-~~~~~~~li~  335 (445)
                       ++++|.+.+..+ + .-..+...+..+...|.+.|         .+++|.++|+.+ .+.  .| ....|..+..
T Consensus       290 ~~~~~a~~~~~~~-~-~~p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~~~~l~~~~--DP~r~~~w~~~~~  361 (382)
T 2h6f_A          290 SKYPNLLNQLLDL-Q-PSHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALELCEILAKEK--DTIRKEYWRYIGR  361 (382)
T ss_dssp             GGCHHHHHHHHHH-T-TTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHHHHHHHHTT--CGGGHHHHHHHHH
T ss_pred             cchHHHHHHHHHh-c-cCCCCHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHh--CchhHHHHHHHHH
Confidence             688999988887 3 22346678888999998874         358999999998 443  33 3345555544

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.25  E-value=1.6e-08  Score=90.59  Aligned_cols=235  Identities=10%  Similarity=0.050  Sum_probs=161.1

Q ss_pred             hhhHHHHHHHHHhc----CcH----hHHHHHHHHHHHCCCCCCHHHHHHHHHHHh-------cCCCh-------hHHHHH
Q 013323           41 ASEYNTVVTSLTSQ----RRF----FLLRDVYDDMMLDGVQPTRDLFHSLIVGTM-------KGSRL-------QDTFFF   98 (445)
Q Consensus        41 ~~~~~~li~~~~~~----~~~----~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~-------~~~~~-------~~a~~~   98 (445)
                      ...|...+..--+.    ++.    ++|..+|++..... +-+...|..+...+.       +.|+.       ++|..+
T Consensus         8 ~~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~   86 (308)
T 2ond_A            8 VDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANI   86 (308)
T ss_dssp             HHHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHH
Confidence            44566666654443    232    67888888887742 235667777766654       35776       889999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcc-HH-HHHHHHHHHHHcCChhhHHHHHHHHHHcC
Q 013323           99 RDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPN-GQ-TYVCLLNACAAAGQLDPVYAIVRDMTAAG  176 (445)
Q Consensus        99 ~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~-~y~~li~~~~~~g~~~~a~~~~~~m~~~g  176 (445)
                      |+...+.--+-+...|..+...+.+.|++++|..+|++..+.  .|+ .. .|..+...+.+.|++++|..+|++..+..
T Consensus        87 ~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~  164 (308)
T 2ond_A           87 YERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA  164 (308)
T ss_dssp             HHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            999887311235668999999999999999999999999874  454 33 78888899999999999999999988753


Q ss_pred             CCCCHHHHHHHHHHH-HccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccC
Q 013323          177 AGLDKFCYAGLITAH-TNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSR  255 (445)
Q Consensus       177 ~~p~~~~~~~li~~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  255 (445)
                      - ++...|....... ...|+.  +.|..+|+...+..                                        +.
T Consensus       165 p-~~~~~~~~~a~~~~~~~~~~--~~A~~~~~~al~~~----------------------------------------p~  201 (308)
T 2ond_A          165 R-TRHHVYVTAALMEYYCSKDK--SVAFKIFELGLKKY----------------------------------------GD  201 (308)
T ss_dssp             T-CCTHHHHHHHHHHHHTSCCH--HHHHHHHHHHHHHH----------------------------------------TT
T ss_pred             C-CCHHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHhC----------------------------------------CC
Confidence            2 2333333222221 123443  77777777655431                                        34


Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhCC-CCC--CHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          256 LLTVYHVAFHACAELKDVQAMETLLEMLKKDR-KSP--DVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       256 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      +...|..++..+.+.|++++|..+|+...... +.|  ....|..++..+.+.|+.+.|..+++.+.+.
T Consensus       202 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          202 IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            55667777777777788888888888777652 454  3456777777777788888888887777654

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.24  E-value=3.1e-10  Score=99.78  Aligned_cols=222  Identities=10%  Similarity=-0.059  Sum_probs=134.4

Q ss_pred             hcCCChhHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChh
Q 013323           87 MKGSRLQDTFFFRDQMKANGFL---PDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLD  163 (445)
Q Consensus        87 ~~~~~~~~a~~~~~~m~~~g~~---p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~  163 (445)
                      ...|++++|...|+++.+....   .+..+|..+...+...|++++|...|++..+.. +.+..+|..+...+...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHH
Confidence            4567889999999998876321   246678888888999999999999999887753 235788888889999999999


Q ss_pred             hHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhh
Q 013323          164 PVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTA  243 (445)
Q Consensus       164 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (445)
                      +|...|++..+.. +.+...+..+...+...|+.  +.|...++.....                               
T Consensus        95 ~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~--~~A~~~~~~a~~~-------------------------------  140 (275)
T 1xnf_A           95 AAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRD--KLAQDDLLAFYQD-------------------------------  140 (275)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCH--HHHHHHHHHHHHH-------------------------------
T ss_pred             HHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccH--HHHHHHHHHHHHh-------------------------------
Confidence            9999998887753 12355566666666666644  6666666655543                               


Q ss_pred             hHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCC
Q 013323          244 EYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEK  323 (445)
Q Consensus       244 ~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  323 (445)
                                .|+.......+..+...|++++|...+....... +++...+. +...+...++.++|.+.+........
T Consensus       141 ----------~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~  208 (275)
T 1xnf_A          141 ----------DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS-DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNT  208 (275)
T ss_dssp             ----------CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS-CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHH
T ss_pred             ----------CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccc
Confidence                      2222223333334445566666666665544321 22222332 45555555666666666665544311


Q ss_pred             C--C-CHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhC
Q 013323          324 F--P-PAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSR  359 (445)
Q Consensus       324 ~--p-~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~  359 (445)
                      .  | +...+..+-.    .|...|+ ++|...|++..+.
T Consensus       209 ~~~~~~~~~~~~la~----~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          209 SLAEHLSETNFYLGK----YYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HHHHHHHHHHHHHHH----HHHHTTCHHHHHHHHHHHHTT
T ss_pred             cccccccHHHHHHHH----HHHHcCCHHHHHHHHHHHHhC
Confidence            0  0 0233333333    3445555 6666666655543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.24  E-value=2.1e-09  Score=94.34  Aligned_cols=234  Identities=10%  Similarity=-0.010  Sum_probs=164.1

Q ss_pred             hhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCC--CHHHHHHHHH
Q 013323           42 SEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLP--DVAVYNYLIS  119 (445)
Q Consensus        42 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p--~~~~~~~ll~  119 (445)
                      ..+...-..+...|++++|...|++..+..- .+...+..+...+...|++++|...++...+.+-.|  ...+|..+-.
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKKY-NSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGK   82 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTTC-CCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            3445566778889999999999999887531 234477778888889999999999999988743212  2345888888


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHH-HHHHccCCCc
Q 013323          120 VCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLI-TAHTNKIPRA  198 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li-~~~~~~~~~~  198 (445)
                      .+.+.|++++|...|++..+.. +.+..+|..+...+...|++++|...|++..+.. +.+...+..+- ..+...   .
T Consensus        83 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~---~  157 (272)
T 3u4t_A           83 ILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNK---E  157 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTT---C
T ss_pred             HHHHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHH---H
Confidence            9999999999999999887743 2356788889999999999999999998887752 23455555555 444433   3


Q ss_pred             hHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhccc---HHH
Q 013323          199 DDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKD---VQA  275 (445)
Q Consensus       199 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~---~~~  275 (445)
                      .+.|...++...+..                                        +.+...+..+...+...|+   .++
T Consensus       158 ~~~A~~~~~~a~~~~----------------------------------------p~~~~~~~~~~~~~~~~~~~~~~~~  197 (272)
T 3u4t_A          158 YVKADSSFVKVLELK----------------------------------------PNIYIGYLWRARANAAQDPDTKQGL  197 (272)
T ss_dssp             HHHHHHHHHHHHHHS----------------------------------------TTCHHHHHHHHHHHHHHSTTCSSCT
T ss_pred             HHHHHHHHHHHHHhC----------------------------------------ccchHHHHHHHHHHHHcCcchhhHH
Confidence            477888777766542                                        3334555666666666666   666


Q ss_pred             HHHHHHHHHhC-CCCCC------HHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          276 METLLEMLKKD-RKSPD------VYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       276 a~~~~~~m~~~-~~~p~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      |...++...+. .-.|+      ..+|..+-..|...|++++|.+.|+...+.
T Consensus       198 A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  250 (272)
T 3u4t_A          198 AKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILAL  250 (272)
T ss_dssp             THHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            66666655442 11232      246677777788888888888888887765

>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=99.21  E-value=4e-08  Score=86.25  Aligned_cols=110  Identities=9%  Similarity=-0.066  Sum_probs=78.8

Q ss_pred             CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHhCCCCccHHHHH
Q 013323           75 TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGK----CKNSDQAIRIFEEMKKYEVKPNGQTYV  150 (445)
Q Consensus        75 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~y~  150 (445)
                      +..++..+-..+...|++++|...|+...+.   -+...+..+-..|..    .+++++|...|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4456666666777788888888888888773   345677777777887    888888888888887765   667777


Q ss_pred             HHHHHHHH----cCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 013323          151 CLLNACAA----AGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTN  193 (445)
Q Consensus       151 ~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  193 (445)
                      .+-..|..    .+++++|...|++..+.+   +...+..+-..+..
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~  122 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHD  122 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHc
Confidence            77777887    888888888888777654   44444444444443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.20  E-value=3.5e-08  Score=94.00  Aligned_cols=336  Identities=10%  Similarity=-0.061  Sum_probs=211.4

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHC-----C--CCC-CHHHHHHHHHHHhcCCChhHHHHHHHHHHHC-----
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLD-----G--VQP-TRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN-----  105 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g--~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----  105 (445)
                      .....||.+-..+...|+.++|++.|++-.+.     +  ..| ...+|+.+-.++...|++++|...+++..+.     
T Consensus        49 ~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~  128 (472)
T 4g1t_A           49 FKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFS  128 (472)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSC
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcc
Confidence            34667899989999999999999999875431     1  123 4568999999999999999999999887642     


Q ss_pred             C-CC-CCHHHHHHHHHHHHc--cCCHHHHHHHHHHHHhCCCCcc-HHHHHHHHHH---HHHcCChhhHHHHHHHHHHcCC
Q 013323          106 G-FL-PDVAVYNYLISVCGK--CKNSDQAIRIFEEMKKYEVKPN-GQTYVCLLNA---CAAAGQLDPVYAIVRDMTAAGA  177 (445)
Q Consensus       106 g-~~-p~~~~~~~ll~~~~~--~g~~~~a~~~~~~m~~~g~~p~-~~~y~~li~~---~~~~g~~~~a~~~~~~m~~~g~  177 (445)
                      + .. ....+++.+-.++.+  .+++++|...|++..+.  .|+ ...+..+...   +...++.++|++.+++..+.. 
T Consensus       129 ~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-  205 (472)
T 4g1t_A          129 SPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-  205 (472)
T ss_dssp             CSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-
T ss_pred             cccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-
Confidence            1 11 234566665555554  45789999999998774  343 4444444443   445678889999998887753 


Q ss_pred             CCCHHHHHHHHHHHHccCCC--chHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccC
Q 013323          178 GLDKFCYAGLITAHTNKIPR--ADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSR  255 (445)
Q Consensus       178 ~p~~~~~~~li~~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  255 (445)
                      +.+..++..+-..+...+..  ..+.+.+.++......                                        +.
T Consensus       206 p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~----------------------------------------~~  245 (472)
T 4g1t_A          206 PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA----------------------------------------PG  245 (472)
T ss_dssp             SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC----------------------------------------SS
T ss_pred             CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC----------------------------------------cc
Confidence            23455555555555443321  2266777777655432                                        45


Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhc-------------------CChhhHHHHH
Q 013323          256 LLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSP-DVYIVMQNIRCYLHS-------------------GDIDNGHKVF  315 (445)
Q Consensus       256 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~-------------------g~~~~a~~~~  315 (445)
                      +...+..+-..+...|++++|...++...+.  .| +..++..+-..|...                   +..+.|...|
T Consensus       246 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~  323 (472)
T 4g1t_A          246 VTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHL  323 (472)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHH
Confidence            5667888888899999999999999987763  34 445566555554322                   2356677777


Q ss_pred             HHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcc--hhhHHHHHhhcccCCChhhHHHHHHH
Q 013323          316 EDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPR--MGSDLLLVAAGEKSGGYTTANYIWDL  392 (445)
Q Consensus       316 ~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~--~~~~ll~~~~~~~~g~~~~A~~~~~~  392 (445)
                      +...+... .+...+..+-.    .|...|. ++|.+.|++..+....|...  .+..+.. ....+.|++++|+..|++
T Consensus       324 ~~a~~~~~-~~~~~~~~lg~----~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~Ai~~y~k  397 (472)
T 4g1t_A          324 KKADEAND-NLFRVCSILAS----LHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGN-FQLYQMKCEDKAIHHFIE  397 (472)
T ss_dssp             HHHHHHCT-TTCCCHHHHHH----HHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHH-HHHHTSSCHHHHHHHHHH
T ss_pred             HHHhhcCC-chhhhhhhHHH----HHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHH-HHHHHCCCHHHHHHHHHH
Confidence            77665421 13334444444    4677777 99999999888765433221  1111111 112367889999888887


Q ss_pred             HHHCCC-----------------------CCCHHHHHHHHhhhhccCCCCCCCchh
Q 013323          393 MQARKI-----------------------TPSLPAVEAYYNGLKDREVPADDPRLV  425 (445)
Q Consensus       393 m~~~~~-----------------------~p~~~~~~~l~~~~~~~~~~~~a~~~l  425 (445)
                      ..+..-                       +.+..+|..+-..+...|..++|....
T Consensus       398 al~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y  453 (472)
T 4g1t_A          398 GVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDS  453 (472)
T ss_dssp             HHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC------
T ss_pred             HHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            764321                       123445565666666667777766543

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.15  E-value=2.7e-09  Score=95.39  Aligned_cols=171  Identities=12%  Similarity=0.083  Sum_probs=128.5

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHC------
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLD-------GVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN------  105 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------  105 (445)
                      .+..+|..+...+...|++++|..+|++..+.       ........+..+-..+...|++++|...+++..+.      
T Consensus        25 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  104 (311)
T 3nf1_A           25 ARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLG  104 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhC
Confidence            45677888999999999999999999998773       22234556788888899999999999999988764      


Q ss_pred             C-CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC------CCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHc--
Q 013323          106 G-FLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKY------EVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAA--  175 (445)
Q Consensus       106 g-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~------g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~--  175 (445)
                      + .+....++..+...|...|++++|...|++..+.      +-.| ....+..+...+...|++++|...|++..+.  
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 1234668888999999999999999999988753      2222 4567888889999999999999999988764  


Q ss_pred             ----CCCCC-HHHHHHHHHHHHccCCCchHHHHHHHHHHHH
Q 013323          176 ----GAGLD-KFCYAGLITAHTNKIPRADDTATKIIELVEQ  211 (445)
Q Consensus       176 ----g~~p~-~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~  211 (445)
                          +..|+ ..++..+...+...|+.  +.|...++....
T Consensus       185 ~~~~~~~~~~~~~~~~la~~~~~~g~~--~~A~~~~~~al~  223 (311)
T 3nf1_A          185 TKLGPDDPNVAKTKNNLASCYLKQGKF--KQAETLYKEILT  223 (311)
T ss_dssp             HTSCTTCHHHHHHHHHHHHHHHHHTCH--HHHHHHHHHHHH
T ss_pred             HHhCCCCHHHHHHHHHHHHHHHHcCCH--HHHHHHHHHHHH
Confidence                21222 34555666667777655  667777766553

>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=99.13  E-value=3.5e-08  Score=90.84  Aligned_cols=230  Identities=9%  Similarity=0.025  Sum_probs=166.6

Q ss_pred             HHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC-HHHHHHHHHHHHhCCCCccHHHHHHHHHH
Q 013323           77 DLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKN-SDQAIRIFEEMKKYEVKPNGQTYVCLLNA  155 (445)
Q Consensus        77 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~-~~~a~~~~~~m~~~g~~p~~~~y~~li~~  155 (445)
                      ..|..+-..+.+.|++++|+..|+...+.. +-+..+|+.+-.++.+.|+ +++|+..|++.....- -+...|..+-..
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P-~~~~a~~~~g~~  175 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCC-CCHHHHHHHHHH
Confidence            457777778888999999999999999865 2357889999999999996 9999999999987542 367889999999


Q ss_pred             HHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchh
Q 013323          156 CAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKE  235 (445)
Q Consensus       156 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  235 (445)
                      +...|++++|+..|++..+.. +-+...|..+-.++.+.|+.  +.+...++......                      
T Consensus       176 ~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~--~eAl~~~~~al~l~----------------------  230 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLW--DNELQYVDQLLKED----------------------  230 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCC--TTHHHHHHHHHHHC----------------------
T ss_pred             HHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCCh--HHHHHHHHHHHHhC----------------------
Confidence            999999999999999998864 22567777777777777776  77777777766542                      


Q ss_pred             hhcchhhhhHHhhhcCcccCchhHHHHHHHHHHh-cccHHHH-----HHHHHHHHhCCCCC-CHHHHHHHHHHHHhcC--
Q 013323          236 ELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAE-LKDVQAM-----ETLLEMLKKDRKSP-DVYIVMQNIRCYLHSG--  306 (445)
Q Consensus       236 ~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~-~g~~~~a-----~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g--  306 (445)
                                        +.+...|+.+-.++.+ .|..++|     ...++...+  +.| +...|+.+-..+...|  
T Consensus       231 ------------------P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~--l~P~~~~a~~~l~~ll~~~g~~  290 (382)
T 2h6f_A          231 ------------------VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIK--LVPHNESAWNYLKGILQDRGLS  290 (382)
T ss_dssp             ------------------TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHTTTCGG
T ss_pred             ------------------CCCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHccCcc
Confidence                              4556677777777777 4554555     355665554  334 4567777777777777  


Q ss_pred             ChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhh---------H-HHHHHHHHHH-HhC
Q 013323          307 DIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKG---------M-QLAQDTLVNM-NSR  359 (445)
Q Consensus       307 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g---------~-~~a~~~~~~m-~~~  359 (445)
                      ++++|.+.+.++ +. ...+...+..+..+    |.+.|         . ++|.++++++ .+.
T Consensus       291 ~~~~a~~~~~~~-~~-~p~~~~al~~La~~----~~~~~~~~~~~~~~~~~~A~~~~~~l~~~~  348 (382)
T 2h6f_A          291 KYPNLLNQLLDL-QP-SHSSPYLIAFLVDI----YEDMLENQCDNKEDILNKALELCEILAKEK  348 (382)
T ss_dssp             GCHHHHHHHHHH-TT-TCCCHHHHHHHHHH----HHHHHHTTCSSHHHHHHHHHHHHHHHHHTT
T ss_pred             chHHHHHHHHHh-cc-CCCCHHHHHHHHHH----HHHHhcccccchHHHHHHHHHHHHHHHHHh
Confidence            577888877776 22 22345555566553    33332         3 6777777776 443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.12  E-value=1e-08  Score=89.89  Aligned_cols=125  Identities=11%  Similarity=-0.026  Sum_probs=80.0

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcc--HHHHHHHHHHH
Q 013323           79 FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPN--GQTYVCLLNAC  156 (445)
Q Consensus        79 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~y~~li~~~  156 (445)
                      +...-..+...|++++|...|++..+.. +.+..+|..+..++.+.|++++|...|++..+.+-.|+  ..+|..+...+
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~   84 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKIL   84 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHH
Confidence            3344456677888888888888887754 12344777777788888888888888888776331121  33477777888


Q ss_pred             HHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHH
Q 013323          157 AAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIE  207 (445)
Q Consensus       157 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~  207 (445)
                      ...|++++|...|+...+... .+..++..+-..+...|+.  +.|...++
T Consensus        85 ~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~--~~A~~~~~  132 (272)
T 3u4t_A           85 MKKGQDSLAIQQYQAAVDRDT-TRLDMYGQIGSYFYNKGNF--PLAIQYME  132 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCH--HHHHHHHG
T ss_pred             HHcccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHccCH--HHHHHHHH
Confidence            888888888888887776421 1334444455555555433  44444444

>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=99.12  E-value=3.2e-08  Score=101.74  Aligned_cols=132  Identities=13%  Similarity=0.144  Sum_probs=98.4

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 013323           44 YNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGK  123 (445)
Q Consensus        44 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  123 (445)
                      ..-+-..+...|.+++|.++|++..     -.....+.++.   ..+++++|.++.+..      -+..+|..+-.++..
T Consensus      1052 ~~eIA~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~ 1117 (1630)
T 1xi4_A         1052 APDIANIAISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQ 1117 (1630)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHh
Confidence            3445677888999999999999852     22333444544   557889988888755      347788899999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCC
Q 013323          124 CKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPR  197 (445)
Q Consensus       124 ~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~  197 (445)
                      .|++++|.+.|.+-      -|...|.-++.+|.+.|++++|.+.|....+..  ++....+.+..+|++.++.
T Consensus      1118 ~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rl 1183 (1630)
T 1xi4_A         1118 KGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRL 1183 (1630)
T ss_pred             CCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCH
Confidence            99999999998653      467788889999999999999999998776654  3333344578888887654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.10  E-value=1.4e-09  Score=101.73  Aligned_cols=242  Identities=9%  Similarity=-0.073  Sum_probs=148.4

Q ss_pred             hhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCH----HHHHHHHHHHhcCCChhHHHHHHHHHHHC----CC-CCCHH
Q 013323           42 SEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTR----DLFHSLIVGTMKGSRLQDTFFFRDQMKAN----GF-LPDVA  112 (445)
Q Consensus        42 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~-~p~~~  112 (445)
                      ..+..+-..+...|++++|...|++..+.+. .+.    ..|..+-..+...|++++|...|++..+.    +- .....
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGT-EDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhcc-cChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            3444555678888999999999999887632 132    46777778888899999999998887653    21 12356


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhC----C-CCccHHHHHHHHHHHHHcCC-----------------hhhHHHHHH
Q 013323          113 VYNYLISVCGKCKNSDQAIRIFEEMKKY----E-VKPNGQTYVCLLNACAAAGQ-----------------LDPVYAIVR  170 (445)
Q Consensus       113 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g-~~p~~~~y~~li~~~~~~g~-----------------~~~a~~~~~  170 (445)
                      ++..+-..|...|++++|...|++....    + ......+|..+...|...|+                 +++|...++
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~  207 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQ  207 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            7888888899999999999998877642    1 11234578888888888888                 788877777


Q ss_pred             HHHHc----CCCC-CHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhH
Q 013323          171 DMTAA----GAGL-DKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEY  245 (445)
Q Consensus       171 ~m~~~----g~~p-~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  245 (445)
                      +..+.    +-.+ ...++..+-..+...|+.  +.|...++.......                               
T Consensus       208 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~--~~A~~~~~~al~~~~-------------------------------  254 (411)
T 4a1s_A          208 ENLKLMRDLGDRGAQGRACGNLGNTYYLLGDF--QAAIEHHQERLRIAR-------------------------------  254 (411)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHHH-------------------------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCh--HHHHHHHHHHHHHHH-------------------------------
Confidence            65432    1111 123444455555555544  556666555433210                               


Q ss_pred             HhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhC----CCC-CCHHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 013323          246 VHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKD----RKS-PDVYIVMQNIRCYLHSGDIDNGHKVFEDYIC  320 (445)
Q Consensus       246 ~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  320 (445)
                         ..+.......++..+...+...|++++|...+++..+.    +.. ....++..+...|...|++++|.+.|++...
T Consensus       255 ---~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  331 (411)
T 4a1s_A          255 ---EFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLA  331 (411)
T ss_dssp             ---HHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ---hcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               00000111224555666666666666666666654432    100 0134555566666666666666666665543

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.10  E-value=3.5e-09  Score=98.63  Aligned_cols=158  Identities=10%  Similarity=-0.081  Sum_probs=105.9

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCC-CCCC----
Q 013323          257 LTVYHVAFHACAELKDVQAMETLLEMLKKD----RKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSE-KFPP----  326 (445)
Q Consensus       257 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~----  326 (445)
                      ..++..+-..+...|++++|...+++..+.    +..+ ...++..+...|...|++++|...|+...... -.++    
T Consensus       187 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  266 (406)
T 3sf4_A          187 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVE  266 (406)
T ss_dssp             HHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHH
Confidence            456888888899999999999999877642    1111 13378888899999999999999999876541 1112    


Q ss_pred             HHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCC-CC----cchhhHHHHHhhcccCCChhhHHHHHHHHHH----C
Q 013323          327 AELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIF-LS----PRMGSDLLLVAAGEKSGGYTTANYIWDLMQA----R  396 (445)
Q Consensus       327 ~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~-p~----~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~----~  396 (445)
                      ..++..+-.    .|...|. ++|...+++..+..-. ++    ..++..+-..+.  +.|++++|...+++..+    .
T Consensus       267 ~~~~~~la~----~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~--~~g~~~~A~~~~~~al~~~~~~  340 (406)
T 3sf4_A          267 AQSCYSLGN----TYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYT--ALGNHDQAMHFAEKHLEISREV  340 (406)
T ss_dssp             HHHHHHHHH----HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH--HHTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHH----HHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHH--HcCCHHHHHHHHHHHHHHHHHh
Confidence            233444443    5677888 9999999887653211 11    234555555555  99999999999998763    2


Q ss_pred             CCCC-CHHHHHHHHhhhhccCCCCC
Q 013323          397 KITP-SLPAVEAYYNGLKDREVPAD  420 (445)
Q Consensus       397 ~~~p-~~~~~~~l~~~~~~~~~~~~  420 (445)
                      +-.| ...++..+...+...|....
T Consensus       341 ~~~~~~~~~~~~l~~~~~~~g~~~~  365 (406)
T 3sf4_A          341 GDKSGELTARLNLSDLQMVLGLSYS  365 (406)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHTTSC
T ss_pred             cCCcchhHHHHHHHHHHHHhhHhHH
Confidence            2222 23445556666777776643

>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=99.10  E-value=8e-08  Score=98.83  Aligned_cols=282  Identities=11%  Similarity=0.059  Sum_probs=143.2

Q ss_pred             hcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 013323           53 SQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIR  132 (445)
Q Consensus        53 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~  132 (445)
                      ..+++++|.++.++.      -+..+|..+-.++.+.|++++|.+.|...      -|...|..++.+|.+.|++++|.+
T Consensus      1088 ~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIe 1155 (1630)
T 1xi4_A         1088 HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVK 1155 (1630)
T ss_pred             HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHH
Confidence            445555555555533      12445555555555555555555555332      344455555555555555555555


Q ss_pred             HHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHh
Q 013323          133 IFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQS  212 (445)
Q Consensus       133 ~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~  212 (445)
                      +|..-.+..  +++...+.+..+|++.+++++.....    .   .|+...|..+-..|...|+.  +.|..+|......
T Consensus      1156 yL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~Y--eeA~~~Y~kA~ny 1224 (1630)
T 1xi4_A         1156 YLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMY--DAAKLLYNNVSNF 1224 (1630)
T ss_pred             HHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCH--HHHHHHHHhhhHH
Confidence            555444322  22222223555555555554322221    1   23334444444444444443  5555555543210


Q ss_pred             cCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCH
Q 013323          213 KGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDV  292 (445)
Q Consensus       213 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  292 (445)
                         ...            +.....+.....+....++    ..+..+|..+-.+|...|++..|......     +..+.
T Consensus      1225 ---~rL------------A~tLvkLge~q~AIEaarK----A~n~~aWkev~~acve~~Ef~LA~~cgl~-----Iiv~~ 1280 (1630)
T 1xi4_A         1225 ---GRL------------ASTLVHLGEYQAAVDGARK----ANSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHA 1280 (1630)
T ss_pred             ---HHH------------HHHHHHhCCHHHHHHHHHH----hCCHHHHHHHHHHHhhhhHHHHHHHHHHh-----hhcCH
Confidence               000            0000000000001111111    33456777778888888888877765443     34466


Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCC------Cc
Q 013323          293 YIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFL------SP  365 (445)
Q Consensus       293 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p------~~  365 (445)
                      ..+..++..|.+.|.+++|+++++.-.... +-....|+-|-..+  +-.+.+. .++.+.|..-  -+++|      +.
T Consensus      1281 deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLy--aKy~peklmEhlk~f~~r--ini~k~~r~~e~~ 1355 (1630)
T 1xi4_A         1281 DELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILY--SKFKPQKMREHLELFWSR--VNIPKVLRAAEQA 1355 (1630)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHH--HhCCHHHHHHHHHHHHHh--cccchHhHHHHHH
Confidence            677789999999999999999997765442 12233443333321  1223333 4455554422  12222      34


Q ss_pred             chhhHHHHHhhcccCCChhhHHH
Q 013323          366 RMGSDLLLVAAGEKSGGYTTANY  388 (445)
Q Consensus       366 ~~~~~ll~~~~~~~~g~~~~A~~  388 (445)
                      ..|.-+...|.  +.|+++.|..
T Consensus      1356 ~lW~elv~LY~--~~~e~dnA~~ 1376 (1630)
T 1xi4_A         1356 HLWAELVFLYD--KYEEYDNAII 1376 (1630)
T ss_pred             HHHHHHHHHHH--hcccHHHHHH
Confidence            56777777666  9999999973

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.08  E-value=4.6e-09  Score=94.78  Aligned_cols=241  Identities=11%  Similarity=-0.017  Sum_probs=146.5

Q ss_pred             hHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCC----HHHHHHHHHHHhcCCChhHHHHHHHHHHHC----CCCC-CHHH
Q 013323           43 EYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPT----RDLFHSLIVGTMKGSRLQDTFFFRDQMKAN----GFLP-DVAV  113 (445)
Q Consensus        43 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~  113 (445)
                      .+...-..+...|++++|...|++..+... .+    ...|..+...+...|++++|...+++..+.    +-.| ...+
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   85 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKA   85 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHH
Confidence            344455677888999999999999887532 13    356777888888999999999998886542    2122 2567


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhC----CCC-ccHHHHHHHHHHHHHcCC--------------------hhhHHHH
Q 013323          114 YNYLISVCGKCKNSDQAIRIFEEMKKY----EVK-PNGQTYVCLLNACAAAGQ--------------------LDPVYAI  168 (445)
Q Consensus       114 ~~~ll~~~~~~g~~~~a~~~~~~m~~~----g~~-p~~~~y~~li~~~~~~g~--------------------~~~a~~~  168 (445)
                      +..+-..+...|++++|...+++..+.    +-. ....++..+...+...|+                    +++|...
T Consensus        86 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~  165 (338)
T 3ro2_A           86 SGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDL  165 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHH
Confidence            888888999999999999998886542    111 114477888888888888                    7888777


Q ss_pred             HHHHHHc----CCCC-CHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhh
Q 013323          169 VRDMTAA----GAGL-DKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTA  243 (445)
Q Consensus       169 ~~~m~~~----g~~p-~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (445)
                      +++....    +-.| ...++..+-..+...|+.  +.+...++.......                             
T Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--~~A~~~~~~a~~~~~-----------------------------  214 (338)
T 3ro2_A          166 YEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNF--RDAVIAHEQRLLIAK-----------------------------  214 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCH--HHHHHHHHHHHHHHH-----------------------------
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCH--HHHHHHHHHHHHHHH-----------------------------
Confidence            7765432    1111 123444444555555544  556555554432100                             


Q ss_pred             hHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHH
Q 013323          244 EYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKD----RKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDY  318 (445)
Q Consensus       244 ~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m  318 (445)
                           ..+.......++..+...+...|++++|...++...+.    +..+ ...++..+...|...|++++|...++..
T Consensus       215 -----~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  289 (338)
T 3ro2_A          215 -----EFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKH  289 (338)
T ss_dssp             -----HHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             -----hcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence                 00000111234555666666666666666666654431    1111 1334555566666666666666666655


Q ss_pred             Hh
Q 013323          319 IC  320 (445)
Q Consensus       319 ~~  320 (445)
                      ..
T Consensus       290 ~~  291 (338)
T 3ro2_A          290 LA  291 (338)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.07  E-value=7.8e-09  Score=96.23  Aligned_cols=281  Identities=11%  Similarity=-0.028  Sum_probs=199.4

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCC----HHHHHHHHHHHhcCCChhHHHHHHHHHHHC----CCCC
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPT----RDLFHSLIVGTMKGSRLQDTFFFRDQMKAN----GFLP  109 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~p  109 (445)
                      .+....+...-..+...|++++|...|++..+.+. .+    ...|..+-..+...|++++|...+++..+.    +-.|
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            34556666777888999999999999999988632 23    346778888999999999999999986542    2222


Q ss_pred             -CHHHHHHHHHHHHccCCHHHHHHHHHHHHhC----C-CCccHHHHHHHHHHHHHcCC--------------------hh
Q 013323          110 -DVAVYNYLISVCGKCKNSDQAIRIFEEMKKY----E-VKPNGQTYVCLLNACAAAGQ--------------------LD  163 (445)
Q Consensus       110 -~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g-~~p~~~~y~~li~~~~~~g~--------------------~~  163 (445)
                       ...++..+-..|...|++++|...+++..+.    + ......++..+...+...|+                    ++
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~  164 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQ  164 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHH
Confidence             2567888899999999999999999887642    1 11124578888999999999                    99


Q ss_pred             hHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhc
Q 013323          164 PVYAIVRDMTAA----GAGLD-KFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELY  238 (445)
Q Consensus       164 ~a~~~~~~m~~~----g~~p~-~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  238 (445)
                      +|...+++..+.    +-.|. ..++..+-..+...|+.  +.|...++.......                        
T Consensus       165 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~--~~A~~~~~~al~~~~------------------------  218 (406)
T 3sf4_A          165 AAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNF--RDAVIAHEQRLLIAK------------------------  218 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBH--HHHHHHHHHHHHHHH------------------------
T ss_pred             HHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCH--HHHHHHHHHHHHHHH------------------------
Confidence            999998886542    21122 34566666777777765  888888877554210                        


Q ss_pred             chhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCChhhHHH
Q 013323          239 NLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKD----RKSPD-VYIVMQNIRCYLHSGDIDNGHK  313 (445)
Q Consensus       239 ~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~-~~~~~~li~~~~~~g~~~~a~~  313 (445)
                                ..+.......++..+...+...|++++|...++...+.    +..+. ..++..+...|...|++++|.+
T Consensus       219 ----------~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  288 (406)
T 3sf4_A          219 ----------EFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAID  288 (406)
T ss_dssp             ----------HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ----------hcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHH
Confidence                      00000122347888888999999999999999876542    21111 4578888999999999999999


Q ss_pred             HHHHHHhCC-CCCC----HHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhC
Q 013323          314 VFEDYICSE-KFPP----AELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSR  359 (445)
Q Consensus       314 ~~~~m~~~~-~~p~----~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~  359 (445)
                      .|+...... -.++    ..++..+-.    .|...|+ ++|.+.+++..+.
T Consensus       289 ~~~~a~~~~~~~~~~~~~~~~~~~la~----~~~~~g~~~~A~~~~~~al~~  336 (406)
T 3sf4_A          289 YHLKHLAIAQELNDRIGEGRACWSLGN----AYTALGNHDQAMHFAEKHLEI  336 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH----HHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHH----HHHHcCCHHHHHHHHHHHHHH
Confidence            999877541 1112    233444433    5677888 9999998886543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.06  E-value=1.4e-07  Score=84.53  Aligned_cols=127  Identities=12%  Similarity=0.043  Sum_probs=71.7

Q ss_pred             HHHHHHHHHHhcC----CCh----hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc-------cCCH-------HHHHHHH
Q 013323           77 DLFHSLIVGTMKG----SRL----QDTFFFRDQMKANGFLPDVAVYNYLISVCGK-------CKNS-------DQAIRIF  134 (445)
Q Consensus        77 ~~~~~ll~~~~~~----~~~----~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~-------~g~~-------~~a~~~~  134 (445)
                      ..|...+....+.    ++.    ++|..+|++..+.. +-+...|..+...+..       .|++       ++|..+|
T Consensus         9 ~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~   87 (308)
T 2ond_A            9 DMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIY   87 (308)
T ss_dssp             HHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHH
Confidence            4566666655443    222    56667777776643 2356677776666653       4664       6777777


Q ss_pred             HHHHhCCCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCC-HH-HHHHHHHHHHccCCCchHHHHHHHHHH
Q 013323          135 EEMKKYEVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLD-KF-CYAGLITAHTNKIPRADDTATKIIELV  209 (445)
Q Consensus       135 ~~m~~~g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~-~~~~li~~~~~~~~~~~~~a~~~~~~~  209 (445)
                      ++.... +.| +...|..+...+.+.|++++|..+|++..+.  .|+ .. .|..+...+.+.|+.  +.|..+|+..
T Consensus        88 ~rAl~~-~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~--~~A~~~~~~a  160 (308)
T 2ond_A           88 ERAIST-LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGI--KSGRMIFKKA  160 (308)
T ss_dssp             HHHHTT-TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCH--HHHHHHHHHH
T ss_pred             HHHHHH-hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCH--HHHHHHHHHH
Confidence            777652 123 3456777777777777777777777777663  232 11 344444444444433  4444444443

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.05  E-value=3.2e-09  Score=99.27  Aligned_cols=278  Identities=12%  Similarity=-0.052  Sum_probs=188.8

Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHHHhC----CC-CccHHH
Q 013323           78 LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDV----AVYNYLISVCGKCKNSDQAIRIFEEMKKY----EV-KPNGQT  148 (445)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g~-~p~~~~  148 (445)
                      .+..+-..+...|++++|...|++..+.+- .+.    .+|..+-..|...|++++|...|++..+.    +- .....+
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  128 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAGT-EDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKS  128 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhcc-cChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHH
Confidence            344555678889999999999999998642 232    57888999999999999999999987642    11 224567


Q ss_pred             HHHHHHHHHHcCChhhHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHccCC----------Cc-----hHHHHHHHHH
Q 013323          149 YVCLLNACAAAGQLDPVYAIVRDMTAA----GAGL-DKFCYAGLITAHTNKIP----------RA-----DDTATKIIEL  208 (445)
Q Consensus       149 y~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~li~~~~~~~~----------~~-----~~~a~~~~~~  208 (445)
                      |..+-..|...|++++|...+++..+.    +-.| ...++..+-..+...|+          ..     .+.+...++.
T Consensus       129 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~  208 (411)
T 4a1s_A          129 SGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQE  208 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHH
Confidence            888999999999999999999987653    2112 23455666666666664          10     2555555544


Q ss_pred             HHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCC
Q 013323          209 VEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRK  288 (445)
Q Consensus       209 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  288 (445)
                      .....                                  ...+.......++..+-..+...|++++|...+++..+...
T Consensus       209 al~~~----------------------------------~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  254 (411)
T 4a1s_A          209 NLKLM----------------------------------RDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAR  254 (411)
T ss_dssp             HHHHH----------------------------------HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHH----------------------------------HHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHH
Confidence            33210                                  00000022335677888889999999999999987764310


Q ss_pred             -CCC----HHHHHHHHHHHHhcCChhhHHHHHHHHHhCCC-CCC----HHHHHHHHHhHhhcCChhhH-HHHHHHHHHHH
Q 013323          289 -SPD----VYIVMQNIRCYLHSGDIDNGHKVFEDYICSEK-FPP----AELYATLVEGAMFGYTPKGM-QLAQDTLVNMN  357 (445)
Q Consensus       289 -~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~----~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~  357 (445)
                       .++    ..++..+...|...|++++|.+.|++...... ..+    ..++..+-.    .|...|+ ++|.+.+++..
T Consensus       255 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~----~~~~~g~~~~A~~~~~~al  330 (411)
T 4a1s_A          255 EFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGN----TYTLLHEFNTAIEYHNRHL  330 (411)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH----HHHHTTCHHHHHHHHHHHH
T ss_pred             hcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH----HHHHcCCHHHHHHHHHHHH
Confidence             112    23788889999999999999999998775411 111    234444444    5677787 99999998876


Q ss_pred             hCCCC-CC----cchhhHHHHHhhcccCCChhhHHHHHHHHHHC
Q 013323          358 SRNIF-LS----PRMGSDLLLVAAGEKSGGYTTANYIWDLMQAR  396 (445)
Q Consensus       358 ~~~~~-p~----~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~  396 (445)
                      +..-. ++    ..++..+...+.  +.|++++|...|++..+.
T Consensus       331 ~~~~~~~~~~~~~~~~~~la~~~~--~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          331 AIAQELGDRIGEARACWSLGNAHS--AIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHCCChHHHHHHHHHHHHHHH--HhccHHHHHHHHHHHHHH
Confidence            54211 11    224555555555  999999999999988753

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.04  E-value=6.6e-09  Score=93.76  Aligned_cols=276  Identities=12%  Similarity=-0.048  Sum_probs=184.4

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCc-cHHHH
Q 013323           79 FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD----VAVYNYLISVCGKCKNSDQAIRIFEEMKKY----EVKP-NGQTY  149 (445)
Q Consensus        79 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~y  149 (445)
                      +...-..+...|++++|...|++..+... .+    ...+..+...+...|++++|...+++....    +-.| ...++
T Consensus         8 l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   86 (338)
T 3ro2_A            8 LALEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKAS   86 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHH
Confidence            34445567889999999999999988641 22    467889999999999999999999886542    2122 35678


Q ss_pred             HHHHHHHHHcCChhhHHHHHHHHHHcC-CCCC----HHHHHHHHHHHHccCC-------------Cc-----hHHHHHHH
Q 013323          150 VCLLNACAAAGQLDPVYAIVRDMTAAG-AGLD----KFCYAGLITAHTNKIP-------------RA-----DDTATKII  206 (445)
Q Consensus       150 ~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~----~~~~~~li~~~~~~~~-------------~~-----~~~a~~~~  206 (445)
                      ..+...+...|++++|...+++..+.. -.++    ..++..+-..+...|+             ..     .+.+...+
T Consensus        87 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~  166 (338)
T 3ro2_A           87 GNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLY  166 (338)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHH
Confidence            889999999999999999999876531 0122    3355556666666554             00     24455555


Q ss_pred             HHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhC
Q 013323          207 ELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKD  286 (445)
Q Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  286 (445)
                      +......                                  ...+..+....++..+...+...|++++|...++...+.
T Consensus       167 ~~a~~~~----------------------------------~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  212 (338)
T 3ro2_A          167 EENLSLV----------------------------------TALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLI  212 (338)
T ss_dssp             HHHHHHH----------------------------------HHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHH----------------------------------HhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            4432210                                  000000223346778888899999999999999876542


Q ss_pred             ----CCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCC-CCCC----HHHHHHHHHhHhhcCChhhH-HHHHHHHHH
Q 013323          287 ----RKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSE-KFPP----AELYATLVEGAMFGYTPKGM-QLAQDTLVN  355 (445)
Q Consensus       287 ----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~----~~~~~~li~~~~~~~~~~g~-~~a~~~~~~  355 (445)
                          +..+ ...++..+...+...|++++|...+++..... -.++    ..++..+-.    .+...|. ++|...+++
T Consensus       213 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~----~~~~~g~~~~A~~~~~~  288 (338)
T 3ro2_A          213 AKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGN----TYTLLQDYEKAIDYHLK  288 (338)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH----HHHHTTCHHHHHHHHHH
T ss_pred             HHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHH----HHHHhcCHHHHHHHHHH
Confidence                1111 23378888899999999999999999876541 1112    233333333    4677787 999999888


Q ss_pred             HHhCCCC-CC----cchhhHHHHHhhcccCCChhhHHHHHHHHHH
Q 013323          356 MNSRNIF-LS----PRMGSDLLLVAAGEKSGGYTTANYIWDLMQA  395 (445)
Q Consensus       356 m~~~~~~-p~----~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~  395 (445)
                      ..+..-. .+    ..++..+...+.  +.|++++|...+++..+
T Consensus       289 a~~~~~~~~~~~~~~~~~~~la~~~~--~~g~~~~A~~~~~~a~~  331 (338)
T 3ro2_A          289 HLAIAQELKDRIGEGRACWSLGNAYT--ALGNHDQAMHFAEKHLE  331 (338)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHH--HHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHHH--HcCChHHHHHHHHHHHH
Confidence            7643211 11    224455555555  89999999999998875

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.02  E-value=7.7e-09  Score=92.41  Aligned_cols=137  Identities=8%  Similarity=0.013  Sum_probs=79.9

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhC-------
Q 013323          256 LLTVYHVAFHACAELKDVQAMETLLEMLKKD------RKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICS-------  321 (445)
Q Consensus       256 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-------  321 (445)
                      ....+..+...+...|++++|...++...+.      +..| ...++..+...|...|++++|.+.|++..+.       
T Consensus       152 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  231 (311)
T 3nf1_A          152 VAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFG  231 (311)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCC
Confidence            3456778888899999999999999987653      2234 3457888999999999999999999998753       


Q ss_pred             CCCCCHHHHHHHHHh---HhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHH
Q 013323          322 EKFPPAELYATLVEG---AMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQA  395 (445)
Q Consensus       322 ~~~p~~~~~~~li~~---~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~  395 (445)
                      ...+...........   ....+...+. ..+...+....... ..+..++..+...+.  +.|++++|...|++..+
T Consensus       232 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~la~~~~--~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          232 SVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDS-PTVTTTLKNLGALYR--RQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ------CCHHHHHHHHHHC-------CCSCCCC---------C-HHHHHHHHHHHHHHH--HHTCHHHHHHHHHHHHH
T ss_pred             CCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCC-chHHHHHHHHHHHHH--HCCCHHHHHHHHHHHHH
Confidence            111111111111111   0001122222 33334444433322 123345666666666  99999999999988764

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.02  E-value=9.3e-08  Score=78.34  Aligned_cols=167  Identities=13%  Similarity=0.029  Sum_probs=110.6

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHH
Q 013323          110 DVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLIT  189 (445)
Q Consensus       110 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  189 (445)
                      ++.+|..+-..|.+.|++++|++.|++..+.. +-+..+|..+...+.+.|++++|...++....... -+...+..+-.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDT-TSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc-hhHHHHHHHHH
Confidence            45666677777777777777777777766542 12456666677777777777777777776665432 23444444444


Q ss_pred             HHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHh
Q 013323          190 AHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAE  269 (445)
Q Consensus       190 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~  269 (445)
                      .+...++.  +.+...+.......                                        +.+...+..+-..+.+
T Consensus        82 ~~~~~~~~--~~a~~~~~~a~~~~----------------------------------------~~~~~~~~~lg~~~~~  119 (184)
T 3vtx_A           82 ANFMIDEK--QAAIDALQRAIALN----------------------------------------TVYADAYYKLGLVYDS  119 (184)
T ss_dssp             HHHHTTCH--HHHHHHHHHHHHHC----------------------------------------TTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCH--HHHHHHHHHHHHhC----------------------------------------ccchHHHHHHHHHHHH
Confidence            44444443  55555555544321                                        3455567777788888


Q ss_pred             cccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          270 LKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       270 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      .|++++|.+.|++..+.. +.+..+|..+-.+|.+.|++++|.+.|++..+.
T Consensus       120 ~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  170 (184)
T 3vtx_A          120 MGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEAVKYFKKALEK  170 (184)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             hCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHHHHHHHHHHhC
Confidence            889999998888877642 235667888888888999999999999887764

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.01  E-value=3.9e-08  Score=91.05  Aligned_cols=298  Identities=9%  Similarity=-0.036  Sum_probs=190.5

Q ss_pred             HHhcCcHhHHHHHHHHHHHC--CCCCCHH--HHHHHHHHH--hcCCChhHHH-----------HHHHHHHHCCCCCCHH-
Q 013323           51 LTSQRRFFLLRDVYDDMMLD--GVQPTRD--LFHSLIVGT--MKGSRLQDTF-----------FFRDQMKANGFLPDVA-  112 (445)
Q Consensus        51 ~~~~~~~~~a~~~~~~m~~~--g~~p~~~--~~~~ll~~~--~~~~~~~~a~-----------~~~~~m~~~g~~p~~~-  112 (445)
                      +.+.+++++|..++++..+.  .++.|..  .|-.++..-  .-.++++.+.           +.++.+....  .+.. 
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~--~~~~~   99 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQ--ARLTG   99 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHT--HHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcC--CCchh
Confidence            45689999999999998763  3434443  333333321  1123333333           6666665421  1111 


Q ss_pred             -----HHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHc--CCC--
Q 013323          113 -----VYNYLISVCGKCKNSDQAIRIFEEMKKY----EVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAA--GAG--  178 (445)
Q Consensus       113 -----~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~--g~~--  178 (445)
                           .+-..-..+...|++++|...|++....    +-.+ ...+|..+-..|...|++++|...+++..+.  ...  
T Consensus       100 ~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~  179 (383)
T 3ulq_A          100 LLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAY  179 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTT
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccc
Confidence                 1222445677899999999999998763    1112 3567889999999999999999999988652  111  


Q ss_pred             -C-CHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCc
Q 013323          179 -L-DKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRL  256 (445)
Q Consensus       179 -p-~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~  256 (445)
                       | ...++..+-..+...|+.  +.|...++.......                                  ..+.....
T Consensus       180 ~~~~~~~~~~lg~~~~~~g~~--~~A~~~~~~al~~~~----------------------------------~~~~~~~~  223 (383)
T 3ulq_A          180 NIRLLQCHSLFATNFLDLKQY--EDAISHFQKAYSMAE----------------------------------AEKQPQLM  223 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHHH----------------------------------HTTCHHHH
T ss_pred             hHHHHHHHHHHHHHHHHhcCH--HHHHHHHHHHHHHHH----------------------------------HcCChHHH
Confidence             1 134566677778888866  888888876554210                                  00000222


Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCC-CCCCHH--
Q 013323          257 LTVYHVAFHACAELKDVQAMETLLEMLKKD----RKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSE-KFPPAE--  328 (445)
Q Consensus       257 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~p~~~--  328 (445)
                      ..++..+-..|...|++++|...+++..+.    +..| ...++..+-..|.+.|++++|...+++..+.. -..+..  
T Consensus       224 ~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  303 (383)
T 3ulq_A          224 GRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYL  303 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            346888888999999999999999877652    3323 45678889999999999999999999876541 111222  


Q ss_pred             -HHHHHHHhHhhcCChhh----HHHHHHHHHHHHhCCCCCCc-chhhHHHHHhhcccCCChhhHHHHHHHHHH
Q 013323          329 -LYATLVEGAMFGYTPKG----MQLAQDTLVNMNSRNIFLSP-RMGSDLLLVAAGEKSGGYTTANYIWDLMQA  395 (445)
Q Consensus       329 -~~~~li~~~~~~~~~~g----~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~  395 (445)
                       .+..+-.    .|...|    .++|..++++.   +..|+. ..+..+-..+.  +.|++++|...|++..+
T Consensus       304 ~~~~~l~~----~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~--~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          304 SEFEFLKS----LYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKYYH--ERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHH----HHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHH----HHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHHH--HCCCHHHHHHHHHHHHH
Confidence             2233222    344444    26666666654   333332 24444555555  99999999999998873

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.01  E-value=1.9e-07  Score=88.88  Aligned_cols=340  Identities=9%  Similarity=-0.061  Sum_probs=169.7

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHC-----C-CCC-CHHHHHHHHHHHh--cCCChhHHHHHHHHHHHCCCCCC
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLD-----G-VQP-TRDLFHSLIVGTM--KGSRLQDTFFFRDQMKANGFLPD  110 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----g-~~p-~~~~~~~ll~~~~--~~~~~~~a~~~~~~m~~~g~~p~  110 (445)
                      ...+|+.+-..|...|++++|...+++..+.     + ..+ ...++...-.++.  ..+++++|...|+...+..  |+
T Consensus        93 ~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~--p~  170 (472)
T 4g1t_A           93 SLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK--PK  170 (472)
T ss_dssp             THHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS--TT
T ss_pred             HHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC--CC
Confidence            4678999999999999999999999877542     1 112 2345554444443  3467999999999998754  54


Q ss_pred             -HHHHHHHHHH---HHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHH----cCChhhHHHHHHHHHHcCCCCCHH
Q 013323          111 -VAVYNYLISV---CGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA----AGQLDPVYAIVRDMTAAGAGLDKF  182 (445)
Q Consensus       111 -~~~~~~ll~~---~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~  182 (445)
                       ...+..+..+   +...++.++|++.|++..+.. +.+..++..+...+..    .+++++|.+++++..... +.+..
T Consensus       171 ~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~  248 (472)
T 4g1t_A          171 NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTD  248 (472)
T ss_dssp             CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHH
T ss_pred             CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHH
Confidence             4455544444   445677888999888877643 2345566665555554    467789999999887754 34577


Q ss_pred             HHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcc--------------cchhhhcchhhhhHHhh
Q 013323          183 CYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMG--------------VSKEELYNLPTAEYVHR  248 (445)
Q Consensus       183 ~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~  248 (445)
                      ++..+-..+...|+.  +.+...++.......-...... .. ......              .................
T Consensus       249 ~~~~lg~~~~~~~~~--~~A~~~~~~al~~~p~~~~~~~-~l-g~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  324 (472)
T 4g1t_A          249 VLRSAAKFYRRKDEP--DKAIELLKKALEYIPNNAYLHC-QI-GCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLK  324 (472)
T ss_dssp             HHHHHHHHHHHTTCH--HHHHHHHHHHHHHSTTCHHHHH-HH-HHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCch--HHHHHHHHHHHHhCCChHHHHH-HH-HHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            788888888888866  8888888876654211110000 00 000000              00000000000000000


Q ss_pred             h-cCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHH--HHHHHHH-HHHhcCChhhHHHHHHHHHhCCCC
Q 013323          249 R-GGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVY--IVMQNIR-CYLHSGDIDNGHKVFEDYICSEKF  324 (445)
Q Consensus       249 ~-~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~--~~~~li~-~~~~~g~~~~a~~~~~~m~~~~~~  324 (445)
                      + ....+.+..++..+-..+...|++++|...|++..+....|...  .+..+.. .....|+.++|...|.+..+.  .
T Consensus       325 ~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i--~  402 (472)
T 4g1t_A          325 KADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI--N  402 (472)
T ss_dssp             HHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS--C
T ss_pred             HHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--C
Confidence            0 01112333445555555566666666666666555433222111  1111111 123445566666666555443  2


Q ss_pred             CCHHHHHHHHHhHhhcCChhhHHHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHHHHHHCC-CCCCHH
Q 013323          325 PPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWDLMQARK-ITPSLP  403 (445)
Q Consensus       325 p~~~~~~~li~~~~~~~~~~g~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~~m~~~~-~~p~~~  403 (445)
                      |+.......+            ..+.++++...+.+ +.++.+|..+-.++.  ..|++++|.+.|++-.+.+ ..|+..
T Consensus       403 ~~~~~~~~~~------------~~l~~~~~~~l~~~-p~~~~~~~~LG~~~~--~~g~~~~A~~~y~kALe~~~~~p~a~  467 (472)
T 4g1t_A          403 QKSREKEKMK------------DKLQKIAKMRLSKN-GADSEALHVLAFLQE--LNEKMQQADEDSERGLESGSLIPSAS  467 (472)
T ss_dssp             CCCHHHHHHH------------HHHHHHHHHHHHHC-C-CTTHHHHHHHHHH--HHHHCC--------------------
T ss_pred             cccHHHHHHH------------HHHHHHHHHHHHhC-CCCHHHHHHHHHHHH--HcCCHHHHHHHHHHHHhcCCCCCcHh
Confidence            2222111111            22333444433333 234567776666666  8999999999999988643 345554


Q ss_pred             H
Q 013323          404 A  404 (445)
Q Consensus       404 ~  404 (445)
                      +
T Consensus       468 ~  468 (472)
T 4g1t_A          468 S  468 (472)
T ss_dssp             -
T ss_pred             h
Confidence            4

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.99  E-value=2.8e-08  Score=94.77  Aligned_cols=215  Identities=8%  Similarity=-0.149  Sum_probs=163.1

Q ss_pred             HhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCCh-hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 013323           57 FFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRL-QDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFE  135 (445)
Q Consensus        57 ~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~-~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  135 (445)
                      ++++++.++..... -+.+...|..+-..+...|++ ++|.+.|++..+.. +-+...|..+-.+|.+.|++++|...|+
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            45566666655443 224677888888999999999 99999999998864 2358899999999999999999999999


Q ss_pred             HHHhCCCCccHHHHHHHHHHHHHc---------CChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc--------CCCc
Q 013323          136 EMKKYEVKPNGQTYVCLLNACAAA---------GQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNK--------IPRA  198 (445)
Q Consensus       136 ~m~~~g~~p~~~~y~~li~~~~~~---------g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~--------~~~~  198 (445)
                      +..+.  .|+...|..+-..+...         |++++|...|++..+.. +-+...+..+-.++...        |+. 
T Consensus       162 ~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~-  237 (474)
T 4abn_A          162 GALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKIS-  237 (474)
T ss_dssp             HHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHH-
T ss_pred             HHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchH-
Confidence            99886  47778899999999999         99999999999998864 23567777777777655        433 


Q ss_pred             hHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHH
Q 013323          199 DDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMET  278 (445)
Q Consensus       199 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~  278 (445)
                       +.|...++........                                     ...+...|..+-.++...|++++|..
T Consensus       238 -~~A~~~~~~al~~~p~-------------------------------------~~~~~~~~~~lg~~~~~~g~~~~A~~  279 (474)
T 4abn_A          238 -QQALSAYAQAEKVDRK-------------------------------------ASSNPDLHLNRATLHKYEESYGEALE  279 (474)
T ss_dssp             -HHHHHHHHHHHHHCGG-------------------------------------GGGCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             -HHHHHHHHHHHHhCCC-------------------------------------cccCHHHHHHHHHHHHHcCCHHHHHH
Confidence             7777777766553100                                     01466678888888888888888888


Q ss_pred             HHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHH
Q 013323          279 LLEMLKKDRKSP-DVYIVMQNIRCYLHSGDIDNGHKVFED  317 (445)
Q Consensus       279 ~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~  317 (445)
                      .|+...+.  .| +...+..+-..+...|++++|.+.+..
T Consensus       280 ~~~~al~l--~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          280 GFSQAAAL--DPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            88877663  34 455677777788888888887765543

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.94  E-value=8.3e-08  Score=91.46  Aligned_cols=210  Identities=8%  Similarity=-0.061  Sum_probs=164.1

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH-HHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHH
Q 013323           91 RLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNS-DQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIV  169 (445)
Q Consensus        91 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~-~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~  169 (445)
                      .++++...+++..... +.+...|..+-..+...|++ ++|++.|++..+.. +-+...|..+-..|.+.|++++|...|
T Consensus        83 ~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3566677777665543 34788999999999999999 99999999988753 234789999999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHcc---------CCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcch
Q 013323          170 RDMTAAGAGLDKFCYAGLITAHTNK---------IPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNL  240 (445)
Q Consensus       170 ~~m~~~g~~p~~~~~~~li~~~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  240 (445)
                      ++..+.  .|+...+..+-..+...         |+.  +.|...++......                           
T Consensus       161 ~~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~--~~A~~~~~~al~~~---------------------------  209 (474)
T 4abn_A          161 SGALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHV--MDSVRQAKLAVQMD---------------------------  209 (474)
T ss_dssp             HHHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHH--HHHHHHHHHHHHHC---------------------------
T ss_pred             HHHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhH--HHHHHHHHHHHHhC---------------------------
Confidence            999886  47777788888888777         654  77888887766542                           


Q ss_pred             hhhhHHhhhcCcccCchhHHHHHHHHHHhc--------ccHHHHHHHHHHHHhCCCCC----CHHHHHHHHHHHHhcCCh
Q 013323          241 PTAEYVHRRGGFLSRLLTVYHVAFHACAEL--------KDVQAMETLLEMLKKDRKSP----DVYIVMQNIRCYLHSGDI  308 (445)
Q Consensus       241 ~~~~~~~~~~g~~~~~~~~~~~li~~~~~~--------g~~~~a~~~~~~m~~~~~~p----~~~~~~~li~~~~~~g~~  308 (445)
                                   +.+...|..+-.++...        |++++|...|+...+.  .|    +...|..+-.+|...|++
T Consensus       210 -------------p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~lg~~~~~~g~~  274 (474)
T 4abn_A          210 -------------VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKV--DRKASSNPDLHLNRATLHKYEESY  274 (474)
T ss_dssp             -------------TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH--CGGGGGCHHHHHHHHHHHHHTTCH
T ss_pred             -------------CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHHHcCCH
Confidence                         45667888888889888        9999999999988874  34    677899999999999999


Q ss_pred             hhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHH
Q 013323          309 DNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTL  353 (445)
Q Consensus       309 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~  353 (445)
                      ++|.+.|+...+..- -+...+..+-.    .+...|. ++|.+.+
T Consensus       275 ~~A~~~~~~al~l~p-~~~~a~~~l~~----~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          275 GEALEGFSQAAALDP-AWPEPQQREQQ----LLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHH----HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhCC-CCHHHHHHHHH----HHHHHHHHHHHHHHh
Confidence            999999999887631 13444555544    3455565 6666544

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.93  E-value=1.9e-07  Score=76.50  Aligned_cols=132  Identities=11%  Similarity=0.032  Sum_probs=75.4

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLIS  119 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  119 (445)
                      +...|..+=..+.+.|++++|++.|++..+.. +-+..+|..+-..+.+.|++++|...++...... +.+...+..+-.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            44556666666666666666666666655532 1244455556666666666666666666665543 123445555555


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          120 VCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      .+...++++.+...+.+..... +-+...+..+-..+.+.|++++|.+.|++..+
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~  135 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTIS  135 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHH
Confidence            5666666666666666555432 12345555566666666666666666665554

>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=98.92  E-value=1.5e-07  Score=76.67  Aligned_cols=65  Identities=11%  Similarity=-0.056  Sum_probs=44.3

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          256 LLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       256 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      +...+..+...+...|++++|...++...+.. +.+...+..+...+...|++++|.+.++...+.
T Consensus       109 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A          109 NFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHFKKANEL  173 (186)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            33455666666777777777777777766542 234566777777777888888888877776553

>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=98.90  E-value=1.5e-07  Score=76.76  Aligned_cols=166  Identities=11%  Similarity=-0.010  Sum_probs=139.9

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISV  120 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  120 (445)
                      ...|..+...+...|++++|.+.|+...+.. +.+...+..+...+...|++++|...++...+.. +.+..++..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            3456777888999999999999999887643 3467788889999999999999999999998764 3467889999999


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchH
Q 013323          121 CGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADD  200 (445)
Q Consensus       121 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~  200 (445)
                      +...|++++|...|++..... +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|+.  +
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~--~  161 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRH--E  161 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH--H
T ss_pred             HHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCH--H
Confidence            999999999999999988753 3467889999999999999999999999998864 34678888888889888866  8


Q ss_pred             HHHHHHHHHHHh
Q 013323          201 TATKIIELVEQS  212 (445)
Q Consensus       201 ~a~~~~~~~~~~  212 (445)
                      .|...++.....
T Consensus       162 ~A~~~~~~~~~~  173 (186)
T 3as5_A          162 EALPHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc
Confidence            899888876654

>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=98.88  E-value=1.1e-07  Score=72.99  Aligned_cols=131  Identities=11%  Similarity=0.096  Sum_probs=111.5

Q ss_pred             hhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 013323           42 SEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVC  121 (445)
Q Consensus        42 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  121 (445)
                      .+|..+...+...|++++|..+|+++.+.+ +.+...+..+...+...|++++|...++++.+.+ +.+...+..+...+
T Consensus         2 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            2 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHH
Confidence            357788889999999999999999998754 2467778888888999999999999999998765 34677888999999


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHc
Q 013323          122 GKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       122 ~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      .+.|++++|..+++++.... +.+..++..+...+.+.|++++|...++++.+.
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            99999999999999988753 235778889999999999999999999998765

>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=98.84  E-value=4.8e-08  Score=85.77  Aligned_cols=30  Identities=13%  Similarity=0.029  Sum_probs=24.7

Q ss_pred             chhHHHHHHHHHHhcccHHHHHHHHHHHHh
Q 013323          256 LLTVYHVAFHACAELKDVQAMETLLEMLKK  285 (445)
Q Consensus       256 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  285 (445)
                      ...++..+...+...|++++|...++...+
T Consensus       168 ~~~~~~~la~~~~~~g~~~~A~~~~~~~l~  197 (283)
T 3edt_B          168 VAKTKNNLASCYLKQGKYQDAETLYKEILT  197 (283)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345678888889999999999999987764

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.83  E-value=1.2e-06  Score=80.76  Aligned_cols=313  Identities=9%  Similarity=-0.069  Sum_probs=194.9

Q ss_pred             CCChhhHHHHHHHH--HhcCcHhHHHHHHHHHHHC--CCCCCHH--HHHHHHHHH--hcCCChhH---------HHHHHH
Q 013323           38 ANNASEYNTVVTSL--TSQRRFFLLRDVYDDMMLD--GVQPTRD--LFHSLIVGT--MKGSRLQD---------TFFFRD  100 (445)
Q Consensus        38 ~p~~~~~~~li~~~--~~~~~~~~a~~~~~~m~~~--g~~p~~~--~~~~ll~~~--~~~~~~~~---------a~~~~~  100 (445)
                      .|+...=+.+-..|  .+.+++++|.+++++..+.  .++.|..  .|-.++..-  .-.+..+.         ..+.++
T Consensus         7 ~~~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~   86 (378)
T 3q15_A            7 IPSSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLE   86 (378)
T ss_dssp             BCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHH
Confidence            45555656666666  7899999999999987662  3333333  334443321  11122222         226666


Q ss_pred             HHHHCCCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHHHhCC-CCc----cHHHHHHHHHHHHHcCChhhHHHHHHH
Q 013323          101 QMKANGFLPDV----AVYNYLISVCGKCKNSDQAIRIFEEMKKYE-VKP----NGQTYVCLLNACAAAGQLDPVYAIVRD  171 (445)
Q Consensus       101 ~m~~~g~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g-~~p----~~~~y~~li~~~~~~g~~~~a~~~~~~  171 (445)
                      .+.....+.+.    ..|-..-..+...|++++|...|++....- -.+    ...+|..+-..|...|++++|...+++
T Consensus        87 ~i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~  166 (378)
T 3q15_A           87 TIETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQ  166 (378)
T ss_dssp             HHHGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHhccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHH
Confidence            66542211111    122233345678999999999999987541 112    256788899999999999999999998


Q ss_pred             HHHc--CC---CC-CHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhH
Q 013323          172 MTAA--GA---GL-DKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEY  245 (445)
Q Consensus       172 m~~~--g~---~p-~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  245 (445)
                      ..+.  ..   .+ ...++..+-..+...|+.  +.|...++......                                
T Consensus       167 al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~--~~A~~~~~~al~~~--------------------------------  212 (378)
T 3q15_A          167 ALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHY--DKALPHLEAALELA--------------------------------  212 (378)
T ss_dssp             HHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHH--------------------------------
T ss_pred             HHHHHHhCCCchhhHHHHHHHHHHHHHHhCCH--HHHHHHHHHHHHHH--------------------------------
Confidence            7652  11   11 245566677778888866  88888887655421                                


Q ss_pred             HhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhC----CCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          246 VHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKD----RKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       246 ~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                        ...+.......++..+-..+...|++++|...+++..+.    +.+....++..+-..|.+.|++++|...++...+.
T Consensus       213 --~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  290 (378)
T 3q15_A          213 --MDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDH  290 (378)
T ss_dssp             --HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             --HHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence              000100122346778888899999999999999977651    22223667888999999999999999999998765


Q ss_pred             CC---CCCH-HHHHHHHHhHhhcCChhh---H-HHHHHHHHHHHhCCCCCCcc-hhhHHHHHhhcccCCChhhHHHHHHH
Q 013323          322 EK---FPPA-ELYATLVEGAMFGYTPKG---M-QLAQDTLVNMNSRNIFLSPR-MGSDLLLVAAGEKSGGYTTANYIWDL  392 (445)
Q Consensus       322 ~~---~p~~-~~~~~li~~~~~~~~~~g---~-~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~g~~~~A~~~~~~  392 (445)
                      ..   .|.. ..+.. +..   .|...+   . .+|...+++   .+..|+.. .+..+-..+.  +.|++++|...|++
T Consensus       291 ~~~~~~~~~~~~~~~-l~~---ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y~--~~g~~~~A~~~~~~  361 (378)
T 3q15_A          291 ITARSHKFYKELFLF-LQA---VYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVFE--SSCHFEQAAAFYRK  361 (378)
T ss_dssp             CCTTCCSCHHHHHHH-HHH---HHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHH--HTTCHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHH-HHH---HHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHHH--HCCCHHHHHHHHHH
Confidence            21   1222 22322 222   233333   2 556666554   33333322 3334444444  99999999999988


Q ss_pred             HHH
Q 013323          393 MQA  395 (445)
Q Consensus       393 m~~  395 (445)
                      ..+
T Consensus       362 al~  364 (378)
T 3q15_A          362 VLK  364 (378)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            763

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.80  E-value=3.5e-06  Score=77.43  Aligned_cols=271  Identities=13%  Similarity=-0.057  Sum_probs=178.5

Q ss_pred             HHHHHHhcCcHhHHHHHHHHHHHCCCCCCHH----HHHHHHHHHhcCCChhHHHHHHHHHHHC----CCC-CCHHHHHHH
Q 013323           47 VVTSLTSQRRFFLLRDVYDDMMLDGVQPTRD----LFHSLIVGTMKGSRLQDTFFFRDQMKAN----GFL-PDVAVYNYL  117 (445)
Q Consensus        47 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~-p~~~~~~~l  117 (445)
                      .-..+...|++++|...+++.....-..+..    .++.+-..+...|++++|...+++..+.    |.. ....+++.+
T Consensus        20 ~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   99 (373)
T 1hz4_A           20 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   99 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            3345667899999999999987754222322    3555566778899999999999987642    211 012346777


Q ss_pred             HHHHHccCCHHHHHHHHHHHHhC----CCC--c-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCC--C--CHHHHHH
Q 013323          118 ISVCGKCKNSDQAIRIFEEMKKY----EVK--P-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAG--L--DKFCYAG  186 (445)
Q Consensus       118 l~~~~~~g~~~~a~~~~~~m~~~----g~~--p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~--p--~~~~~~~  186 (445)
                      -..+...|++++|...+++....    +..  | ....+..+-..+...|++++|...+++.....-.  +  ...++..
T Consensus       100 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  179 (373)
T 1hz4_A          100 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  179 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHH
Confidence            88899999999999999887642    222  3 3456677888899999999999999998764221  1  2355666


Q ss_pred             HHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHH--HHHH
Q 013323          187 LITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVY--HVAF  264 (445)
Q Consensus       187 li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~--~~li  264 (445)
                      +-..+...|+.  +.|...++.........                                  +. ++.....  ....
T Consensus       180 la~~~~~~g~~--~~A~~~l~~a~~~~~~~----------------------------------~~-~~~~~~~~~~~~~  222 (373)
T 1hz4_A          180 LIQCSLARGDL--DNARSQLNRLENLLGNG----------------------------------KY-HSDWISNANKVRV  222 (373)
T ss_dssp             HHHHHHHHTCH--HHHHHHHHHHHHHHTTS----------------------------------CC-CHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCH--HHHHHHHHHHHHHHhcc----------------------------------Cc-chhHHHHHHHHHH
Confidence            66777777866  88888888765431100                                  00 0000011  1233


Q ss_pred             HHHHhcccHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCChhhHHHHHHHHHhC----CCCCCHH-HHHHHHHh
Q 013323          265 HACAELKDVQAMETLLEMLKKDRKSP---DVYIVMQNIRCYLHSGDIDNGHKVFEDYICS----EKFPPAE-LYATLVEG  336 (445)
Q Consensus       265 ~~~~~~g~~~~a~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~~-~~~~li~~  336 (445)
                      ..+...|+.++|...+.........+   ....+..+...+...|++++|...++.....    |..++.. .+..+-. 
T Consensus       223 ~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~-  301 (373)
T 1hz4_A          223 IYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQ-  301 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-
T ss_pred             HHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHH-
Confidence            44778999999999998876533211   1235667788899999999999999987653    2111121 2222222 


Q ss_pred             HhhcCChhhH-HHHHHHHHHHHh
Q 013323          337 AMFGYTPKGM-QLAQDTLVNMNS  358 (445)
Q Consensus       337 ~~~~~~~~g~-~~a~~~~~~m~~  358 (445)
                         .+...|+ ++|...+++...
T Consensus       302 ---~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          302 ---LYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             ---HHHHHTCHHHHHHHHHHHHH
T ss_pred             ---HHHHhCCHHHHHHHHHHHHH
Confidence               4567777 888888887654

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.77  E-value=5.3e-07  Score=83.38  Aligned_cols=233  Identities=11%  Similarity=0.007  Sum_probs=167.2

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHhcCCChhHHHHHHHHHHHC--CC---C-CCHHHHHH
Q 013323           48 VTSLTSQRRFFLLRDVYDDMMLD----GVQP-TRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN--GF---L-PDVAVYNY  116 (445)
Q Consensus        48 i~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--g~---~-p~~~~~~~  116 (445)
                      -..+...|++++|.+.|++..+.    +-.+ ...+|..+-..+...|+++.|...+++..+.  ..   . ....+++.
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            34567789999999999998763    1112 2346778888899999999999999987753  11   1 12467888


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhC----CCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHc----CC-CCCHHHHHH
Q 013323          117 LISVCGKCKNSDQAIRIFEEMKKY----EVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAA----GA-GLDKFCYAG  186 (445)
Q Consensus       117 ll~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~----g~-~p~~~~~~~  186 (445)
                      +-..|...|++++|...|++..+.    +-.+ ...+|..+-..|...|++++|...|++..+.    +. +....++..
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            999999999999999999887642    1111 2357888999999999999999999998762    33 334667777


Q ss_pred             HHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHH
Q 013323          187 LITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHA  266 (445)
Q Consensus       187 li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~  266 (445)
                      +-..+.+.|+.  +.|...++.......                                  ..+. +.....+..+-..
T Consensus       270 l~~~~~~~g~~--~~A~~~~~~al~~~~----------------------------------~~~~-~~~~~~~~~l~~~  312 (383)
T 3ulq_A          270 ITQIHYKLGKI--DKAHEYHSKGMAYSQ----------------------------------KAGD-VIYLSEFEFLKSL  312 (383)
T ss_dssp             HHHHHHHTTCH--HHHHHHHHHHHHHHH----------------------------------HHTC-HHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCH--HHHHHHHHHHHHHHH----------------------------------HcCC-HHHHHHHHHHHHH
Confidence            88888888866  888888877554210                                  0000 1112235667777


Q ss_pred             HHhccc---HHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 013323          267 CAELKD---VQAMETLLEMLKKDRKSPD-VYIVMQNIRCYLHSGDIDNGHKVFEDYIC  320 (445)
Q Consensus       267 ~~~~g~---~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  320 (445)
                      +...|+   +++|..+++..   +..|+ ...+..+-..|...|++++|.+.|+...+
T Consensus       313 ~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          313 YLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            788888   66666666554   34443 34677788999999999999999998765

>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=98.72  E-value=2.2e-07  Score=81.52  Aligned_cols=134  Identities=11%  Similarity=0.110  Sum_probs=70.4

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHC------CCCC-CHHHHHHHHHHHhcCCChhHHHHHHHHHHHC------C-
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLD------GVQP-TRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN------G-  106 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------g-  106 (445)
                      ..+|..+-..+...|++++|.+.|++..+.      +-.| ...+|..+-..+...|++++|...|++..+.      . 
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  122 (283)
T 3edt_B           43 ATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKF  122 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCC
Confidence            445555555666666666666666555442      1112 2334555555566666666666666655442      0 


Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC------CCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          107 FLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKY------EVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       107 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~------g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      -+....++..+...|...|++++|..+|++....      +-.| ...++..+...+...|++++|...+++..+
T Consensus       123 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~  197 (283)
T 3edt_B          123 HPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILT  197 (283)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            0122445555556666666666666666655432      1112 234555555666666666666666665544

>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=98.70  E-value=1.1e-06  Score=87.40  Aligned_cols=162  Identities=9%  Similarity=0.014  Sum_probs=102.5

Q ss_pred             HHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCc-cHHHHHHHHHH
Q 013323           77 DLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKP-NGQTYVCLLNA  155 (445)
Q Consensus        77 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~y~~li~~  155 (445)
                      ..|+.|-..+.+.|++++|.+.|++..+.. +-+..+|+.+-.+|.+.|++++|+..|++..+.  .| +...|..+-..
T Consensus        10 ~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg~~   86 (723)
T 4gyw_A           10 DSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            345555555555666666666665555532 113455555555555566666666555555543  22 24455555555


Q ss_pred             HHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchh
Q 013323          156 CAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKE  235 (445)
Q Consensus       156 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  235 (445)
                      +.+.|++++|.+.|++..+..                                                           
T Consensus        87 l~~~g~~~~A~~~~~kAl~l~-----------------------------------------------------------  107 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQIN-----------------------------------------------------------  107 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-----------------------------------------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-----------------------------------------------------------
Confidence            555555555555555444321                                                           


Q ss_pred             hhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHH
Q 013323          236 ELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSP-DVYIVMQNIRCYLHSGDIDNGHKV  314 (445)
Q Consensus       236 ~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~  314 (445)
                                        +.+...|+.+-..+...|++++|...|++..+.  .| +...|..+..+|...|++++|.+.
T Consensus       108 ------------------P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g~~~~A~~~  167 (723)
T 4gyw_A          108 ------------------PAFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVCDWTDYDER  167 (723)
T ss_dssp             ------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCCTTHHHH
T ss_pred             ------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcccHHHHHHH
Confidence                              334556777888888889999999999887763  45 466788889999999999999888


Q ss_pred             HHHHHh
Q 013323          315 FEDYIC  320 (445)
Q Consensus       315 ~~~m~~  320 (445)
                      |++..+
T Consensus       168 ~~kal~  173 (723)
T 4gyw_A          168 MKKLVS  173 (723)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            887654

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.70  E-value=6.7e-06  Score=75.51  Aligned_cols=269  Identities=9%  Similarity=-0.068  Sum_probs=175.1

Q ss_pred             HHHhcCCChhHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCC-ccHHHHHHHHH
Q 013323           84 VGTMKGSRLQDTFFFRDQMKANGFLPDV----AVYNYLISVCGKCKNSDQAIRIFEEMKKY----EVK-PNGQTYVCLLN  154 (445)
Q Consensus        84 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g~~-p~~~~y~~li~  154 (445)
                      ..+...|++++|...+++.....-..+.    .+++.+-..+...|++++|...+++....    |.. ....++..+-.
T Consensus        22 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  101 (373)
T 1hz4_A           22 QVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE  101 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            3456789999999999998875422222    25667778888999999999999887642    211 11234667778


Q ss_pred             HHHHcCChhhHHHHHHHHHHc----CCC--CC-HHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccch
Q 013323          155 ACAAAGQLDPVYAIVRDMTAA----GAG--LD-KFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAEN  227 (445)
Q Consensus       155 ~~~~~g~~~~a~~~~~~m~~~----g~~--p~-~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  227 (445)
                      .+...|++++|...+++..+.    +..  |. ...+..+-..+...|+.  +.+...++.......-.           
T Consensus       102 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~--~~A~~~~~~al~~~~~~-----------  168 (373)
T 1hz4_A          102 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARL--DEAEASARSGIEVLSSY-----------  168 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHTTTS-----------
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCH--HHHHHHHHHHHHHhhcc-----------
Confidence            889999999999999987652    322  32 34455566677777866  88888888765432100           


Q ss_pred             hhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCC--HHHHH----HHHHH
Q 013323          228 EMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPD--VYIVM----QNIRC  301 (445)
Q Consensus       228 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~----~li~~  301 (445)
                                             |. .....+|..+-..+...|++++|...++......-.++  .....    .....
T Consensus       169 -----------------------~~-~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~  224 (373)
T 1hz4_A          169 -----------------------QP-QQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIY  224 (373)
T ss_dssp             -----------------------CG-GGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHH
T ss_pred             -----------------------Cc-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHH
Confidence                                   00 11234677788889999999999999998764311111  12111    23345


Q ss_pred             HHhcCChhhHHHHHHHHHhCCCCCC---HHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhC----CCCCCcc-hhhHHH
Q 013323          302 YLHSGDIDNGHKVFEDYICSEKFPP---AELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSR----NIFLSPR-MGSDLL  372 (445)
Q Consensus       302 ~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~----~~~p~~~-~~~~ll  372 (445)
                      +...|++++|...++........++   ...+..+..    .+...|. ++|...+++....    +..++.. .+..+-
T Consensus       225 ~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~----~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la  300 (373)
T 1hz4_A          225 WQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIAR----AQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLN  300 (373)
T ss_dssp             HHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHH----HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHH----HHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHH
Confidence            7799999999999988765432211   123333333    4567777 8999988877543    2111111 333333


Q ss_pred             HHhhcccCCChhhHHHHHHHHHH
Q 013323          373 LVAAGEKSGGYTTANYIWDLMQA  395 (445)
Q Consensus       373 ~~~~~~~~g~~~~A~~~~~~m~~  395 (445)
                      .++.  ..|+.++|...+++...
T Consensus       301 ~~~~--~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          301 QLYW--QAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHH--HHTCHHHHHHHHHHHHH
T ss_pred             HHHH--HhCCHHHHHHHHHHHHH
Confidence            3344  89999999999988763

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.69  E-value=4.2e-06  Score=73.43  Aligned_cols=214  Identities=9%  Similarity=0.031  Sum_probs=143.5

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 013323           48 VTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNS  127 (445)
Q Consensus        48 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  127 (445)
                      .+++.-.|+....         ..-.|....+..+...+ ..+    |...|++..+.+ .++..++..+-.++...|++
T Consensus        52 ~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~----a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~  116 (310)
T 3mv2_B           52 AKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK----NIEELENLLKDK-QNSPYELYLLATAQAILGDL  116 (310)
T ss_dssp             HHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT----CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc----HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCH
Confidence            3666666665531         11234443444444333 222    677788777665 46666667888899999999


Q ss_pred             HHHHHHHHHHHhCCC-CccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCC-----CHHHHHHHHHHHHc--cCCCch
Q 013323          128 DQAIRIFEEMKKYEV-KPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGL-----DKFCYAGLITAHTN--KIPRAD  199 (445)
Q Consensus       128 ~~a~~~~~~m~~~g~-~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-----~~~~~~~li~~~~~--~~~~~~  199 (445)
                      ++|++++.+....|- .-+...+...+..+.+.|+.+.|.+.++.|.+.  .|     +..+...+..++..  .|....
T Consensus       117 eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~  194 (310)
T 3mv2_B          117 DKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--IEDTVSGDNEMILNLAESYIKFATNKETA  194 (310)
T ss_dssp             HHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTT
T ss_pred             HHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CccccccchHHHHHHHHHHHHHHhCCccH
Confidence            999999999876553 236788899999999999999999999999875  45     35666666666332  232233


Q ss_pred             HHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHH
Q 013323          200 DTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETL  279 (445)
Q Consensus       200 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~  279 (445)
                      ..+..+|+.+...                                         .|+..+-..++.++.+.|++++|+++
T Consensus       195 q~A~~~f~El~~~-----------------------------------------~p~~~~~~lLln~~~~~g~~~eAe~~  233 (310)
T 3mv2_B          195 TSNFYYYEELSQT-----------------------------------------FPTWKTQLGLLNLHLQQRNIAEAQGI  233 (310)
T ss_dssp             THHHHHHHHHHTT-----------------------------------------SCSHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHh-----------------------------------------CCCcccHHHHHHHHHHcCCHHHHHHH
Confidence            7788888887653                                         34322333444478888999999999


Q ss_pred             HHHHHhC-----CC---CC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          280 LEMLKKD-----RK---SP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       280 ~~~m~~~-----~~---~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      ++.+.+.     ..   .| |..++..+|......|+  +|.+++.++.+.
T Consensus       234 L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          234 VELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             HHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             HHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence            8876542     11   24 56677566666666676  778888888775

>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=98.69  E-value=1.1e-05  Score=79.46  Aligned_cols=136  Identities=8%  Similarity=0.079  Sum_probs=103.7

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCC---hhHHHHHHHHHHHCC-CCCCHHH
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSR---LQDTFFFRDQMKANG-FLPDVAV  113 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~---~~~a~~~~~~m~~~g-~~p~~~~  113 (445)
                      .-|...|..+|..+.+.+.++.+..+|+.+... ++.+...|...+..-.+.++   .+.+..+|+...... ..|++..
T Consensus        63 p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~L  141 (679)
T 4e6h_A           63 PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSL  141 (679)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHH
T ss_pred             cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHH
Confidence            358889999999999999999999999999876 55567789988988888888   999999999998864 2488889


Q ss_pred             HHHHHHHHHccCCH--------HHHHHHHHHHHh-CCC-Ccc-HHHHHHHHHHHHH---------cCChhhHHHHHHHHH
Q 013323          114 YNYLISVCGKCKNS--------DQAIRIFEEMKK-YEV-KPN-GQTYVCLLNACAA---------AGQLDPVYAIVRDMT  173 (445)
Q Consensus       114 ~~~ll~~~~~~g~~--------~~a~~~~~~m~~-~g~-~p~-~~~y~~li~~~~~---------~g~~~~a~~~~~~m~  173 (445)
                      |..-+.-..+.++.        +.+.++|+.... -|. .|+ ...|...+.-...         .++++.+..+|+...
T Consensus       142 W~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL  221 (679)
T 4e6h_A          142 WLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLL  221 (679)
T ss_dssp             HHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHH
Confidence            99888876665543        344577877554 476 554 4678877765442         345677888998888


Q ss_pred             H
Q 013323          174 A  174 (445)
Q Consensus       174 ~  174 (445)
                      .
T Consensus       222 ~  222 (679)
T 4e6h_A          222 C  222 (679)
T ss_dssp             T
T ss_pred             h
Confidence            5

>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=98.68  E-value=4.6e-06  Score=70.72  Aligned_cols=150  Identities=10%  Similarity=-0.014  Sum_probs=115.7

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLI  118 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  118 (445)
                      .|+..|...-..+...|++++|.+.|+...+..-.++...+..+-.++...|++++|...|+...+.. +-+..+|..+-
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHH
Confidence            35577777888888999999999999998886544677777778888889999999999999998865 22567888899


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCccH-------HHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCC---HHHHHHHH
Q 013323          119 SVCGKCKNSDQAIRIFEEMKKYEVKPNG-------QTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLD---KFCYAGLI  188 (445)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~-------~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~~~~~li  188 (445)
                      ..|.+.|++++|...|++..+... .+.       ..|..+-..+...|++++|...|++..+.  .|+   ...+..+-
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHH
Confidence            999999999999999998876421 123       45777778888899999999999988875  354   23444444


Q ss_pred             HHHH
Q 013323          189 TAHT  192 (445)
Q Consensus       189 ~~~~  192 (445)
                      ..+.
T Consensus       161 ~~~~  164 (228)
T 4i17_A          161 VLFY  164 (228)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>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=98.66  E-value=2e-06  Score=85.69  Aligned_cols=163  Identities=10%  Similarity=0.034  Sum_probs=138.8

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQP-TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLI  118 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  118 (445)
                      +..+|+.+=..+.+.|++++|++.|++..+..  | +...|..+-.++.+.|++++|...|++..+.. +-+...|+.+-
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~--P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg   84 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            36789999999999999999999999988753  5 46789999999999999999999999998864 23578999999


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCCC
Q 013323          119 SVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGL-DKFCYAGLITAHTNKIPR  197 (445)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~~  197 (445)
                      .+|.+.|++++|++.|++..+.. +-+...|+.+-..+.+.|++++|++.|++..+..  | +...+..+...+...|+.
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~--P~~~~a~~~L~~~l~~~g~~  161 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK--PDFPDAYCNLAHCLQIVCDW  161 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHhhhhhHHHhcccH
Confidence            99999999999999999988743 1257889999999999999999999999998853  4 477888899999988877


Q ss_pred             chHHHHHHHHHHH
Q 013323          198 ADDTATKIIELVE  210 (445)
Q Consensus       198 ~~~~a~~~~~~~~  210 (445)
                        +.|.+.++...
T Consensus       162 --~~A~~~~~kal  172 (723)
T 4gyw_A          162 --TDYDERMKKLV  172 (723)
T ss_dssp             --TTHHHHHHHHH
T ss_pred             --HHHHHHHHHHH
Confidence              66766665544

>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=98.64  E-value=5.8e-06  Score=70.09  Aligned_cols=210  Identities=10%  Similarity=-0.043  Sum_probs=132.6

Q ss_pred             CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHH
Q 013323           75 TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLN  154 (445)
Q Consensus        75 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~  154 (445)
                      |...|...-..+...|++++|...|+...+..-+++...+..+-.++.+.|++++|+..|++..+... -+...|..+-.
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~   84 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNY-NLANAYIGKSA   84 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC-SHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCc-chHHHHHHHHH
Confidence            44566666666777777777777777777654335666666677777777777777777777766431 24556777777


Q ss_pred             HHHHcCChhhHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccc
Q 013323          155 ACAAAGQLDPVYAIVRDMTAAGAGLD-KFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVS  233 (445)
Q Consensus       155 ~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  233 (445)
                      .+...|++++|...|++..+..  |+ ...+..+.                                             
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~---------------------------------------------  117 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAV--PGNATIEKLYA---------------------------------------------  117 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHH---------------------------------------------
T ss_pred             HHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHH---------------------------------------------
Confidence            7777777777777777766642  22 11111111                                             


Q ss_pred             hhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhcCChhh
Q 013323          234 KEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPD---VYIVMQNIRCYLHSGDIDN  310 (445)
Q Consensus       234 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~g~~~~  310 (445)
                                              ..|..+-..+...|++++|...++...+.  .|+   ...+..+-..|...|    
T Consensus       118 ------------------------~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~~~~~~~----  167 (228)
T 4i17_A          118 ------------------------IYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGVLFYNNG----  167 (228)
T ss_dssp             ------------------------HHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHHHHHHHH----
T ss_pred             ------------------------HHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHHHHHHHH----
Confidence                                    13445555667889999999999998764  565   446666666665544    


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHH
Q 013323          311 GHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLL  372 (445)
Q Consensus       311 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll  372 (445)
                       ..+++.+...+ ..+...|..+..      ...+. ++|...+++..+..  |+......++
T Consensus       168 -~~~~~~a~~~~-~~~~~~~~~~~~------~~~~~~~~A~~~~~~a~~l~--p~~~~~~~~l  220 (228)
T 4i17_A          168 -ADVLRKATPLA-SSNKEKYASEKA------KADAAFKKAVDYLGEAVTLS--PNRTEIKQMQ  220 (228)
T ss_dssp             -HHHHHHHGGGT-TTCHHHHHHHHH------HHHHHHHHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             -HHHHHHHHhcc-cCCHHHHHHHHH------HHHHHHHHHHHHHHHHhhcC--CCCHHHHHHH
Confidence             34455555442 224556665554      34455 88999999988754  5544433333

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.62  E-value=3.9e-06  Score=73.64  Aligned_cols=192  Identities=13%  Similarity=0.019  Sum_probs=138.2

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 013323           60 LRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGF-LPDVAVYNYLISVCGKCKNSDQAIRIFEEMK  138 (445)
Q Consensus        60 a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  138 (445)
                      +...|++....+ .++..++..+-.++...|+.++|++++.+-...|- .-+...+-.++..+.+.|+.+.|.+.++.|.
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            677788776655 56667777778889999999999999999877652 1367788899999999999999999999998


Q ss_pred             hCCCCc-----cHHHHHHHHHHHHH--cC--ChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHH
Q 013323          139 KYEVKP-----NGQTYVCLLNACAA--AG--QLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELV  209 (445)
Q Consensus       139 ~~g~~p-----~~~~y~~li~~~~~--~g--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~  209 (445)
                      +.  .|     +..+...+..+++.  .|  +..+|..+|+++.+.  .|+..+...++.++...|+.  +.|+++++.+
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~--~eAe~~L~~l  237 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNI--AEAQGIVELL  237 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCH--HHHHHHHHHH
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCH--HHHHHHHHHH
Confidence            74  56     35666777766433  34  899999999999775  35644555555577788877  8999999876


Q ss_pred             HHhc-CCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCC
Q 013323          210 EQSK-GWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRK  288 (445)
Q Consensus       210 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  288 (445)
                      .+.. .+.                               .+.+.-+.+..+...+|......|+  .+.++++++++.  
T Consensus       238 ~~~~p~~~-------------------------------~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~--  282 (310)
T 3mv2_B          238 LSDYYSVE-------------------------------QKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL--  282 (310)
T ss_dssp             HSHHHHTT-------------------------------TCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT--
T ss_pred             HHhccccc-------------------------------ccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh--
Confidence            5421 000                               0000004466677566666666777  888999999874  


Q ss_pred             CCCHH
Q 013323          289 SPDVY  293 (445)
Q Consensus       289 ~p~~~  293 (445)
                      .|+..
T Consensus       283 ~P~hp  287 (310)
T 3mv2_B          283 DHEHA  287 (310)
T ss_dssp             TCCCH
T ss_pred             CCCCh
Confidence            46543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.61  E-value=8.1e-07  Score=84.05  Aligned_cols=121  Identities=8%  Similarity=-0.067  Sum_probs=60.0

Q ss_pred             HHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCCh---hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 013323           47 VVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRL---QDTFFFRDQMKANGFLPDVAVYNYLISVCGK  123 (445)
Q Consensus        47 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~---~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  123 (445)
                      +-..+.+.|++++|.++|++..+.|- |+  .+..|-..+...|+.   ++|...|+...+.    +...+..|-..+..
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g~-~~--A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~   81 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELGY-SE--AQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAA   81 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTC-CT--GGGTCC--------------------------------CHHHHHHHHHT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCCC-HH--HHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHh
Confidence            45566788999999999998877663 22  233333334445666   8888888888753    55556666664544


Q ss_pred             cC-----CHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChh---hHHHHHHHHHHcCC
Q 013323          124 CK-----NSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLD---PVYAIVRDMTAAGA  177 (445)
Q Consensus       124 ~g-----~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~---~a~~~~~~m~~~g~  177 (445)
                      .+     ++++|+.+|++..+.|..   ..+..+-..|...+..+   ++.+.+......|.
T Consensus        82 ~~~~~~~~~~~A~~~~~~Aa~~g~~---~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~  140 (452)
T 3e4b_A           82 KPGATEAEHHEAESLLKKAFANGEG---NTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY  140 (452)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHTTCS---SCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCCCH---HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC
Confidence            44     678899999888876632   25666666666655443   34444544444443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.59  E-value=2.8e-05  Score=73.44  Aligned_cols=302  Identities=13%  Similarity=0.067  Sum_probs=176.0

Q ss_pred             ChhhHHHHHHHHHhcC-----cHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCCh---hHHHHHHHHHHHCCCCCCH
Q 013323           40 NASEYNTVVTSLTSQR-----RFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRL---QDTFFFRDQMKANGFLPDV  111 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~-----~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~---~~a~~~~~~m~~~g~~p~~  111 (445)
                      ++..+..+-..+...+     +.++|...|+.-.+.|...   .+..|-..+...+..   ..+.+.+....+.|.   .
T Consensus        68 ~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g~~~---A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~---~  141 (452)
T 3e4b_A           68 SPRAQARLGRLLAAKPGATEAEHHEAESLLKKAFANGEGN---TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY---P  141 (452)
T ss_dssp             ---CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTTCSS---CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC---T
T ss_pred             CHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCCCHH---HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC---H
Confidence            5555555555444444     6778888888877766433   333344444433332   345555555555442   3


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcC---ChhhHHHHHHHHHHcCCCCCHHHHHHHH
Q 013323          112 AVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAG---QLDPVYAIVRDMTAAGAGLDKFCYAGLI  188 (445)
Q Consensus       112 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g---~~~~a~~~~~~m~~~g~~p~~~~~~~li  188 (445)
                      ..+..|-..|...+.++++..........-...+...+..+-..|...|   +.++|+..|+...+.|. ++...+..+-
T Consensus       142 ~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg  220 (452)
T 3e4b_A          142 EAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVA  220 (452)
T ss_dssp             THHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHH
Confidence            4455566666666644443333222222111223347778888888888   88889999988888773 3444434444


Q ss_pred             HHHHcc--CCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHH
Q 013323          189 TAHTNK--IPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHA  266 (445)
Q Consensus       189 ~~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~  266 (445)
                      ..|...  ...+.+.+...++... .+                                          +...+..+-..
T Consensus       221 ~~y~~g~~~~~d~~~A~~~~~~aa-~g------------------------------------------~~~a~~~Lg~~  257 (452)
T 3e4b_A          221 RVLGDATLGTPDEKTAQALLEKIA-PG------------------------------------------YPASWVSLAQL  257 (452)
T ss_dssp             HHHTCGGGSSCCHHHHHHHHHHHG-GG------------------------------------------STHHHHHHHHH
T ss_pred             HHHhCCCCCCCCHHHHHHHHHHHc-CC------------------------------------------CHHHHHHHHHH
Confidence            444332  1224467777776644 11                                          12233333333


Q ss_pred             -H--HhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-----ChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHh
Q 013323          267 -C--AELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSG-----DIDNGHKVFEDYICSEKFPPAELYATLVEGAM  338 (445)
Q Consensus       267 -~--~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-----~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  338 (445)
                       +  ...++.++|...|+...+.|   +...+..|-..|. .|     ++++|.++|+... .|   ++..+..|=..+.
T Consensus       258 ~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~A~~~Lg~~y~  329 (452)
T 3e4b_A          258 LYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVAADYYLGQIYR  329 (452)
T ss_dssp             HHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHHHHHHHHHHHH
T ss_pred             HHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHHHHHHHHHHHH
Confidence             3  45789999999999888766   5556666666666 55     8999999998877 33   4445544444332


Q ss_pred             hcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhh--cccCCChhhHHHHHHHHHHCCCCCCH
Q 013323          339 FGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAA--GEKSGGYTTANYIWDLMQARKITPSL  402 (445)
Q Consensus       339 ~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~--~~~~g~~~~A~~~~~~m~~~~~~p~~  402 (445)
                      .+.....+ ++|...|++..+.|.   +.....+-..|.  .....+.++|...|++-.+.|.....
T Consensus       330 ~G~g~~~d~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~~a~  393 (452)
T 3e4b_A          330 RGYLGKVYPQKALDHLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTPEAN  393 (452)
T ss_dssp             TTTTSSCCHHHHHHHHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCHHHH
T ss_pred             CCCCCCcCHHHHHHHHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            23332335 899999999888773   344444444443  11246888999999888877754333

>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=98.59  E-value=4e-06  Score=63.95  Aligned_cols=94  Identities=13%  Similarity=0.120  Sum_probs=43.7

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHH
Q 013323           79 FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA  158 (445)
Q Consensus        79 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~  158 (445)
                      |..+...+...|++++|..+|+++.+.+ +.+..+|..+...+...|++++|..+|+++...+ +.+...|..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            3344444444555555555555544432 1234444444555555555555555555544332 1233344444444555


Q ss_pred             cCChhhHHHHHHHHHH
Q 013323          159 AGQLDPVYAIVRDMTA  174 (445)
Q Consensus       159 ~g~~~~a~~~~~~m~~  174 (445)
                      .|++++|...++++.+
T Consensus        82 ~~~~~~A~~~~~~~~~   97 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALE   97 (136)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHH
Confidence            5555555555544444

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.59  E-value=1e-05  Score=74.58  Aligned_cols=231  Identities=8%  Similarity=0.002  Sum_probs=156.6

Q ss_pred             HHHhcCcHhHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHhcCCChhHHHHHHHHHHHC----C-CCC-CHHHHHHHH
Q 013323           50 SLTSQRRFFLLRDVYDDMMLDGV-QPT----RDLFHSLIVGTMKGSRLQDTFFFRDQMKAN----G-FLP-DVAVYNYLI  118 (445)
Q Consensus        50 ~~~~~~~~~~a~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g-~~p-~~~~~~~ll  118 (445)
                      .+...|++++|.+.|++..+.-- .++    ..++..+-..+...|+++.|...+++..+.    + ..+ ...+++.+-
T Consensus       110 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  189 (378)
T 3q15_A          110 YEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIA  189 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHH
Confidence            45678999999999998876311 133    345777778888999999999999887642    1 111 256788888


Q ss_pred             HHHHccCCHHHHHHHHHHHHhC----CCC-ccHHHHHHHHHHHHHcCChhhHHHHHHHHHHc----CCCCCHHHHHHHHH
Q 013323          119 SVCGKCKNSDQAIRIFEEMKKY----EVK-PNGQTYVCLLNACAAAGQLDPVYAIVRDMTAA----GAGLDKFCYAGLIT  189 (445)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~m~~~----g~~-p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~~~~~~li~  189 (445)
                      ..|...|++++|.+.|++..+.    +-. ....++..+-..|...|++++|...|++..+.    +.+....++..+-.
T Consensus       190 ~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  269 (378)
T 3q15_A          190 GNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSW  269 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHH
Confidence            9999999999999999877642    211 12457888888999999999999999988761    22223566777777


Q ss_pred             HHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHh
Q 013323          190 AHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAE  269 (445)
Q Consensus       190 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~  269 (445)
                      .+.+.|+.  +.|...++.......-.                                  +. +.....+..+-..+..
T Consensus       270 ~~~~~g~~--~~A~~~~~~al~~~~~~----------------------------------~~-~~~~~~~~~l~~ly~~  312 (378)
T 3q15_A          270 TLCKAGQT--QKAFQFIEEGLDHITAR----------------------------------SH-KFYKELFLFLQAVYKE  312 (378)
T ss_dssp             HHHHTTCH--HHHHHHHHHHHHHCCTT----------------------------------CC-SCHHHHHHHHHHHHSS
T ss_pred             HHHHCCCH--HHHHHHHHHHHHHHHHc----------------------------------CC-HHHHHHHHHHHHHHhC
Confidence            78888865  78888887765432100                                  00 1122234555555666


Q ss_pred             ccc---HHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 013323          270 LKD---VQAMETLLEMLKKDRKSPD-VYIVMQNIRCYLHSGDIDNGHKVFEDYIC  320 (445)
Q Consensus       270 ~g~---~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~  320 (445)
                      .++   +.+|...++.   .+..|+ ...+..+-..|...|++++|...|+...+
T Consensus       313 ~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          313 TVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             SCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            666   5666655554   333333 33566777888888999999888887654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.42  E-value=1.3e-05  Score=71.01  Aligned_cols=211  Identities=11%  Similarity=-0.033  Sum_probs=140.9

Q ss_pred             cHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHHccCCHHHH
Q 013323           56 RFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN----GFLPD-VAVYNYLISVCGKCKNSDQA  130 (445)
Q Consensus        56 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~p~-~~~~~~ll~~~~~~g~~~~a  130 (445)
                      ++++|.+.|++.               ...+...|++++|...|++..+.    |-.++ ..+|+.+-.+|.+.|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            477888777765               33566788999999888877542    32222 56888899999999999999


Q ss_pred             HHHHHHHHhC----CCCc-cHHHHHHHHHHHHHc-CChhhHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHccCCCch
Q 013323          131 IRIFEEMKKY----EVKP-NGQTYVCLLNACAAA-GQLDPVYAIVRDMTAAGA-GLD----KFCYAGLITAHTNKIPRAD  199 (445)
Q Consensus       131 ~~~~~~m~~~----g~~p-~~~~y~~li~~~~~~-g~~~~a~~~~~~m~~~g~-~p~----~~~~~~li~~~~~~~~~~~  199 (445)
                      +..|++..+.    |-.+ -..+|+.+-..|... |++++|...|++..+..- ..+    ..++..+-..+...|+.  
T Consensus        97 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~--  174 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQY--  174 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH--
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCH--
Confidence            9888877542    2111 145788888888886 999999999988765310 011    34577777888888866  


Q ss_pred             HHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCccc-CchhHHHHHHHHHHhcccHHHHHH
Q 013323          200 DTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLS-RLLTVYHVAFHACAELKDVQAMET  278 (445)
Q Consensus       200 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~-~~~~~~~~li~~~~~~g~~~~a~~  278 (445)
                      +.|...++.......-...                                  .. .....|..+..++...|++++|..
T Consensus       175 ~~A~~~~~~al~~~~~~~~----------------------------------~~~~~~~~~~~lg~~~~~~g~~~~A~~  220 (292)
T 1qqe_A          175 IEASDIYSKLIKSSMGNRL----------------------------------SQWSLKDYFLKKGLCQLAATDAVAAAR  220 (292)
T ss_dssp             HHHHHHHHHHHHTTSSCTT----------------------------------TGGGHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCc----------------------------------ccHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            8888888877654211000                                  00 001256777788889999999999


Q ss_pred             HHHHHHhCCCCCCH------HHHHHHHHHHH--hcCChhhHHHHHHHHH
Q 013323          279 LLEMLKKDRKSPDV------YIVMQNIRCYL--HSGDIDNGHKVFEDYI  319 (445)
Q Consensus       279 ~~~~m~~~~~~p~~------~~~~~li~~~~--~~g~~~~a~~~~~~m~  319 (445)
                      .++...+  +.|+.      ..+..++.+|.  ..+++++|.+.|+.+.
T Consensus       221 ~~~~al~--l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          221 TLQEGQS--EDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             HHHGGGC--C---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHh--hCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence            9998765  23321      23455666664  3466777877776543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.39  E-value=8.8e-06  Score=72.02  Aligned_cols=167  Identities=10%  Similarity=0.006  Sum_probs=124.6

Q ss_pred             hhHHHHHHHHHhcCcHhHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHhcCCChhHHHHHHHHHHHC----CCCC-CH
Q 013323           42 SEYNTVVTSLTSQRRFFLLRDVYDDMMLD----GVQPT-RDLFHSLIVGTMKGSRLQDTFFFRDQMKAN----GFLP-DV  111 (445)
Q Consensus        42 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~----g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~  111 (445)
                      ..|+.....|...|++++|.+.|++....    |-.++ ..+|+.+-.++.+.|++++|...|+...+.    |-.+ -.
T Consensus        38 ~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a  117 (292)
T 1qqe_A           38 DLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGA  117 (292)
T ss_dssp             HHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            35777788889999999999999877652    32222 457888999999999999999999987653    2111 14


Q ss_pred             HHHHHHHHHHHcc-CCHHHHHHHHHHHHhC----CCCcc-HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCH----
Q 013323          112 AVYNYLISVCGKC-KNSDQAIRIFEEMKKY----EVKPN-GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDK----  181 (445)
Q Consensus       112 ~~~~~ll~~~~~~-g~~~~a~~~~~~m~~~----g~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----  181 (445)
                      .+|+.+-..|... |++++|+..|++..+.    +-.+. ..+|..+...+.+.|++++|...|++..+.......    
T Consensus       118 ~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  197 (292)
T 1qqe_A          118 NFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWS  197 (292)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGG
T ss_pred             HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHH
Confidence            5788999999996 9999999999987652    11111 457888999999999999999999999885432221    


Q ss_pred             --HHHHHHHHHHHccCCCchHHHHHHHHHHH
Q 013323          182 --FCYAGLITAHTNKIPRADDTATKIIELVE  210 (445)
Q Consensus       182 --~~~~~li~~~~~~~~~~~~~a~~~~~~~~  210 (445)
                        ..|..+...+...|+.  +.|...++...
T Consensus       198 ~~~~~~~lg~~~~~~g~~--~~A~~~~~~al  226 (292)
T 1qqe_A          198 LKDYFLKKGLCQLAATDA--VAAARTLQEGQ  226 (292)
T ss_dssp             HHHHHHHHHHHHHHTTCH--HHHHHHHHGGG
T ss_pred             HHHHHHHHHHHHHHcCCH--HHHHHHHHHHH
Confidence              1455666667777765  88888877644

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.38  E-value=1.7e-05  Score=66.21  Aligned_cols=77  Identities=13%  Similarity=-0.004  Sum_probs=54.9

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 013323          115 NYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTN  193 (445)
Q Consensus       115 ~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~  193 (445)
                      +.+-.+|.+.|++++|...|++..+.. +-+...|..+-..+...|++++|...|++..+.. +-+...+..+-..+..
T Consensus        58 ~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~  134 (208)
T 3urz_A           58 TELALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYL  134 (208)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            347778888888888888888887643 2256778888888888888888888888887753 1235555555555443

>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=98.36  E-value=2.4e-05  Score=65.32  Aligned_cols=129  Identities=8%  Similarity=-0.088  Sum_probs=109.9

Q ss_pred             hHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013323           43 EYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCG  122 (445)
Q Consensus        43 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  122 (445)
                      .+..+-..+...|++++|.+.|++.    +.|+...|..+-..+.+.|++++|...|+...+.. +.+...|..+-.++.
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~   82 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   82 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHH
Confidence            3455667788999999999999876    46788999999999999999999999999998764 346788999999999


Q ss_pred             ccCCHHHHHHHHHHHHhCCC--------------Cc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHcC
Q 013323          123 KCKNSDQAIRIFEEMKKYEV--------------KP-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAAG  176 (445)
Q Consensus       123 ~~g~~~~a~~~~~~m~~~g~--------------~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g  176 (445)
                      +.|++++|...|++..+..-              .| +...|..+...+.+.|++++|...|+...+..
T Consensus        83 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           83 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            99999999999999987421              12 23778899999999999999999999998864

>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=98.33  E-value=0.00028  Score=69.59  Aligned_cols=247  Identities=10%  Similarity=0.006  Sum_probs=178.6

Q ss_pred             hhHHHHHHHHHhcC-------cHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHH-HHHHHHHHCCCCCCHHH
Q 013323           42 SEYNTVVTSLTSQR-------RFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTF-FFRDQMKANGFLPDVAV  113 (445)
Q Consensus        42 ~~~~~li~~~~~~~-------~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~-~~~~~m~~~g~~p~~~~  113 (445)
                      ..|...|..--..+       ..+.+..+|++.... ++-+...|-.....+.+.|+.++|. ++|+..... ++.+...
T Consensus       303 ~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~L  380 (679)
T 4e6h_A          303 LIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVL  380 (679)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHH
T ss_pred             HHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHH
Confidence            45666665544332       134456778887764 3346777888888888889999996 999999864 3456777


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhCC---------CCc------------cHHHHHHHHHHHHHcCChhhHHHHHHHH
Q 013323          114 YNYLISVCGKCKNSDQAIRIFEEMKKYE---------VKP------------NGQTYVCLLNACAAAGQLDPVYAIVRDM  172 (445)
Q Consensus       114 ~~~ll~~~~~~g~~~~a~~~~~~m~~~g---------~~p------------~~~~y~~li~~~~~~g~~~~a~~~~~~m  172 (445)
                      |-..+...-+.|+++.|.++|+......         -.|            ....|...+....+.|+.+.|..+|...
T Consensus       381 wl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A  460 (679)
T 4e6h_A          381 AFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKC  460 (679)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            8888888899999999999999987631         013            2346888888888999999999999999


Q ss_pred             HHc-C-CCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhc
Q 013323          173 TAA-G-AGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRG  250 (445)
Q Consensus       173 ~~~-g-~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  250 (445)
                      .+. + ..+......+.+.... .++.  +.|.++|+...+.-                                     
T Consensus       461 ~~~~~~~~~~lyi~~A~lE~~~-~~d~--e~Ar~ife~~Lk~~-------------------------------------  500 (679)
T 4e6h_A          461 RRLKKLVTPDIYLENAYIEYHI-SKDT--KTACKVLELGLKYF-------------------------------------  500 (679)
T ss_dssp             HHTGGGSCTHHHHHHHHHHHTT-TSCC--HHHHHHHHHHHHHH-------------------------------------
T ss_pred             HHhcCCCChHHHHHHHHHHHHh-CCCH--HHHHHHHHHHHHHC-------------------------------------
Confidence            876 3 2333444444444322 2223  88999999876541                                     


Q ss_pred             CcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHH
Q 013323          251 GFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSP--DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAE  328 (445)
Q Consensus       251 g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  328 (445)
                         +.+...|...+......|+.+.|..+|+........+  ....|...+..-.+.|+.+.+.++.+++.+.  .|+..
T Consensus       501 ---p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~--~P~~~  575 (679)
T 4e6h_A          501 ---ATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK--FPEVN  575 (679)
T ss_dssp             ---TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH--STTCC
T ss_pred             ---CCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCc
Confidence               3455567778888888899999999999987654322  3457888888888999999999999999886  35555


Q ss_pred             HHHHHHH
Q 013323          329 LYATLVE  335 (445)
Q Consensus       329 ~~~~li~  335 (445)
                      ....+++
T Consensus       576 ~~~~f~~  582 (679)
T 4e6h_A          576 KLEEFTN  582 (679)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6666666

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.30  E-value=0.0006  Score=60.19  Aligned_cols=241  Identities=7%  Similarity=0.015  Sum_probs=163.1

Q ss_pred             HHHHhcC-cHhHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCC--ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH---
Q 013323           49 TSLTSQR-RFFLLRDVYDDMMLDGVQPTRD-LFHSLIVGTMKGS--RLQDTFFFRDQMKANGFLPDVAVYNYLISVC---  121 (445)
Q Consensus        49 ~~~~~~~-~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~--~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~---  121 (445)
                      .+..+.| ..++|+++++.+...+  |+.. .|+.--..+...+  +++++++.++.+.... +-+..+|+.--..+   
T Consensus        40 ~a~~~~~e~s~~aL~~t~~~L~~n--P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~  116 (306)
T 3dra_A           40 LALMKAEEYSERALHITELGINEL--ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQI  116 (306)
T ss_dssp             HHHHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHHC--cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHH
Confidence            3334444 4579999999998854  6544 4777777777777  9999999999999865 23455676654444   


Q ss_pred             -Hcc---CCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChh--hHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC
Q 013323          122 -GKC---KNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLD--PVYAIVRDMTAAGAGLDKFCYAGLITAHTNKI  195 (445)
Q Consensus       122 -~~~---g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~--~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~  195 (445)
                       ...   +++++++.+++.+.+.. +-|..+|+.---.+.+.|.++  ++++.++.+.+.... |...|+.--..+.+.+
T Consensus       117 ~~~l~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~  194 (306)
T 3dra_A          117 MELNNNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKK  194 (306)
T ss_dssp             HHHTTTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSG
T ss_pred             HHhccccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcc
Confidence             444   78999999999998764 347888888888888889888  999999999987543 5666665444444443


Q ss_pred             CCc----hHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcc
Q 013323          196 PRA----DDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELK  271 (445)
Q Consensus       196 ~~~----~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g  271 (445)
                      ...    .+.+...++......                                        +.|...|+-.-..+.+.|
T Consensus       195 ~~~~~~~~~eEl~~~~~aI~~~----------------------------------------p~n~SaW~y~~~ll~~~~  234 (306)
T 3dra_A          195 HLATDNTIDEELNYVKDKIVKC----------------------------------------PQNPSTWNYLLGIHERFD  234 (306)
T ss_dssp             GGCCHHHHHHHHHHHHHHHHHC----------------------------------------SSCHHHHHHHHHHHHHTT
T ss_pred             ccchhhhHHHHHHHHHHHHHhC----------------------------------------CCCccHHHHHHHHHHhcC
Confidence            210    133333333322221                                        667778888777777777


Q ss_pred             c-HHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHH
Q 013323          272 D-VQAMETLLEMLKKDR--KSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLV  334 (445)
Q Consensus       272 ~-~~~a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li  334 (445)
                      + .+.+..+...+.+.+  -..+...+..+...|.+.|+.++|.++++.+.+.-=+.....|+...
T Consensus       235 ~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~~~Dpir~~yW~~~~  300 (306)
T 3dra_A          235 RSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKSKYNPIRSNFWDYQI  300 (306)
T ss_dssp             CCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             CChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhccChHHHHHHHHHH
Confidence            6 444555666554432  13467788889999999999999999999988641122344444433

>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=98.28  E-value=1.8e-05  Score=63.99  Aligned_cols=161  Identities=8%  Similarity=-0.012  Sum_probs=99.0

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHH-HHc
Q 013323          115 NYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITA-HTN  193 (445)
Q Consensus       115 ~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~-~~~  193 (445)
                      ..+...+.+.|++++|...|++..+.. +-+...+..+...+.+.|++++|...|+......  |+...+...... +..
T Consensus        10 ~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A           10 LKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHh
Confidence            344455666677777777776654421 1235566666666777777777777776655432  233222211101 111


Q ss_pred             cCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccH
Q 013323          194 KIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDV  273 (445)
Q Consensus       194 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~  273 (445)
                      .+..  ..+...++......                                        +.+...+..+-..+...|++
T Consensus        87 ~~~~--~~a~~~~~~al~~~----------------------------------------P~~~~~~~~la~~~~~~g~~  124 (176)
T 2r5s_A           87 QAAE--SPELKRLEQELAAN----------------------------------------PDNFELACELAVQYNQVGRD  124 (176)
T ss_dssp             HHTS--CHHHHHHHHHHHHS----------------------------------------TTCHHHHHHHHHHHHHTTCH
T ss_pred             hccc--chHHHHHHHHHHhC----------------------------------------CCCHHHHHHHHHHHHHcccH
Confidence            1111  22344444433321                                        44567788888889999999


Q ss_pred             HHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 013323          274 QAMETLLEMLKKDRKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYIC  320 (445)
Q Consensus       274 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  320 (445)
                      ++|...|+...+....+ +...+..+...+...|+.++|...|+....
T Consensus       125 ~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A          125 EEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHHH
Confidence            99999999988754332 356788889999999999999999987654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.27  E-value=6.6e-05  Score=64.99  Aligned_cols=170  Identities=11%  Similarity=-0.033  Sum_probs=125.1

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCC----HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC-CC-CHH
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPT----RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGF-LP-DVA  112 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~-~p-~~~  112 (445)
                      .+...+-.+-..+.+.|++++|...|+...+..  |+    ...+..+-.++.+.|++++|...|+...+..- .| ...
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~   90 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG--RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQ   90 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC--SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHH
Confidence            456666677788889999999999999998753  43    56777888889999999999999999988531 12 245


Q ss_pred             HHHHHHHHHHc--------cCCHHHHHHHHHHHHhCCCCcc-HHHH-----------------HHHHHHHHHcCChhhHH
Q 013323          113 VYNYLISVCGK--------CKNSDQAIRIFEEMKKYEVKPN-GQTY-----------------VCLLNACAAAGQLDPVY  166 (445)
Q Consensus       113 ~~~~ll~~~~~--------~g~~~~a~~~~~~m~~~g~~p~-~~~y-----------------~~li~~~~~~g~~~~a~  166 (445)
                      .+..+-.++.+        .|++++|...|++..+..  |+ ...+                 ..+-..|.+.|++++|.
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  168 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAA  168 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHH
Confidence            67777888888        999999999999998742  33 2223                 45577889999999999


Q ss_pred             HHHHHHHHcCCC-C-CHHHHHHHHHHHHccCCC--------chHHHHHHHHHHHHh
Q 013323          167 AIVRDMTAAGAG-L-DKFCYAGLITAHTNKIPR--------ADDTATKIIELVEQS  212 (445)
Q Consensus       167 ~~~~~m~~~g~~-p-~~~~~~~li~~~~~~~~~--------~~~~a~~~~~~~~~~  212 (445)
                      ..|++..+..-. + ....+..+..++...|..        ..+.|...++.+...
T Consensus       169 ~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          169 VTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            999999886321 1 234556666666654211        226777777776654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.27  E-value=6.4e-05  Score=65.07  Aligned_cols=60  Identities=12%  Similarity=0.104  Sum_probs=31.6

Q ss_pred             HHHHHHHhcccHHHHHHHHHHHHhCCCC-C-CHHHHHHHHHHHHhc----------CChhhHHHHHHHHHhC
Q 013323          262 VAFHACAELKDVQAMETLLEMLKKDRKS-P-DVYIVMQNIRCYLHS----------GDIDNGHKVFEDYICS  321 (445)
Q Consensus       262 ~li~~~~~~g~~~~a~~~~~~m~~~~~~-p-~~~~~~~li~~~~~~----------g~~~~a~~~~~~m~~~  321 (445)
                      .+-..+.+.|++++|...|+.+.+.... + ....+..+..+|...          |++++|...|+.+.+.
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            3445556666666666666665543211 1 123444455555544          5556666666665553

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.26  E-value=4.3e-05  Score=67.35  Aligned_cols=168  Identities=8%  Similarity=-0.028  Sum_probs=122.2

Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHH
Q 013323          108 LPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGL  187 (445)
Q Consensus       108 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  187 (445)
                      +.+...+..+-..+.+.|++++|...|++..... +-+...+..+...+.+.|++++|...+++....  .|+.......
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHH
Confidence            3455667778888889999999999999987753 225678888999999999999999999988665  3554433222


Q ss_pred             HH-HHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHH
Q 013323          188 IT-AHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHA  266 (445)
Q Consensus       188 i~-~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~  266 (445)
                      .. .+...+..  +.+...++......                                        +.+...+..+-..
T Consensus       191 ~~~~l~~~~~~--~~a~~~l~~al~~~----------------------------------------P~~~~~~~~la~~  228 (287)
T 3qou_A          191 AQIELLXQAAD--TPEIQQLQQQVAEN----------------------------------------PEDAALATQLALQ  228 (287)
T ss_dssp             HHHHHHHHHTS--CHHHHHHHHHHHHC----------------------------------------TTCHHHHHHHHHH
T ss_pred             HHHHHHhhccc--CccHHHHHHHHhcC----------------------------------------CccHHHHHHHHHH
Confidence            22 23333433  44555555544331                                        5567788888999


Q ss_pred             HHhcccHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 013323          267 CAELKDVQAMETLLEMLKKDRKS-PDVYIVMQNIRCYLHSGDIDNGHKVFEDYIC  320 (445)
Q Consensus       267 ~~~~g~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  320 (445)
                      +...|++++|...+..+.+..-. .+...+..+...|...|+.++|...|++...
T Consensus       229 l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          229 LHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            99999999999999988874322 2366888899999999999999988876543

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.26  E-value=3.7e-05  Score=57.55  Aligned_cols=96  Identities=9%  Similarity=0.075  Sum_probs=49.5

Q ss_pred             hhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 013323           42 SEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVC  121 (445)
Q Consensus        42 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  121 (445)
                      ..|..+...+...|+++.|.+.|++..+.. +.+..++..+...+.+.|++++|...|+.+.+.. +.+..++..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHH
Confidence            445555555555566666666555555432 1234445555555555555555555555555432 12344555555555


Q ss_pred             HccCCHHHHHHHHHHHHh
Q 013323          122 GKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus       122 ~~~g~~~~a~~~~~~m~~  139 (445)
                      .+.|++++|...|++..+
T Consensus        88 ~~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHH
Confidence            555555555555555543

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.25  E-value=0.00012  Score=60.89  Aligned_cols=138  Identities=14%  Similarity=0.117  Sum_probs=90.8

Q ss_pred             HHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhc
Q 013323          151 CLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMM  230 (445)
Q Consensus       151 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  230 (445)
                      .+-..+.+.|++++|...|++..+.. +-+...+..+-..+...|+.  +.|...++......                 
T Consensus        59 ~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~--~~A~~~~~~al~~~-----------------  118 (208)
T 3urz_A           59 ELALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQE--KDALRMYEKILQLE-----------------  118 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH--HHHHHHHHHHHHHC-----------------
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHcC-----------------
Confidence            37888899999999999999988864 22577777788888888866  88888888876642                 


Q ss_pred             ccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhccc--HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 013323          231 GVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKD--VQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDI  308 (445)
Q Consensus       231 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~--~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  308 (445)
                                             +.+...|..+-..+...|.  ...+...+.....  ..|....+...-.++...|++
T Consensus       119 -----------------------P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~a~~~~g~~~~~~~~~  173 (208)
T 3urz_A          119 -----------------------ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKMQYARYRDGLSKLFTTRY  173 (208)
T ss_dssp             -----------------------TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHHHHHHHHHHHHHHHHHTH
T ss_pred             -----------------------CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHccCH
Confidence                                   4456667777666655553  3344444444321  222223333344556667889


Q ss_pred             hhHHHHHHHHHhCCCCCCHHHHHHHHH
Q 013323          309 DNGHKVFEDYICSEKFPPAELYATLVE  335 (445)
Q Consensus       309 ~~a~~~~~~m~~~~~~p~~~~~~~li~  335 (445)
                      ++|...|++..+.  .|+......+.+
T Consensus       174 ~~A~~~~~~al~l--~P~~~~~~~l~~  198 (208)
T 3urz_A          174 EKARNSLQKVILR--FPSTEAQKTLDK  198 (208)
T ss_dssp             HHHHHHHHHHTTT--SCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh--CCCHHHHHHHHH
Confidence            9999999887764  566655554443

>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=98.22  E-value=3.3e-05  Score=76.97  Aligned_cols=173  Identities=10%  Similarity=-0.065  Sum_probs=126.2

Q ss_pred             hcCCChhHHHHHHHHHH--------HCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHH
Q 013323           87 MKGSRLQDTFFFRDQMK--------ANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA  158 (445)
Q Consensus        87 ~~~~~~~~a~~~~~~m~--------~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~  158 (445)
                      ...|++++|.+.+++..        +.. +.+...|..+-.++.+.|++++|...|++..+.. +-+...|..+-..+..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            67888999999999887        322 3456778888888999999999999999887643 2356788888888999


Q ss_pred             cCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhc
Q 013323          159 AGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELY  238 (445)
Q Consensus       159 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  238 (445)
                      .|++++|...|++..+.. +-+...+..+-..+.+.|+.  +. ...++...+..                         
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~--~~-~~~~~~al~~~-------------------------  530 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNT--DE-HKFYQTVWSTN-------------------------  530 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCC--CT-TCHHHHHHHHC-------------------------
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCh--HH-HHHHHHHHHhC-------------------------
Confidence            999999999999988753 12456667777777777776  55 66666655432                         


Q ss_pred             chhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCC
Q 013323          239 NLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPD-VYIVMQNIRCYLHSGD  307 (445)
Q Consensus       239 ~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~  307 (445)
                                     +.+...|..+-.++.+.|++++|...|++..+  +.|+ ...+..+..++...|+
T Consensus       531 ---------------P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          531 ---------------DGVISAAFGLARARSAEGDRVGAVRTLDEVPP--TSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             ---------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCT--TSTTHHHHHHHHHHHTC----
T ss_pred             ---------------CchHHHHHHHHHHHHHcCCHHHHHHHHHhhcc--cCcccHHHHHHHHHHHHccCC
Confidence                           45566788888889999999999998887655  4564 4566667777766554

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.20  E-value=7.2e-05  Score=55.87  Aligned_cols=99  Identities=13%  Similarity=0.129  Sum_probs=86.1

Q ss_pred             HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHH
Q 013323           76 RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNA  155 (445)
Q Consensus        76 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~  155 (445)
                      ...|..+...+...|++++|.+.|+++.+.. +.+..++..+...+.+.|++++|..+|+++.... +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            4677888888999999999999999998764 3467889999999999999999999999998753 3467889999999


Q ss_pred             HHHcCChhhHHHHHHHHHHcC
Q 013323          156 CAAAGQLDPVYAIVRDMTAAG  176 (445)
Q Consensus       156 ~~~~g~~~~a~~~~~~m~~~g  176 (445)
                      +...|++++|...|+++.+..
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~  107 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD  107 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhC
Confidence            999999999999999998753

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.18  E-value=6.3e-05  Score=66.29  Aligned_cols=174  Identities=6%  Similarity=-0.059  Sum_probs=132.5

Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCC
Q 013323           29 AEEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFL  108 (445)
Q Consensus        29 ~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~  108 (445)
                      ..+........+...+..+-..+.+.|++++|.+.|++..+.. +-+...+..+-..+.+.|++++|...++......  
T Consensus       105 l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--  181 (287)
T 3qou_A          105 IRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--  181 (287)
T ss_dssp             HHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--
T ss_pred             HHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--
Confidence            3444444455556677778888899999999999999988753 2256778888899999999999999999987653  


Q ss_pred             CCHHHHHHHHH-HHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCC-CCHHHHHH
Q 013323          109 PDVAVYNYLIS-VCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAG-LDKFCYAG  186 (445)
Q Consensus       109 p~~~~~~~ll~-~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~  186 (445)
                      |+......... .+.+.++.+.|...|++..... +.+...+..+-..+...|++++|...|++..+..-. .+...+..
T Consensus       182 p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~  260 (287)
T 3qou_A          182 QDTRYQGLVAQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXT  260 (287)
T ss_dssp             CSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHH
T ss_pred             cchHHHHHHHHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHH
Confidence            66544333333 3667788888999998887753 246788999999999999999999999999886422 23677888


Q ss_pred             HHHHHHccCCCchHHHHHHHHH
Q 013323          187 LITAHTNKIPRADDTATKIIEL  208 (445)
Q Consensus       187 li~~~~~~~~~~~~~a~~~~~~  208 (445)
                      +...+...|+.  +.+...++.
T Consensus       261 l~~~~~~~g~~--~~a~~~~r~  280 (287)
T 3qou_A          261 FQEILAALGTG--DALASXYRR  280 (287)
T ss_dssp             HHHHHHHHCTT--CHHHHHHHH
T ss_pred             HHHHHHHcCCC--CcHHHHHHH
Confidence            88888888876  556555554

>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=98.17  E-value=7.6e-05  Score=59.23  Aligned_cols=130  Identities=8%  Similarity=-0.033  Sum_probs=82.1

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISV  120 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  120 (445)
                      ...|..+-..+...|+++.|...|+...+.. +.+...+..+...+...|++++|...++...+.. +.+..+|..+..+
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            3445666667777777777777777766542 2245666666677777777777777777776643 2346667777777


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCccHHHHH--HHHHHHHHcCChhhHHHHHHHHH
Q 013323          121 CGKCKNSDQAIRIFEEMKKYEVKPNGQTYV--CLLNACAAAGQLDPVYAIVRDMT  173 (445)
Q Consensus       121 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~--~li~~~~~~g~~~~a~~~~~~m~  173 (445)
                      +.+.|++++|...|++..+... .+...+.  .....+...|++++|...+....
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            7777777777777777665421 1333332  23333556667777776666543

>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=98.17  E-value=0.00031  Score=58.66  Aligned_cols=180  Identities=10%  Similarity=-0.028  Sum_probs=95.5

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcC----ChhhHHHHH
Q 013323           94 DTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAG----QLDPVYAIV  169 (445)
Q Consensus        94 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g----~~~~a~~~~  169 (445)
                      +|.+.|+...+.|   +...+..|-..|...+++++|..+|++..+.|   +...+..+-..|.. +    ++++|...|
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            3445555555543   44555555555555666666666666665543   33444444444444 4    566666666


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHcc--CCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHh
Q 013323          170 RDMTAAGAGLDKFCYAGLITAHTNK--IPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVH  247 (445)
Q Consensus       170 ~~m~~~g~~p~~~~~~~li~~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  247 (445)
                      ++..+.|   +...+..+-..|...  ...+.+.+...++.....+..                                
T Consensus        77 ~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~--------------------------------  121 (212)
T 3rjv_A           77 EKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSES--------------------------------  121 (212)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTS--------------------------------
T ss_pred             HHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCC--------------------------------
Confidence            6655544   333333333333320  011234444444443322100                                


Q ss_pred             hhcCcccCchhHHHHHHHHHHh----cccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-C-----ChhhHHHHHHH
Q 013323          248 RRGGFLSRLLTVYHVAFHACAE----LKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHS-G-----DIDNGHKVFED  317 (445)
Q Consensus       248 ~~~g~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-g-----~~~~a~~~~~~  317 (445)
                            ..+...+..+-..|..    .++.++|...|+...+.  ..+...+..|-..|... |     +.++|..+|+.
T Consensus       122 ------~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~  193 (212)
T 3rjv_A          122 ------DAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNV  193 (212)
T ss_dssp             ------HHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHH
T ss_pred             ------cchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHH
Confidence                  0013345555555555    66788888888887765  22344555566666553 3     78888888888


Q ss_pred             HHhCCC
Q 013323          318 YICSEK  323 (445)
Q Consensus       318 m~~~~~  323 (445)
                      ..+.|.
T Consensus       194 A~~~g~  199 (212)
T 3rjv_A          194 SCLEGF  199 (212)
T ss_dssp             HHHHTC
T ss_pred             HHHcCC
Confidence            777653

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.15  E-value=0.00031  Score=59.19  Aligned_cols=56  Identities=16%  Similarity=0.017  Sum_probs=32.1

Q ss_pred             HHHHHhcccHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          264 FHACAELKDVQAMETLLEMLKKDRKSPD----VYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       264 i~~~~~~g~~~~a~~~~~~m~~~~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      -..+.+.|++++|...|+.+.+..  |+    ...+..+..+|.+.|+.++|.+.++.+...
T Consensus       154 a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          154 AEYYTERGAWVAVVNRVEGMLRDY--PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCcHHHHHHHHHHHHHHC--cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence            344555666666666666655431  22    134555666666666666666666665554

>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=98.14  E-value=8.7e-05  Score=66.10  Aligned_cols=119  Identities=8%  Similarity=-0.041  Sum_probs=56.4

Q ss_pred             cCcHhHHHHHHHHHHHC------CCCCCHH----HHHHHHHHHhcCCChhHHHHHHHHHHHC----CCCC-CHHHHHHHH
Q 013323           54 QRRFFLLRDVYDDMMLD------GVQPTRD----LFHSLIVGTMKGSRLQDTFFFRDQMKAN----GFLP-DVAVYNYLI  118 (445)
Q Consensus        54 ~~~~~~a~~~~~~m~~~------g~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~ll  118 (445)
                      .|++++|.+++++-.+.      +..++..    .|......+...|++++|...|....+.    |-.+ -..+|+.+.
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg   83 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKTSFMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAG   83 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCCSSSCSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccccccCCCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45666777776655431      1112211    2333344455556666666555554432    1000 123555555


Q ss_pred             HHHHccCCHHHHHHHHHHHHhC----CCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHH
Q 013323          119 SVCGKCKNSDQAIRIFEEMKKY----EVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMT  173 (445)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~  173 (445)
                      ..|.+.|++++|...|++..+.    |-.. -..+|+.+-..|.. |++++|+..|++..
T Consensus        84 ~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al  142 (307)
T 2ifu_A           84 MMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAA  142 (307)
T ss_dssp             HHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHH
Confidence            5555566666665555544321    1110 12344555555555 66666665555544

>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=98.14  E-value=0.00079  Score=59.31  Aligned_cols=163  Identities=8%  Similarity=-0.038  Sum_probs=108.1

Q ss_pred             CCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHH---HHHHHHHhcCCChhHHHHHHHHHHHCC-CCCCH-
Q 013323           37 YANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLF---HSLIVGTMKGSRLQDTFFFRDQMKANG-FLPDV-  111 (445)
Q Consensus        37 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~---~~ll~~~~~~~~~~~a~~~~~~m~~~g-~~p~~-  111 (445)
                      ..|+..+...+...+.-.-+     +++    .....++...+   ...+..+...|++++|..++++..+.. ..|+. 
T Consensus        42 ~~~~~~~l~~i~~~l~~~~~-----~~~----~~~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~  112 (293)
T 3u3w_A           42 VYPSMDILQGIAAKLQIPII-----HFY----EVLIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQ  112 (293)
T ss_dssp             CCCCHHHHHHHHHHHTCCTH-----HHH----HTTTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             CCCCHHHHHHHHHHhCcCHH-----HHh----CCCCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHH
Confidence            46777777666665543321     111    22222333333   334667888999999999999988743 22332 


Q ss_pred             ---HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCC-cc----HHHHHHHHHHHHHcCChhhHHHHHHHHHH----c-CCC
Q 013323          112 ---AVYNYLISVCGKCKNSDQAIRIFEEMKKYEVK-PN----GQTYVCLLNACAAAGQLDPVYAIVRDMTA----A-GAG  178 (445)
Q Consensus       112 ---~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~-p~----~~~y~~li~~~~~~g~~~~a~~~~~~m~~----~-g~~  178 (445)
                         ..+..+...+...+++++|...|++....... ++    ..+|+.+-..|...|++++|...|++..+    . +..
T Consensus       113 ~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~  192 (293)
T 3u3w_A          113 QFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNE  192 (293)
T ss_dssp             HHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCH
T ss_pred             HHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccch
Confidence               23445777777888999999999998874222 22    34689999999999999999999999874    1 222


Q ss_pred             CC-HHHHHHHHHHHHccCCCchHHHHHHHHHHH
Q 013323          179 LD-KFCYAGLITAHTNKIPRADDTATKIIELVE  210 (445)
Q Consensus       179 p~-~~~~~~li~~~~~~~~~~~~~a~~~~~~~~  210 (445)
                      +. ..++..+-..|.+.|+.  +.|...++...
T Consensus       193 ~~~~~~~~nlg~~y~~~~~y--~~A~~~~~~al  223 (293)
T 3u3w_A          193 EFDVKVRYNHAKALYLDSRY--EESLYQVNKAI  223 (293)
T ss_dssp             HHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHhHH--HHHHHHHHHHH
Confidence            22 23667777788888866  77777776544

>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=98.13  E-value=9.1e-05  Score=72.23  Aligned_cols=152  Identities=9%  Similarity=-0.107  Sum_probs=95.3

Q ss_pred             cCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Q 013323           54 QRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRI  133 (445)
Q Consensus        54 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~  133 (445)
                      .|++++|.+.|++..+.. +-+...|..+-..+.+.|++++|.+.|++..+.. +.+...|..+-.+|.+.|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            467788888888776542 1246677777778888888888888888887754 23567788888888888888888888


Q ss_pred             HHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc---CCCchHHHHHHHHHHH
Q 013323          134 FEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNK---IPRADDTATKIIELVE  210 (445)
Q Consensus       134 ~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~---~~~~~~~a~~~~~~~~  210 (445)
                      |++..+.. +.+...|..+-..+.+.|++++|.+.|++..+.. +.+...+..+...+...   |+.  +.|...++...
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~--~~A~~~~~~al  155 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRAL--DVLSAQVRAAV  155 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTH--HHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccH--HHHHHHHHHHH
Confidence            88877643 2246778888888888888888888888877753 22456666666666666   544  66666666554


Q ss_pred             H
Q 013323          211 Q  211 (445)
Q Consensus       211 ~  211 (445)
                      +
T Consensus       156 ~  156 (568)
T 2vsy_A          156 A  156 (568)
T ss_dssp             H
T ss_pred             h
Confidence            4

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.13  E-value=9.8e-05  Score=55.66  Aligned_cols=119  Identities=9%  Similarity=-0.028  Sum_probs=67.3

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLIS  119 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  119 (445)
                      +...|..+...+...|+++.|.+.|+...+.. +.+...+..+...+...|++++|...++...+.. +.+...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            34455555666666666666666666665532 1245555556666666666666666666665542 223555666666


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCC
Q 013323          120 VCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQ  161 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~  161 (445)
                      .+.+.|++++|...|++..+.. +.+...+..+...+.+.|+
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            6666666666666666655432 1234455555555555544

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.12  E-value=0.00015  Score=61.18  Aligned_cols=166  Identities=13%  Similarity=0.026  Sum_probs=121.0

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCC-CCC-HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCH----HH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGV-QPT-RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDV----AV  113 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~  113 (445)
                      +...+..+-..+.+.|++++|...|+.+.+..- .|. ...+..+..++.+.|++++|...|+.+.+..  |+.    ..
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~--P~~~~~~~a   80 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN--PTHPNIDYV   80 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCcHHHH
Confidence            344555666778899999999999999987531 121 3567778889999999999999999998754  332    23


Q ss_pred             HHHHHHHHH------------------ccCCHHHHHHHHHHHHhCCCCccH-HHH-----------------HHHHHHHH
Q 013323          114 YNYLISVCG------------------KCKNSDQAIRIFEEMKKYEVKPNG-QTY-----------------VCLLNACA  157 (445)
Q Consensus       114 ~~~ll~~~~------------------~~g~~~~a~~~~~~m~~~g~~p~~-~~y-----------------~~li~~~~  157 (445)
                      +-.+-.++.                  ..|++++|...|++..+..  |+. ..+                 -.+...+.
T Consensus        81 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~  158 (225)
T 2yhc_A           81 MYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLVFLKDRLAKYEYSVAEYYT  158 (225)
T ss_dssp             HHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            333333443                  2578999999999998752  432 122                 23455678


Q ss_pred             HcCChhhHHHHHHHHHHcCCCCC----HHHHHHHHHHHHccCCCchHHHHHHHHHHHHhc
Q 013323          158 AAGQLDPVYAIVRDMTAAGAGLD----KFCYAGLITAHTNKIPRADDTATKIIELVEQSK  213 (445)
Q Consensus       158 ~~g~~~~a~~~~~~m~~~g~~p~----~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~  213 (445)
                      +.|++++|...|+.+.+..  |+    ...+..+..++.+.|+.  +.|.+.++.+....
T Consensus       159 ~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~--~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          159 ERGAWVAVVNRVEGMLRDY--PDTQATRDALPLMENAYRQMQMN--AQAEKVAKIIAANS  214 (225)
T ss_dssp             HHTCHHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHCC
T ss_pred             HcCcHHHHHHHHHHHHHHC--cCCCccHHHHHHHHHHHHHcCCc--HHHHHHHHHHHhhC
Confidence            8999999999999998863  33    24577778888898876  89999999877653

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.11  E-value=0.00099  Score=63.41  Aligned_cols=101  Identities=11%  Similarity=0.051  Sum_probs=71.5

Q ss_pred             CCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCC-hhHHHHHHHHHHHC-CCC-CCHHH
Q 013323           37 YANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSR-LQDTFFFRDQMKAN-GFL-PDVAV  113 (445)
Q Consensus        37 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~m~~~-g~~-p~~~~  113 (445)
                      +..-...|...+..+-. |+++.+..+|++-...  .|+...|...+.-..+.++ .+....+|+..... |.. ++...
T Consensus        11 i~~aR~vyer~l~~~P~-~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~i   87 (493)
T 2uy1_A           11 LSSPSAIMEHARRLYMS-KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGL   87 (493)
T ss_dssp             -CCHHHHHHHHHHHHHT-TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHH
T ss_pred             hHHHHHHHHHHHHHCCC-CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHH
Confidence            33444566667766655 8899999999988774  4899999888887776653 45677788877753 533 46788


Q ss_pred             HHHHHHHHHc----cCCHHHHHHHHHHHHhC
Q 013323          114 YNYLISVCGK----CKNSDQAIRIFEEMKKY  140 (445)
Q Consensus       114 ~~~ll~~~~~----~g~~~~a~~~~~~m~~~  140 (445)
                      |...+..+..    .++++.+.++|++....
T Consensus        88 W~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~  118 (493)
T 2uy1_A           88 YKEYIEEEGKIEDEQTRIEKIRNGYMRALQT  118 (493)
T ss_dssp             HHHHHHHTSSCSSHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHhchhhhHHHHHHHHHHHHHHhC
Confidence            8888876542    45688899999998873

>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=98.10  E-value=6.8e-05  Score=74.73  Aligned_cols=152  Identities=13%  Similarity=-0.011  Sum_probs=125.7

Q ss_pred             HhcCcHhHHHHHHHHHH--------HCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 013323           52 TSQRRFFLLRDVYDDMM--------LDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGK  123 (445)
Q Consensus        52 ~~~~~~~~a~~~~~~m~--------~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  123 (445)
                      ...|++++|++.+++..        +. -+.+...|..+-.++.+.|++++|...|++..+.+ +-+...|..+-.++.+
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            78899999999999987        32 23356678888889999999999999999998754 2467889999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHH
Q 013323          124 CKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTAT  203 (445)
Q Consensus       124 ~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~  203 (445)
                      .|++++|...|++..+.. +-+...|..+-.++.+.|++++ .+.|++..+.. +-+...|..+-.++.+.|+.  +.|.
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~--~~A~  554 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDR--VGAV  554 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH--HHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCH--HHHH
Confidence            999999999999988753 1256788999999999999999 99999998864 23567888888889888876  8888


Q ss_pred             HHHHHHH
Q 013323          204 KIIELVE  210 (445)
Q Consensus       204 ~~~~~~~  210 (445)
                      ..++...
T Consensus       555 ~~~~~al  561 (681)
T 2pzi_A          555 RTLDEVP  561 (681)
T ss_dssp             HHHHTSC
T ss_pred             HHHHhhc
Confidence            8887644

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.10  E-value=0.00012  Score=55.50  Aligned_cols=119  Identities=8%  Similarity=-0.017  Sum_probs=76.0

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYL  117 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  117 (445)
                      ..+...|..+-..+.+.|++++|.+.|++..+.. +.+...+..+-..+...|++++|...++...+.. +.+..++..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            3456667777777777777777777777776542 2255666666777777777777777777776643 2346667777


Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHc
Q 013323          118 ISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAA  159 (445)
Q Consensus       118 l~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~  159 (445)
                      ..++.+.|++++|...|++..+.. +.+...+..+...+.+.
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~  131 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLD-SSCKEAADGYQRCMMAQ  131 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-GGGTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHh
Confidence            777777777777777777766532 11234444444444443

>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=98.07  E-value=0.0003  Score=62.06  Aligned_cols=164  Identities=9%  Similarity=0.001  Sum_probs=119.7

Q ss_pred             HHHHHHHhcCcHhHHHHHHHHHHHCC-CCCCHH----HHHHHHHHHhcCCChhHHHHHHHHHHHCCCC-CC----HHHHH
Q 013323           46 TVVTSLTSQRRFFLLRDVYDDMMLDG-VQPTRD----LFHSLIVGTMKGSRLQDTFFFRDQMKANGFL-PD----VAVYN  115 (445)
Q Consensus        46 ~li~~~~~~~~~~~a~~~~~~m~~~g-~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~-p~----~~~~~  115 (445)
                      ..+..+...|++++|.+++++..+.. ..|+..    .+..+...+...+++++|...|+...+.... ++    ..+|+
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            34678889999999999999987743 223322    2334666677888999999999999874322 22    34799


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHh----C-CCCcc-HHHHHHHHHHHHHcCChhhHHHHHHHHHH----cCCCCC-HHHH
Q 013323          116 YLISVCGKCKNSDQAIRIFEEMKK----Y-EVKPN-GQTYVCLLNACAAAGQLDPVYAIVRDMTA----AGAGLD-KFCY  184 (445)
Q Consensus       116 ~ll~~~~~~g~~~~a~~~~~~m~~----~-g~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p~-~~~~  184 (445)
                      .+-..|...|++++|+..|++..+    . +..+. ..+|..+...|.+.|++++|...+++..+    .+..+. ..+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            999999999999999999999873    1 22222 34788999999999999999999998764    233333 5677


Q ss_pred             HHHHHHHHccCCCchHHHHHHHHHHH
Q 013323          185 AGLITAHTNKIPRADDTATKIIELVE  210 (445)
Q Consensus       185 ~~li~~~~~~~~~~~~~a~~~~~~~~  210 (445)
                      ..+-..+.+.|+. .+.|...++...
T Consensus       240 ~~lg~~~~~~g~~-~~~A~~~~~~Al  264 (293)
T 3u3w_A          240 YQRGECLRKLEYE-EAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHTTCC-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCc-HHHHHHHHHHHH
Confidence            7777788877731 256666665543

>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=98.06  E-value=5.4e-05  Score=61.19  Aligned_cols=161  Identities=9%  Similarity=0.004  Sum_probs=115.5

Q ss_pred             hHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH-H
Q 013323           43 EYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISV-C  121 (445)
Q Consensus        43 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~-~  121 (445)
                      .+...-..+.+.|++++|...|++..+.. +-+...+..+-..+.+.|++++|...|+...+..  |+...+..+... +
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLEL   84 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHH
Confidence            34556677888999999999998876532 2256678888888999999999999999887643  444433332211 2


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCCCch
Q 013323          122 GKCKNSDQAIRIFEEMKKYEVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGL-DKFCYAGLITAHTNKIPRAD  199 (445)
Q Consensus       122 ~~~g~~~~a~~~~~~m~~~g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~~~~  199 (445)
                      .+.++...|...|++..+.  .| +...+..+-..+...|++++|...|++..+..-.+ +...+..+...+...|+.  
T Consensus        85 ~~~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~--  160 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQG--  160 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSS--
T ss_pred             HhhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCC--
Confidence            2223334577888887764  34 57888889999999999999999999998864332 356778888888888877  


Q ss_pred             HHHHHHHHHHH
Q 013323          200 DTATKIIELVE  210 (445)
Q Consensus       200 ~~a~~~~~~~~  210 (445)
                      +.+...++...
T Consensus       161 ~~A~~~y~~al  171 (176)
T 2r5s_A          161 NAIASKYRRQL  171 (176)
T ss_dssp             CHHHHHHHHHH
T ss_pred             CcHHHHHHHHH
Confidence            66777776543

>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=98.06  E-value=0.00013  Score=71.23  Aligned_cols=154  Identities=6%  Similarity=-0.090  Sum_probs=110.5

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHH
Q 013323           89 GSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAI  168 (445)
Q Consensus        89 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~  168 (445)
                      .|++++|.+.|++..+.. +.+...|..+-..+.+.|++++|.+.|++..+.. +.+...|..+-..+...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            478899999999988754 2357889999999999999999999999998754 23578899999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhh
Q 013323          169 VRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHR  248 (445)
Q Consensus       169 ~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  248 (445)
                      |++..+.. +.+...+..+-..+.+.|+.  +.|...++...+..                                   
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~--~~A~~~~~~al~~~-----------------------------------  121 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQA--EAAAAAYTRAHQLL-----------------------------------  121 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHC-----------------------------------
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHhC-----------------------------------
Confidence            99998864 23577788888888888866  88888888766542                                   


Q ss_pred             hcCcccCchhHHHHHHHHHHhc---ccHHHHHHHHHHHHhCC
Q 013323          249 RGGFLSRLLTVYHVAFHACAEL---KDVQAMETLLEMLKKDR  287 (445)
Q Consensus       249 ~~g~~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~~  287 (445)
                           +.+...+..+...+...   |+.++|.+.+++..+.+
T Consensus       122 -----p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A          122 -----PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             -----TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             -----CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence                 44566788888888888   99999999999887653

>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=98.05  E-value=4.7e-05  Score=59.78  Aligned_cols=138  Identities=7%  Similarity=-0.099  Sum_probs=104.1

Q ss_pred             HHhcCcHhHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHH
Q 013323           51 LTSQRRFFLLRDVYDDMMLDGVQPTRD-LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQ  129 (445)
Q Consensus        51 ~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~  129 (445)
                      +...|++++|++.+......  .|+.. .+-.+-..|.+.|++++|.+.|+...+.. +-+..+|..+-.+|.+.|++++
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHH
Confidence            34568889999888876542  34332 35566778899999999999999998864 2468899999999999999999


Q ss_pred             HHHHHHHHHhCCCCc-cHHHHHHHHHHHHHcCChhhHHHH-HHHHHHcCCCC-CHHHHHHHHHHHHccC
Q 013323          130 AIRIFEEMKKYEVKP-NGQTYVCLLNACAAAGQLDPVYAI-VRDMTAAGAGL-DKFCYAGLITAHTNKI  195 (445)
Q Consensus       130 a~~~~~~m~~~g~~p-~~~~y~~li~~~~~~g~~~~a~~~-~~~m~~~g~~p-~~~~~~~li~~~~~~~  195 (445)
                      |...|++..+.  .| +..+|..+-..+.+.|+++++... ++...+.  .| +..+|...-..+...|
T Consensus        84 A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l--~P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           84 AVECYRRSVEL--NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL--FPGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH--STTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhC
Confidence            99999998875  34 577899999999999999877665 4777664  24 4555655555555544

>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=98.03  E-value=0.0003  Score=62.56  Aligned_cols=194  Identities=9%  Similarity=0.032  Sum_probs=108.6

Q ss_pred             CCChhHHHHHHHHHHHC------CCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCc-cHHHHHHHH
Q 013323           89 GSRLQDTFFFRDQMKAN------GFLPDV----AVYNYLISVCGKCKNSDQAIRIFEEMKKY----EVKP-NGQTYVCLL  153 (445)
Q Consensus        89 ~~~~~~a~~~~~~m~~~------g~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~y~~li  153 (445)
                      .|++++|.+++++..+.      ++.++.    ..|+.....|...|++++|...|.+..+.    |-.+ -..+|+.+.
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg   83 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKTSFMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAG   83 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCCSSSCSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccccccCCCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45667777777766542      112332    35666677788888888888888776542    2111 145777888


Q ss_pred             HHHHHcCChhhHHHHHHHHHHcC--C-CCC--HHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchh
Q 013323          154 NACAAAGQLDPVYAIVRDMTAAG--A-GLD--KFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENE  228 (445)
Q Consensus       154 ~~~~~~g~~~~a~~~~~~m~~~g--~-~p~--~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  228 (445)
                      ..|.+.|++++|...|++..+.-  . .|.  ..++..+-..|.. |+.  +.|...++.......              
T Consensus        84 ~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~--~~A~~~~~~Al~~~~--------------  146 (307)
T 2ifu_A           84 MMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDL--SKAVHLYQQAAAVFE--------------  146 (307)
T ss_dssp             HHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCH--HHHHHHHHHHHHHHH--------------
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCH--HHHHHHHHHHHHHHH--------------
Confidence            88888888888888888765421  0 111  2344445555555 543  666666655432100              


Q ss_pred             hcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhC----CCCCCH-HHHHHHHHHHH
Q 013323          229 MMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKD----RKSPDV-YIVMQNIRCYL  303 (445)
Q Consensus       229 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~-~~~~~li~~~~  303 (445)
                                          ..|.......+++.+-..+.+.|++++|...|+...+.    +..++. ..+..+...+.
T Consensus       147 --------------------~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~  206 (307)
T 2ifu_A          147 --------------------NEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQL  206 (307)
T ss_dssp             --------------------HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             --------------------hCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHH
Confidence                                00000011234556666666677777777666655432    111111 24444555555


Q ss_pred             hcCChhhHHHHHHHHH
Q 013323          304 HSGDIDNGHKVFEDYI  319 (445)
Q Consensus       304 ~~g~~~~a~~~~~~m~  319 (445)
                      ..|++++|...|++..
T Consensus       207 ~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          207 HRADYVAAQKCVRESY  222 (307)
T ss_dssp             HTTCHHHHHHHHHHHT
T ss_pred             HcCCHHHHHHHHHHHh
Confidence            6677777777766665

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.01  E-value=0.0018  Score=57.04  Aligned_cols=191  Identities=8%  Similarity=-0.018  Sum_probs=116.7

Q ss_pred             cccccccccceeecchHHHHHHhcCCCCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCC
Q 013323           12 KSVGGALGRRFFVTSAGAEEYARRNYANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSR   91 (445)
Q Consensus        12 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~   91 (445)
                      ......++... .+....-.+......|+..+...+...+...  ++........-.    +.....+...+..+...|+
T Consensus        18 ~~tq~~la~~~-~s~~~is~~e~g~~~~~~~~l~~l~~~l~~~--~~~l~~~~~~~~----~~~~~~l~~~~~~~~~~~~   90 (293)
T 2qfc_A           18 GLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQIP--IIHFYEVLIYSD----IERKKQFKDQVIMLCKQKR   90 (293)
T ss_dssp             TCCTTTTTTTT-SCHHHHHHHHTSSSCCCHHHHHHHTTTSCCC--THHHHHHHHHHH----HHHHHHHHHHHHHHHHTTC
T ss_pred             CCCHHHHHHHH-cCHHHHHHHHCCCCCCCHHHHHHHHHHhCcC--HHHHhccccccc----hhHHHHHHHHHHHHHHhhh
Confidence            33444555555 4443333333333457776554443333221  122111111110    1123455667778889999


Q ss_pred             hhHHHHHHHHHHHCCCCC-C----HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC---Ccc--HHHHHHHHHHHHHcCC
Q 013323           92 LQDTFFFRDQMKANGFLP-D----VAVYNYLISVCGKCKNSDQAIRIFEEMKKYEV---KPN--GQTYVCLLNACAAAGQ  161 (445)
Q Consensus        92 ~~~a~~~~~~m~~~g~~p-~----~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~---~p~--~~~y~~li~~~~~~g~  161 (445)
                      +++|.+.+++..+..-.. +    ...+..+...+...|++++|...|++..+...   .+.  ..+|+.+-..|...|+
T Consensus        91 y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~  170 (293)
T 2qfc_A           91 YKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGY  170 (293)
T ss_dssp             HHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHcCC
Confidence            999999999887753221 1    12344456667888999999999998875321   122  4588999999999999


Q ss_pred             hhhHHHHHHHHHH---c-CCCC--CHHHHHHHHHHHHccCCCchHHHHHHHHHHHH
Q 013323          162 LDPVYAIVRDMTA---A-GAGL--DKFCYAGLITAHTNKIPRADDTATKIIELVEQ  211 (445)
Q Consensus       162 ~~~a~~~~~~m~~---~-g~~p--~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~  211 (445)
                      +++|...|++..+   . +-.+  ...++..+-..|...|+.  +.|...++....
T Consensus       171 ~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y--~~Al~~~~kal~  224 (293)
T 2qfc_A          171 LKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRY--EESLYQVNKAIE  224 (293)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhH--HHHHHHHHHHHH
Confidence            9999999998873   2 1111  125777777788888866  778877776543

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=97.99  E-value=0.00018  Score=54.48  Aligned_cols=100  Identities=10%  Similarity=0.001  Sum_probs=86.6

Q ss_pred             CCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHH
Q 013323           74 PTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLL  153 (445)
Q Consensus        74 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li  153 (445)
                      .+...|..+-..+.+.|++++|...|+...+.. +.+..+|..+...+...|++++|...|++..+.. +.+...|..+.
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la   91 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKA   91 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHH
Confidence            355678888889999999999999999998764 2468889999999999999999999999988753 23678899999


Q ss_pred             HHHHHcCChhhHHHHHHHHHHc
Q 013323          154 NACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       154 ~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      ..+.+.|++++|...|++..+.
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHh
Confidence            9999999999999999998875

>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=97.98  E-value=0.00061  Score=56.56  Aligned_cols=92  Identities=10%  Similarity=-0.019  Sum_probs=59.9

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHH
Q 013323           79 FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA  158 (445)
Q Consensus        79 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~  158 (445)
                      +..+-..+...|++++|...|++..    .|+..+|..+-..|.+.|++++|...|++..... +.+...|..+-..+..
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~   83 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHH
Confidence            3344445566777777777776553    4566677777777777777777777777666542 2345666667777777


Q ss_pred             cCChhhHHHHHHHHHHc
Q 013323          159 AGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       159 ~g~~~~a~~~~~~m~~~  175 (445)
                      .|++++|...|++..+.
T Consensus        84 ~~~~~~A~~~~~~al~~  100 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQ  100 (213)
T ss_dssp             TTCHHHHHHHHHHHHHT
T ss_pred             cccHHHHHHHHHHHHHh
Confidence            77777777777766653

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=97.97  E-value=0.0011  Score=58.25  Aligned_cols=167  Identities=8%  Similarity=-0.021  Sum_probs=121.0

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCC-H----HHHHHHHHHHhcCCChhHHHHHHHHHHHCCC---CCC--
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPT-R----DLFHSLIVGTMKGSRLQDTFFFRDQMKANGF---LPD--  110 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~---~p~--  110 (445)
                      ...+...+..+...|++++|.+.++...+..-..+ .    ..+..+...+...|++++|...+++..+...   .+.  
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            34455677888999999999999988776532211 1    1233445566788999999999999875421   122  


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHh----CCCCc--cHHHHHHHHHHHHHcCChhhHHHHHHHHHHc----CCCCC
Q 013323          111 VAVYNYLISVCGKCKNSDQAIRIFEEMKK----YEVKP--NGQTYVCLLNACAAAGQLDPVYAIVRDMTAA----GAGLD  180 (445)
Q Consensus       111 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~----~g~~p--~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~  180 (445)
                      ..+|+.+-..|...|++++|...|++..+    .+-.+  ...+|..+...|.+.|++++|...+++..+.    +....
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~  234 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHH
Confidence            45899999999999999999999998762    11112  2268899999999999999999999987653    22222


Q ss_pred             -HHHHHHHHHHHHccCCCchHHH-HHHHHHH
Q 013323          181 -KFCYAGLITAHTNKIPRADDTA-TKIIELV  209 (445)
Q Consensus       181 -~~~~~~li~~~~~~~~~~~~~a-~~~~~~~  209 (445)
                       ..+|..+-..+.+.|+.  +.| ...++..
T Consensus       235 ~~~~~~~lg~~y~~~g~~--~~Ai~~~~~~A  263 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYE--EAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCC--HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCc--HHHHHHHHHHH
Confidence             56777777888888876  667 6655543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=97.96  E-value=0.00034  Score=52.52  Aligned_cols=119  Identities=10%  Similarity=-0.006  Sum_probs=96.1

Q ss_pred             CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHH
Q 013323           75 TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLN  154 (445)
Q Consensus        75 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~  154 (445)
                      +...+..+...+...|++++|...|+...+.. +.+...|..+...+...|++++|...+++..... +.+...|..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            44567777888899999999999999998754 3468889999999999999999999999988753 235778899999


Q ss_pred             HHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 013323          155 ACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIP  196 (445)
Q Consensus       155 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~  196 (445)
                      .+.+.|++++|...|++..+.. +.+...+..+...+...|+
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            9999999999999999998864 2255666666666665543

>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=97.95  E-value=0.0027  Score=52.84  Aligned_cols=166  Identities=7%  Similarity=-0.021  Sum_probs=128.7

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCC----ChhHHHHHHHHHHHCCCCCCHHHH
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGS----RLQDTFFFRDQMKANGFLPDVAVY  114 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~----~~~~a~~~~~~m~~~g~~p~~~~~  114 (445)
                      -++.++..+=..+...+++++|.+.|+...+.|   +...+..|-..+.. +    +.++|.+.|+...+.|   +...+
T Consensus        16 g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~   88 (212)
T 3rjv_A           16 GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGE   88 (212)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            467778888888888999999999999998876   56667777777777 6    8999999999998865   56778


Q ss_pred             HHHHHHHHc----cCCHHHHHHHHHHHHhCCCC-ccHHHHHHHHHHHHH----cCChhhHHHHHHHHHHcCCCCCHHHHH
Q 013323          115 NYLISVCGK----CKNSDQAIRIFEEMKKYEVK-PNGQTYVCLLNACAA----AGQLDPVYAIVRDMTAAGAGLDKFCYA  185 (445)
Q Consensus       115 ~~ll~~~~~----~g~~~~a~~~~~~m~~~g~~-p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~  185 (445)
                      ..|-..|..    .+++++|..+|++..+.|.. .+...+..+-..|..    .+++++|...|++..+.+  .+...+.
T Consensus        89 ~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~--~~~~a~~  166 (212)
T 3rjv_A           89 IVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLS--RTGYAEY  166 (212)
T ss_dssp             HHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTS--CTTHHHH
T ss_pred             HHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcC--CCHHHHH
Confidence            888888877    88999999999999887632 126788888888888    789999999999998872  2333455


Q ss_pred             HHHHHHHcc-C---CCchHHHHHHHHHHHHhc
Q 013323          186 GLITAHTNK-I---PRADDTATKIIELVEQSK  213 (445)
Q Consensus       186 ~li~~~~~~-~---~~~~~~a~~~~~~~~~~~  213 (445)
                      .+-..|... |   ..+.+.|...++.....+
T Consensus       167 ~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          167 WAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            555555432 2   335588888888876654

>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=97.94  E-value=9.8e-05  Score=57.90  Aligned_cols=122  Identities=8%  Similarity=-0.072  Sum_probs=92.6

Q ss_pred             HHhcCCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChh
Q 013323           85 GTMKGSRLQDTFFFRDQMKANGFLPD-VAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLD  163 (445)
Q Consensus        85 ~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~  163 (445)
                      .+...|++++|...++.....  .|+ ...+-.+-..|.+.|++++|++.|++..+.. +-+..+|..+-..+.+.|+++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~   82 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTD   82 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchH
Confidence            445667889999888887653  243 3456678889999999999999999998753 236789999999999999999


Q ss_pred             hHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHH
Q 013323          164 PVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQ  211 (445)
Q Consensus       164 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~  211 (445)
                      +|...|++..+.. +-+...+..+-..+.+.|+.+ +.+...++...+
T Consensus        83 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~-~aa~~~~~~al~  128 (150)
T 4ga2_A           83 KAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTD-GRAKYWVERAAK  128 (150)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSS-SHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChH-HHHHHHHHHHHH
Confidence            9999999998863 225778888888888888651 334444555444

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=97.94  E-value=0.00012  Score=57.49  Aligned_cols=98  Identities=9%  Similarity=-0.062  Sum_probs=81.1

Q ss_pred             HHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHH
Q 013323           77 DLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNAC  156 (445)
Q Consensus        77 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~  156 (445)
                      ..+..+-..+.+.|++++|...|+...+.. +.+...|..+-.+|.+.|++++|...|++..... +-+...|..+-.+|
T Consensus        37 ~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~  114 (151)
T 3gyz_A           37 DDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQ  114 (151)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHH
Confidence            356666677888999999999999998765 2468889999999999999999999999988753 22567888899999


Q ss_pred             HHcCChhhHHHHHHHHHHcC
Q 013323          157 AAAGQLDPVYAIVRDMTAAG  176 (445)
Q Consensus       157 ~~~g~~~~a~~~~~~m~~~g  176 (445)
                      .+.|++++|...|+...+..
T Consensus       115 ~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          115 LRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC
T ss_pred             HHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999988853

>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=97.92  E-value=7.2e-05  Score=60.39  Aligned_cols=122  Identities=8%  Similarity=0.026  Sum_probs=96.1

Q ss_pred             HhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHccCCH--H
Q 013323           52 TSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISV-CGKCKNS--D  128 (445)
Q Consensus        52 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~-~~~~g~~--~  128 (445)
                      ...|++++|...++...+.. +.+...|..+-..+...|++++|...|+...+.. +.+...+..+..+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchH
Confidence            45788888998888877653 2467788888899999999999999999988754 2367778888888 7789998  9


Q ss_pred             HHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcC
Q 013323          129 QAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAG  176 (445)
Q Consensus       129 ~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g  176 (445)
                      +|...|++..... +.+...|..+...+...|++++|...|++..+..
T Consensus        99 ~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           99 QTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            9999999988753 2346788889999999999999999999988853

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=97.92  E-value=0.00035  Score=52.77  Aligned_cols=96  Identities=7%  Similarity=-0.026  Sum_probs=65.4

Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHH
Q 013323           78 LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACA  157 (445)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~  157 (445)
                      .+...-..+.+.|++++|.+.|++..+.. +.+..+|..+-.+|.+.|++++|+..|++..+.+ +.+...|..+-.++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHH
Confidence            34455556667777777777777776643 2356677777777777777777777777766543 224566777777777


Q ss_pred             HcCChhhHHHHHHHHHHc
Q 013323          158 AAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       158 ~~g~~~~a~~~~~~m~~~  175 (445)
                      ..|++++|.+.|++..+.
T Consensus        93 ~~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQV  110 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHH
Confidence            777777777777777664

>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=97.92  E-value=0.00021  Score=64.47  Aligned_cols=128  Identities=7%  Similarity=-0.113  Sum_probs=75.3

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCC----------------HHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPT----------------RDLFHSLIVGTMKGSRLQDTFFFRDQMKA  104 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  104 (445)
                      ...|..+-..+.+.|++++|...|++..+..  |+                ...|..+-.++.+.|++++|...|+...+
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  224 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWL--EYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALE  224 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh--hccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4456666666777777777777777766543  22                35555666666666666666666666665


Q ss_pred             CCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhH-HHHHHHH
Q 013323          105 NGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPV-YAIVRDM  172 (445)
Q Consensus       105 ~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a-~~~~~~m  172 (445)
                      .. +.+...|..+-.+|...|++++|...|++..+.. +-+...+..+...+.+.|+.+++ ..+|+.|
T Consensus       225 ~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          225 LD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQRIRRQLAREKKLYANM  291 (336)
T ss_dssp             HC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            43 2345566666666666666666666666665532 12345555566666666666555 3344444

>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=97.88  E-value=0.008  Score=53.75  Aligned_cols=233  Identities=9%  Similarity=0.041  Sum_probs=151.7

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCC-ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 013323           44 YNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPT-RDLFHSLIVGTMKGS-RLQDTFFFRDQMKANGFLPDVAVYNYLISVC  121 (445)
Q Consensus        44 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  121 (445)
                      ++.+-....+.+..++|+++++.+...+  |+ ...|+.--..+...+ .+++++.+++.+.... +-+..+|+.--..+
T Consensus        57 ~~~~r~~~~~~e~se~AL~lt~~~L~~n--P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL  133 (349)
T 3q7a_A           57 MDYFRAIAAKEEKSERALELTEIIVRMN--PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLL  133 (349)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHhC--chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            3333344444556679999999998864  54 445777666666677 5999999999999876 24677888877777


Q ss_pred             Hcc-C-CHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChh--------hHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 013323          122 GKC-K-NSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLD--------PVYAIVRDMTAAGAGLDKFCYAGLITAH  191 (445)
Q Consensus       122 ~~~-g-~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~--------~a~~~~~~m~~~g~~p~~~~~~~li~~~  191 (445)
                      .+. + ++++++++++.+.+... .|...|+--.....+.|.++        ++++.++++.+... -|...|+.--..+
T Consensus       134 ~~l~~~~~~~EL~~~~k~L~~dp-kNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL  211 (349)
T 3q7a_A          134 DRISPQDPVSEIEYIHGSLLPDP-KNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLR  211 (349)
T ss_dssp             HHHCCSCCHHHHHHHHHHTSSCT-TCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHhcCCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            776 6 88999999999997653 47778877666666666666        89999999988753 3677777766666


Q ss_pred             HccCCC--c---hHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHH
Q 013323          192 TNKIPR--A---DDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHA  266 (445)
Q Consensus       192 ~~~~~~--~---~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~  266 (445)
                      .+.+..  .   .+.+...++.....                                        .+-|...|+-+-..
T Consensus       212 ~~l~~~~~~~~~~~eELe~~~~aI~~----------------------------------------~P~n~SaW~Ylr~L  251 (349)
T 3q7a_A          212 VSRPGAETSSRSLQDELIYILKSIHL----------------------------------------IPHNVSAWNYLRGF  251 (349)
T ss_dssp             TTSTTCCCCHHHHHHHHHHHHHHHHH----------------------------------------CTTCHHHHHHHHHH
T ss_pred             HhccccccchHHHHHHHHHHHHHHHh----------------------------------------CCCCHHHHHHHHHH
Confidence            665531  1   12222222222211                                        14556666655555


Q ss_pred             HHhcccH--------------------HHHHHHHHHHHhCC-----CCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          267 CAELKDV--------------------QAMETLLEMLKKDR-----KSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       267 ~~~~g~~--------------------~~a~~~~~~m~~~~-----~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      +.+.|+.                    .....+...+...+     -.+.......|...|...|+.++|.++++.+.+.
T Consensus       252 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          252 LKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             HHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            5444432                    23333333332221     1357778888999999999999999999998755

>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=97.88  E-value=0.00014  Score=63.86  Aligned_cols=99  Identities=8%  Similarity=-0.025  Sum_probs=75.2

Q ss_pred             CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHH
Q 013323           75 TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLN  154 (445)
Q Consensus        75 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~  154 (445)
                      +...+..+-..+.+.|++++|...|+...+.. +.+...|..+-.+|.+.|++++|...+++..+.. +-+...|..+-.
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            44556666677778888888888888877653 2367788888888888888888888888887653 235677888888


Q ss_pred             HHHHcCChhhHHHHHHHHHHc
Q 013323          155 ACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       155 ~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      ++...|++++|...|++..+.
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l  101 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSL  101 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            888888888888888887653

>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=97.84  E-value=0.00074  Score=49.54  Aligned_cols=95  Identities=7%  Similarity=-0.036  Sum_probs=47.8

Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHH
Q 013323           78 LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACA  157 (445)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~  157 (445)
                      .+..+...+...|++++|...|+...+.. +.+...+..+...+.+.|++++|...+++..+.. +.+...|..+...+.
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            34444444445555555555555554432 1234455555555555555555555555554432 123445555555555


Q ss_pred             HcCChhhHHHHHHHHHH
Q 013323          158 AAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       158 ~~g~~~~a~~~~~~m~~  174 (445)
                      ..|++++|...+++..+
T Consensus        84 ~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HTTCHHHHHHHHHHHHT
T ss_pred             HHhhHHHHHHHHHHHHH
Confidence            55555555555555544

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=97.84  E-value=0.013  Score=51.50  Aligned_cols=224  Identities=8%  Similarity=-0.038  Sum_probs=138.1

Q ss_pred             HhcCCChhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHccC--CHHHHHHHHHHHHhCCCCccHHHHHHHHHHH----HH
Q 013323           86 TMKGSRLQDTFFFRDQMKANGFLP-DVAVYNYLISVCGKCK--NSDQAIRIFEEMKKYEVKPNGQTYVCLLNAC----AA  158 (445)
Q Consensus        86 ~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g--~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~----~~  158 (445)
                      ..+....++|+.+++.+...+  | +..+||.--..+...|  ++++++++++.+..... -+..+|+.--..+    ..
T Consensus        43 ~~~~e~s~~aL~~t~~~L~~n--P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nP-k~y~aW~~R~~iL~~~~~~  119 (306)
T 3dra_A           43 MKAEEYSERALHITELGINEL--ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNE-KNYQIWNYRQLIIGQIMEL  119 (306)
T ss_dssp             HHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCT-TCCHHHHHHHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHC--cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCc-ccHHHHHHHHHHHHHHHHh
Confidence            334455578999999999865  5 4567888888888888  99999999999987532 2455666544444    44


Q ss_pred             c---CChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchh
Q 013323          159 A---GQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKE  235 (445)
Q Consensus       159 ~---g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  235 (445)
                      .   +++++++++++.+.+.. +-+-..|+.--..+.+.+....+.+...++.+....                      
T Consensus       120 l~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d----------------------  176 (306)
T 3dra_A          120 NNNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD----------------------  176 (306)
T ss_dssp             TTTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC----------------------
T ss_pred             ccccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC----------------------
Confidence            4   78999999999998864 235666665555555555542125666666665442                      


Q ss_pred             hhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhccc------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChh
Q 013323          236 ELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKD------VQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDID  309 (445)
Q Consensus       236 ~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~------~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  309 (445)
                                        +.|...|+.--..+.+.+.      ++++.+.++.+.... +-|...|+-+-..+.+.|+..
T Consensus       177 ------------------~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~  237 (306)
T 3dra_A          177 ------------------LKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSI  237 (306)
T ss_dssp             ------------------TTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCG
T ss_pred             ------------------CCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCCh
Confidence                              4566667665555555555      677777776665532 226666776666666666633


Q ss_pred             h-HHHHHHHHHhCC--CCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHh
Q 013323          310 N-GHKVFEDYICSE--KFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNS  358 (445)
Q Consensus       310 ~-a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~  358 (445)
                      . +..+...+...+  -..+...+..+.+    .|.+.|. ++|.++++.+.+
T Consensus       238 ~~~~~~~~~~~~~~~~~~~s~~al~~la~----~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          238 TQLEEFSLQFVDLEKDQVTSSFALETLAK----IYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             GGGHHHHHTTEEGGGTEESCHHHHHHHHH----HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCCCCCHHHHHHHHH----HHHccCCHHHHHHHHHHHHh
Confidence            3 344444443322  1123444444444    3344455 566666666554

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=97.84  E-value=0.00042  Score=56.93  Aligned_cols=63  Identities=13%  Similarity=0.003  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHh----CCCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHH
Q 013323          111 VAVYNYLISVCGKCKNSDQAIRIFEEMKK----YEVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMT  173 (445)
Q Consensus       111 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~----~g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~  173 (445)
                      ..+++.+-..+...|++++|...+++...    .|..| ...++..+-..+...|++++|...+++..
T Consensus        26 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al   93 (203)
T 3gw4_A           26 SGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEER   93 (203)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34455555555555555555555554433    11111 23344455555555555555555555443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=97.82  E-value=0.008  Score=57.13  Aligned_cols=345  Identities=10%  Similarity=-0.003  Sum_probs=181.6

Q ss_pred             HHHHHHhcCC--CCChhhHHHHHHHHHhcCc-HhHHHHHHHHHHH-CCCC-CCHHHHHHHHHHHhc----CCChhHHHHH
Q 013323           28 GAEEYARRNY--ANNASEYNTVVTSLTSQRR-FFLLRDVYDDMML-DGVQ-PTRDLFHSLIVGTMK----GSRLQDTFFF   98 (445)
Q Consensus        28 ~~~~~~~~~~--~p~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~-~g~~-p~~~~~~~ll~~~~~----~~~~~~a~~~   98 (445)
                      ......++.+  .|++..|...+....+.+. .+.+..+|+.... .|.. ++...|...+..+..    .++.+.+..+
T Consensus        32 ~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~i  111 (493)
T 2uy1_A           32 SLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNG  111 (493)
T ss_dssp             HHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHH
Confidence            4455555555  4899999999988888764 3556777877665 3533 366778888876543    4567888999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHH-------------ccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcC-C---
Q 013323           99 RDQMKANGFLPDVAVYNYLISVCG-------------KCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAG-Q---  161 (445)
Q Consensus        99 ~~~m~~~g~~p~~~~~~~ll~~~~-------------~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g-~---  161 (445)
                      |+.........-...|......-.             ..+.+..|..+++.....--..+...|...+.--...+ .   
T Consensus       112 y~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~  191 (493)
T 2uy1_A          112 YMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGG  191 (493)
T ss_dssp             HHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCH
T ss_pred             HHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcc
Confidence            999887321111122222221100             01122233333333322000012234444443322211 0   


Q ss_pred             ---hhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhc
Q 013323          162 ---LDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELY  238 (445)
Q Consensus       162 ---~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  238 (445)
                         .+.+..+|+++.... +.+...|-..+..+.+.|+.  +.+..+++..... ..+.....   ......  ..+..+
T Consensus       192 ~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~--~~ar~i~erAi~~-P~~~~l~~---~y~~~~--e~~~~~  262 (493)
T 2uy1_A          192 RPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQK--EKAKKVVERGIEM-SDGMFLSL---YYGLVM--DEEAVY  262 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHH-CCSSHHHH---HHHHHT--TCTHHH
T ss_pred             hhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCH--HHHHHHHHHHHhC-CCcHHHHH---HHHhhc--chhHHH
Confidence               233556677766642 33455555555555555543  6777777766655 22111100   000000  000000


Q ss_pred             -chhhhh--HHhhhcC--cccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCChhhHH
Q 013323          239 -NLPTAE--YVHRRGG--FLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLH-SGDIDNGH  312 (445)
Q Consensus       239 -~~~~~~--~~~~~~g--~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~-~g~~~~a~  312 (445)
                       .+....  ......+  ........|...+....+.++++.|..+|+.. +.. ..+..+|......-.. .++.+.|.
T Consensus       263 ~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar  340 (493)
T 2uy1_A          263 GDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPY  340 (493)
T ss_dssp             HHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHH
T ss_pred             HHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHH
Confidence             000000  0000000  00112345777777777888999999999988 321 1233444322222222 34799999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCCcchhhHHHHHhhcccCCChhhHHHHHH
Q 013323          313 KVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLSPRMGSDLLLVAAGEKSGGYTTANYIWD  391 (445)
Q Consensus       313 ~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~g~~~~A~~~~~  391 (445)
                      .+|+...+.- .-++..+...++    -..+.|. +.|..+|+...     .....|...+..-.  ..|+.+.+..+++
T Consensus       341 ~ife~al~~~-~~~~~~~~~yid----~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~--~~G~~~~~r~v~~  408 (493)
T 2uy1_A          341 NIFSSGLLKH-PDSTLLKEEFFL----FLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEF--MVGSMELFRELVD  408 (493)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHH----HHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHH--HHSCHHHHHHHHH
T ss_pred             HHHHHHHHHC-CCCHHHHHHHHH----HHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHH--HCCCHHHHHHHHH
Confidence            9999988762 112444555555    2345666 88999999973     13556777776555  7899999999998


Q ss_pred             HHHH
Q 013323          392 LMQA  395 (445)
Q Consensus       392 ~m~~  395 (445)
                      ++..
T Consensus       409 ~~~~  412 (493)
T 2uy1_A          409 QKMD  412 (493)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8873

>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=97.81  E-value=0.0008  Score=49.38  Aligned_cols=100  Identities=13%  Similarity=-0.027  Sum_probs=85.7

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLIS  119 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  119 (445)
                      ++..|..+...+...|++++|...|+...+.. +.+...+..+...+...|++++|...++...+.. +.+...+..+..
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~   80 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHH
Confidence            45677888889999999999999999988753 2367788888889999999999999999998764 246788999999


Q ss_pred             HHHccCCHHHHHHHHHHHHhCC
Q 013323          120 VCGKCKNSDQAIRIFEEMKKYE  141 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~~g  141 (445)
                      ++.+.|++++|...|++..+.+
T Consensus        81 ~~~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           81 ALEFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHhhHHHHHHHHHHHHHcC
Confidence            9999999999999999988753

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=97.81  E-value=0.00025  Score=58.33  Aligned_cols=157  Identities=11%  Similarity=-0.017  Sum_probs=104.3

Q ss_pred             HhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHH----CCCCC-CHHHHHHHHHHHHccCC
Q 013323           52 TSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKA----NGFLP-DVAVYNYLISVCGKCKN  126 (445)
Q Consensus        52 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~----~g~~p-~~~~~~~ll~~~~~~g~  126 (445)
                      ...|++++|.+.++.+... .......+..+-..+...|++++|...+++..+    .+..| ...+++.+-..+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            4678889998855555432 122455677788888889999999999888765    22222 34577888888899999


Q ss_pred             HHHHHHHHHHHHhC----CCCc--cHHHHHHHHHHHHHcCChhhHHHHHHHHHHc---CCCCC--HHHHHHHHHHHHccC
Q 013323          127 SDQAIRIFEEMKKY----EVKP--NGQTYVCLLNACAAAGQLDPVYAIVRDMTAA---GAGLD--KFCYAGLITAHTNKI  195 (445)
Q Consensus       127 ~~~a~~~~~~m~~~----g~~p--~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p~--~~~~~~li~~~~~~~  195 (445)
                      +++|...+++....    +-.|  ....+..+-..+...|++++|...+++..+.   .-.+.  ..++..+-..+...|
T Consensus        82 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g  161 (203)
T 3gw4_A           82 WDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEK  161 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCc
Confidence            99999988876542    2112  2456777888888899999999998887642   11111  223455666677777


Q ss_pred             CCchHHHHHHHHHHHH
Q 013323          196 PRADDTATKIIELVEQ  211 (445)
Q Consensus       196 ~~~~~~a~~~~~~~~~  211 (445)
                      +.  +.|...++....
T Consensus       162 ~~--~~A~~~~~~al~  175 (203)
T 3gw4_A          162 NL--LEAQQHWLRARD  175 (203)
T ss_dssp             CH--HHHHHHHHHHHH
T ss_pred             CH--HHHHHHHHHHHH
Confidence            65  777777766543

>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=97.81  E-value=0.0014  Score=51.56  Aligned_cols=96  Identities=9%  Similarity=0.007  Sum_probs=59.0

Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHH
Q 013323           78 LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACA  157 (445)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~  157 (445)
                      .|..+-..+...|++++|...|+...+.. +.+..+|..+..++...|++++|...|++..... +.+...|..+...+.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            34555555666677777777776666543 2345666666666666677777777666665532 224556666666666


Q ss_pred             HcCChhhHHHHHHHHHHc
Q 013323          158 AAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       158 ~~g~~~~a~~~~~~m~~~  175 (445)
                      ..|++++|...|++..+.
T Consensus        93 ~~~~~~~A~~~~~~a~~~  110 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKV  110 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHh
Confidence            666666666666666554

>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=97.80  E-value=0.00021  Score=53.79  Aligned_cols=96  Identities=9%  Similarity=0.044  Sum_probs=45.3

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCC--Ccc----HHHHHHH
Q 013323           79 FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEV--KPN----GQTYVCL  152 (445)
Q Consensus        79 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~--~p~----~~~y~~l  152 (445)
                      |..+-..+...|++++|...|+...+.. +.+...+..+...+...|++++|...|++......  .++    ..+|..+
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            3334444444455555555555444432 12344445555555555555555555555443210  011    3445555


Q ss_pred             HHHHHHcCChhhHHHHHHHHHHc
Q 013323          153 LNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       153 i~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      ...+.+.|++++|...|+...+.
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHh
Confidence            55555555555555555555543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=97.79  E-value=0.00028  Score=55.22  Aligned_cols=104  Identities=11%  Similarity=-0.064  Sum_probs=88.1

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLIS  119 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  119 (445)
                      +...|..+-..+.+.|++++|...|+...... +-+...|..+-.++...|++++|...|+...+.. +-+...|..+-.
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~  112 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHH
Confidence            45567777888999999999999999998864 2367788889999999999999999999999865 235778899999


Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCccHH
Q 013323          120 VCGKCKNSDQAIRIFEEMKKYEVKPNGQ  147 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~  147 (445)
                      +|.+.|++++|...|++..+.  .||..
T Consensus       113 ~~~~lg~~~eA~~~~~~al~l--~~~~~  138 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQH--SNDEK  138 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CCCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCHH
Confidence            999999999999999999875  35543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=97.79  E-value=0.00056  Score=51.63  Aligned_cols=106  Identities=10%  Similarity=0.004  Sum_probs=87.3

Q ss_pred             hhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 013323           42 SEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVC  121 (445)
Q Consensus        42 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  121 (445)
                      ..|...=..+.+.|++++|++.|++..+.. +.+...|..+-.++.+.|++++|...|+...+.+ +.+...|..+-.++
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHH
Confidence            456666678899999999999999988754 2367788889999999999999999999998865 24578899999999


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCcc-HHHHHH
Q 013323          122 GKCKNSDQAIRIFEEMKKYEVKPN-GQTYVC  151 (445)
Q Consensus       122 ~~~g~~~~a~~~~~~m~~~g~~p~-~~~y~~  151 (445)
                      ...|++++|.+.|++..+.  .|+ ...+..
T Consensus        92 ~~~~~~~~A~~~~~~al~l--~P~~~~a~~~  120 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQV--DPSNEEAREG  120 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH--CcCCHHHHHH
Confidence            9999999999999998874  354 334433

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.79  E-value=0.00025  Score=51.68  Aligned_cols=96  Identities=7%  Similarity=-0.091  Sum_probs=45.5

Q ss_pred             hhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCC--CHHHHHHHHH
Q 013323           42 SEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLP--DVAVYNYLIS  119 (445)
Q Consensus        42 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p--~~~~~~~ll~  119 (445)
                      ..|..+-..+.+.|++++|...|++..+.. +.+...|..+-..+...|++++|...|++..+.. +.  +...|..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~   84 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKAD   84 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHH
Confidence            344444455555555555555555554432 1233444444444445555555555555544432 11  2444444445


Q ss_pred             HHHcc-CCHHHHHHHHHHHHh
Q 013323          120 VCGKC-KNSDQAIRIFEEMKK  139 (445)
Q Consensus       120 ~~~~~-g~~~~a~~~~~~m~~  139 (445)
                      ++.+. |++++|.+.|+....
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGG
T ss_pred             HHHHHhCCHHHHHHHHHHHhh
Confidence            55555 555555555554443

>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=97.79  E-value=0.00054  Score=52.26  Aligned_cols=98  Identities=8%  Similarity=-0.021  Sum_probs=65.9

Q ss_pred             CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHH
Q 013323           75 TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLN  154 (445)
Q Consensus        75 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~  154 (445)
                      +...|..+-..+...|++++|...|+...+.. +.+...|..+-.++...|++++|...|++..... +.+...|..+-.
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            45566666666677777777777777766543 2346667777777777777777777777766543 224566777777


Q ss_pred             HHHHcCChhhHHHHHHHHHH
Q 013323          155 ACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       155 ~~~~~g~~~~a~~~~~~m~~  174 (445)
                      ++...|++++|...|++..+
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            77777777777777777655

>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=97.79  E-value=0.00031  Score=54.82  Aligned_cols=96  Identities=10%  Similarity=-0.022  Sum_probs=64.5

Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHH
Q 013323           78 LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACA  157 (445)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~  157 (445)
                      .+..+-..+.+.|++++|...|+...... +.+...|..+-.+|.+.|++++|...|++..... +.+...|..+-.++.
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~  100 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLL  100 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHH
Confidence            44555556667777777777777776543 2356667777777777777777777777776542 124566677777777


Q ss_pred             HcCChhhHHHHHHHHHHc
Q 013323          158 AAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       158 ~~g~~~~a~~~~~~m~~~  175 (445)
                      ..|++++|...|+...+.
T Consensus       101 ~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A          101 QXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            777777777777776653

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.78  E-value=0.00039  Score=50.61  Aligned_cols=99  Identities=5%  Similarity=-0.061  Sum_probs=84.9

Q ss_pred             HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCc--cHHHHHHHH
Q 013323           76 RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKP--NGQTYVCLL  153 (445)
Q Consensus        76 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~~y~~li  153 (445)
                      ...|..+-..+.+.|++++|...|+...+.. +.+...|..+-..+.+.|++++|...|++..+.. +.  +...|..+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~   83 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKA   83 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHH
Confidence            4456677778889999999999999998764 3467889999999999999999999999998763 22  578899999


Q ss_pred             HHHHHc-CChhhHHHHHHHHHHcC
Q 013323          154 NACAAA-GQLDPVYAIVRDMTAAG  176 (445)
Q Consensus       154 ~~~~~~-g~~~~a~~~~~~m~~~g  176 (445)
                      ..+.+. |++++|.+.++......
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhcc
Confidence            999999 99999999999998764

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.76  E-value=0.0017  Score=50.02  Aligned_cols=97  Identities=11%  Similarity=-0.050  Sum_probs=46.9

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCC----HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPT----RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYN  115 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~  115 (445)
                      +...|..+-..+...|+++.|.+.|++..+.  .|+    ...|..+-..+...|++++|...++...+.. +.+...|.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHH
Confidence            4445555555555566666666666555443  243    2334444444445555555555555444432 12334444


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHh
Q 013323          116 YLISVCGKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus       116 ~ll~~~~~~g~~~~a~~~~~~m~~  139 (445)
                      .+-.++...|++++|...|++...
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444444445555555555444443

>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=97.75  E-value=0.00085  Score=50.40  Aligned_cols=96  Identities=10%  Similarity=-0.032  Sum_probs=61.5

Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHH
Q 013323           78 LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACA  157 (445)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~  157 (445)
                      .|..+-..+.+.|++++|...|++..+.. +.+...|..+-.++.+.|++++|+..|++..+.. +.+...|..+-.++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            34445555666677777777776666543 2345667777777777777777777777666542 124556666777777


Q ss_pred             HcCChhhHHHHHHHHHHc
Q 013323          158 AAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       158 ~~g~~~~a~~~~~~m~~~  175 (445)
                      ..|++++|...|++..+.
T Consensus        84 ~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           84 AVKEYASALETLDAARTK  101 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHh
Confidence            777777777777766553

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.75  E-value=0.00041  Score=53.63  Aligned_cols=94  Identities=11%  Similarity=-0.029  Sum_probs=58.8

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHH
Q 013323           79 FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA  158 (445)
Q Consensus        79 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~  158 (445)
                      +..+-..+.+.|++++|...|+...... +.+...|..+-.+|.+.|++++|...|++..... +.+...|..+-.++..
T Consensus        21 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~   98 (142)
T 2xcb_A           21 LYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQ   98 (142)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHH
Confidence            3334445566677777777777666543 2355666666666777777777777777666543 1244556666666777


Q ss_pred             cCChhhHHHHHHHHHH
Q 013323          159 AGQLDPVYAIVRDMTA  174 (445)
Q Consensus       159 ~g~~~~a~~~~~~m~~  174 (445)
                      .|++++|...|+...+
T Consensus        99 ~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           99 LGDLDGAESGFYSARA  114 (142)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            7777777777766655

>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=97.73  E-value=0.00068  Score=50.89  Aligned_cols=112  Identities=10%  Similarity=-0.008  Sum_probs=90.2

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC--CCC----HHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGF--LPD----VAVY  114 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~--~p~----~~~~  114 (445)
                      ...|..+-..+...|+++.|...|+...+.. +.+...+..+...+...|++++|...++...+...  .++    ..+|
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            4567788889999999999999999988764 34677888888899999999999999999886531  122    7788


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHH
Q 013323          115 NYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNA  155 (445)
Q Consensus       115 ~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~  155 (445)
                      ..+..++.+.|++++|.+.|+...+.  .|+...+..+-..
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~  121 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQA  121 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHHHH
Confidence            89999999999999999999999875  3565555554443

>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=97.70  E-value=0.0011  Score=51.73  Aligned_cols=99  Identities=4%  Similarity=-0.096  Sum_probs=84.4

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLIS  119 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  119 (445)
                      +...+..+-..+.+.|++++|...|+...... +.+...|..+-.++...|++++|...|+...+.. +.+...|..+-.
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            45667777888999999999999999988754 2367788888889999999999999999998864 235678888999


Q ss_pred             HHHccCCHHHHHHHHHHHHhC
Q 013323          120 VCGKCKNSDQAIRIFEEMKKY  140 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~~  140 (445)
                      +|...|++++|...|+...+.
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999999988763

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.69  E-value=0.0013  Score=52.10  Aligned_cols=99  Identities=9%  Similarity=-0.058  Sum_probs=73.7

Q ss_pred             CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHH
Q 013323           75 TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLN  154 (445)
Q Consensus        75 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~  154 (445)
                      +...|..+-..+.+.|++++|...|++..+.. +-+...|..+-.+|.+.|++++|+..|++..+.. +-+...|..+-.
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            34456666667777888888888888777654 2367778888888888888888888888877653 224677888888


Q ss_pred             HHHHcCChhhHHHHHHHHHHc
Q 013323          155 ACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       155 ~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      ++...|++++|...|++..+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            888888888888888887764

>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=97.68  E-value=0.00076  Score=50.96  Aligned_cols=104  Identities=12%  Similarity=0.036  Sum_probs=70.6

Q ss_pred             HHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC--CCcc----HHHHHH
Q 013323           78 LFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYE--VKPN----GQTYVC  151 (445)
Q Consensus        78 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g--~~p~----~~~y~~  151 (445)
                      .+..+-..+.+.|++++|...|++..+.. +-+...|+.+-.+|.+.|++++|+..|++..+..  ..++    ..+|..
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            35556666777888888888888877653 2346777888888888888888888887766421  1111    235666


Q ss_pred             HHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHH
Q 013323          152 LLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCY  184 (445)
Q Consensus       152 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  184 (445)
                      +-.++...|++++|.+.|++....  .||..+.
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~  119 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLSE--FRDPELV  119 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHH
Confidence            777777888888888888877664  3454443

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.67  E-value=0.0015  Score=50.38  Aligned_cols=109  Identities=10%  Similarity=-0.029  Sum_probs=90.6

Q ss_pred             CCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHH
Q 013323           74 PTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD----VAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTY  149 (445)
Q Consensus        74 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y  149 (445)
                      .+...+..+-..+...|++++|...|+...+..  |+    ...|..+-.+|.+.|++++|...+++..+.. +.+...|
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            467778888889999999999999999998864  66    6888999999999999999999999987753 2357788


Q ss_pred             HHHHHHHHHcCChhhHHHHHHHHHHcCCCCC-HHHHHHH
Q 013323          150 VCLLNACAAAGQLDPVYAIVRDMTAAGAGLD-KFCYAGL  187 (445)
Q Consensus       150 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~l  187 (445)
                      ..+..++...|++++|...|++..+..  |+ ...+..+
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l  139 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSLE--PKNKVFQEAL  139 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC--SSCHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcC--CCcHHHHHHH
Confidence            899999999999999999999998753  44 4444433

>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=97.67  E-value=0.00076  Score=54.19  Aligned_cols=122  Identities=9%  Similarity=0.001  Sum_probs=94.8

Q ss_pred             HhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHH-HHHcCCh--
Q 013323           86 TMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNA-CAAAGQL--  162 (445)
Q Consensus        86 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~-~~~~g~~--  162 (445)
                      +...|++++|...++...+.. +.+...|..+-..|...|++++|...|++..... +.+...|..+... +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcch
Confidence            345788999999999988754 3467899999999999999999999999987643 2356778888888 7789998  


Q ss_pred             hhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHh
Q 013323          163 DPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQS  212 (445)
Q Consensus       163 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~  212 (445)
                      ++|...|++..+.. +-+...+..+-..+...|+.  +.|...++.....
T Consensus        98 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~--~~A~~~~~~al~~  144 (177)
T 2e2e_A           98 AQTRAMIDKALALD-SNEITALMLLASDAFMQANY--AQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccH--HHHHHHHHHHHhh
Confidence            99999999998864 23467777787888888866  8899998887654

>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=97.65  E-value=0.001  Score=54.68  Aligned_cols=124  Identities=6%  Similarity=-0.149  Sum_probs=69.3

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCC-CCC--------------HHHHHHHHHHHhcCCChhHHHHHHHHHHHC
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGV-QPT--------------RDLFHSLIVGTMKGSRLQDTFFFRDQMKAN  105 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~--------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  105 (445)
                      ...|..+-..+.+.|++++|.+.|++..+..- .|+              ...|..+-.++.+.|++++|...++...+.
T Consensus        38 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~  117 (198)
T 2fbn_A           38 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI  117 (198)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            34455666677777888888888877765321 110              145555555566666666666666666554


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHH
Q 013323          106 GFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVY  166 (445)
Q Consensus       106 g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~  166 (445)
                      . +.+...|..+-.+|...|++++|...|++..+.. +-+...+..+..++...++.+++.
T Consensus       118 ~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~  176 (198)
T 2fbn_A          118 D-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKD  176 (198)
T ss_dssp             S-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC--
T ss_pred             C-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHH
Confidence            2 2345556666666666666666666666655432 113444555555555544444444

>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=97.64  E-value=0.0012  Score=50.22  Aligned_cols=100  Identities=11%  Similarity=0.024  Sum_probs=86.8

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYL  117 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  117 (445)
                      ..+...|..+-..+...|++++|...|+...+.. +.+...|..+-..+...|++++|...++...+.. +.+...|..+
T Consensus         6 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   83 (137)
T 3q49_B            6 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFL   83 (137)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHH
Confidence            3567788888999999999999999999988764 2357788888999999999999999999998865 2467889999


Q ss_pred             HHHHHccCCHHHHHHHHHHHHh
Q 013323          118 ISVCGKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus       118 l~~~~~~g~~~~a~~~~~~m~~  139 (445)
                      -.++...|++++|...|++...
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHH
Confidence            9999999999999999998875

>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=97.64  E-value=0.0018  Score=48.56  Aligned_cols=98  Identities=9%  Similarity=0.006  Sum_probs=84.0

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISV  120 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  120 (445)
                      ...|..+-..+.+.|++++|.+.|++..+.. +.+...|..+-.++.+.|++++|...|+...+.. +.+...|..+-.+
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHH
Confidence            4566777788899999999999999988754 2367788899999999999999999999999865 2457889999999


Q ss_pred             HHccCCHHHHHHHHHHHHhC
Q 013323          121 CGKCKNSDQAIRIFEEMKKY  140 (445)
Q Consensus       121 ~~~~g~~~~a~~~~~~m~~~  140 (445)
                      +...|++++|...|++..+.
T Consensus        82 ~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHh
Confidence            99999999999999988764

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.63  E-value=0.00077  Score=52.01  Aligned_cols=99  Identities=5%  Similarity=-0.084  Sum_probs=83.0

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLIS  119 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  119 (445)
                      +...+..+-..+.+.|++++|...|+...... +.+...|..+-.++.+.|++++|...|+...+.. +.+...|..+-.
T Consensus        17 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~   94 (142)
T 2xcb_A           17 TLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHH
Confidence            34455666778889999999999999988754 2367778888889999999999999999999865 245678888999


Q ss_pred             HHHccCCHHHHHHHHHHHHhC
Q 013323          120 VCGKCKNSDQAIRIFEEMKKY  140 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~~  140 (445)
                      +|...|++++|...|+...+.
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999999988764

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.59  E-value=0.0005  Score=53.84  Aligned_cols=134  Identities=10%  Similarity=-0.012  Sum_probs=94.6

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHhcCCChhHHHHHHHHHHHC----CCCC-C
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGV-QPT----RDLFHSLIVGTMKGSRLQDTFFFRDQMKAN----GFLP-D  110 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~p-~  110 (445)
                      ..++..+-..+...|++++|.+.+++..+..- .++    ..++..+-..+...|++++|...+++..+.    +-.+ .
T Consensus         9 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~   88 (164)
T 3ro3_A            9 GRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVE   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHH
Confidence            34667777888889999999998888765311 012    135677777788899999999988887642    1111 1


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCC-ccHHHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          111 VAVYNYLISVCGKCKNSDQAIRIFEEMKKY----EVK-PNGQTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       111 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g~~-p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      ..++..+-..+...|++++|...+++..+.    +-. ....++..+...+...|++++|.+.+++..+
T Consensus        89 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           89 AQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            456777888888899999998888876532    211 1245677778888888999999888887655

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.57  E-value=0.00021  Score=53.13  Aligned_cols=103  Identities=12%  Similarity=-0.048  Sum_probs=67.2

Q ss_pred             CCChhHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHH
Q 013323           89 GSRLQDTFFFRDQMKANG--FLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVY  166 (445)
Q Consensus        89 ~~~~~~a~~~~~~m~~~g--~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~  166 (445)
                      .|++++|...|++..+.+  -+.+...|..+-.+|.+.|++++|...|++..+... -+...+..+..++.+.|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFP-NHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHcCCHHHHH
Confidence            467778888888877753  122456677777888888888888888888776532 24667777888888888888888


Q ss_pred             HHHHHHHHcC-CCCCHHHHHHHHHHHH
Q 013323          167 AIVRDMTAAG-AGLDKFCYAGLITAHT  192 (445)
Q Consensus       167 ~~~~~m~~~g-~~p~~~~~~~li~~~~  192 (445)
                      ..|++..+.. -.|+...|...+..+.
T Consensus        82 ~~~~~al~~~p~~~~~~~~~~ai~~~~  108 (117)
T 3k9i_A           82 ELLLKIIAETSDDETIQSYKQAILFYA  108 (117)
T ss_dssp             HHHHHHHHHHCCCHHHHHTHHHHHHHT
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            8888776642 2333444444554444

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.57  E-value=0.0011  Score=57.20  Aligned_cols=138  Identities=11%  Similarity=-0.086  Sum_probs=103.7

Q ss_pred             HHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC--HHHHHHHHHHHH
Q 013323           45 NTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD--VAVYNYLISVCG  122 (445)
Q Consensus        45 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~ll~~~~  122 (445)
                      -.+...+...|++++|.++|+.+...+  |+....-.+-..+.+.+++++|+..|+...+.. .|.  ...+..+-.++.
T Consensus       106 LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~  182 (282)
T 4f3v_A          106 MGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAA  182 (282)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHH
Confidence            345678889999999999999887644  654444444457889999999999998555432 111  246777888999


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCcc--HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHH
Q 013323          123 KCKNSDQAIRIFEEMKKYEVKPN--GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGL  187 (445)
Q Consensus       123 ~~g~~~~a~~~~~~m~~~g~~p~--~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  187 (445)
                      +.|++++|+..|++.......|.  .......-.++.+.|+.++|..+|+++....  |+......|
T Consensus       183 ~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~--P~~~~~~aL  247 (282)
T 4f3v_A          183 NLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH--PEPKVAAAL  247 (282)
T ss_dssp             HTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--CCHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcHHHHHHH
Confidence            99999999999999985443253  4466777788889999999999999999864  554444444

>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=97.56  E-value=0.0015  Score=57.19  Aligned_cols=98  Identities=9%  Similarity=-0.121  Sum_probs=81.1

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHH
Q 013323          110 DVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLIT  189 (445)
Q Consensus       110 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  189 (445)
                      +...+..+-..+.+.|++++|...|++..... +-+...|..+-.++.+.|++++|...+++..+.. +-+...+..+-.
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            56678888899999999999999999988753 2267889999999999999999999999988753 235677788888


Q ss_pred             HHHccCCCchHHHHHHHHHHHH
Q 013323          190 AHTNKIPRADDTATKIIELVEQ  211 (445)
Q Consensus       190 ~~~~~~~~~~~~a~~~~~~~~~  211 (445)
                      ++...|+.  +.|...++....
T Consensus        81 ~~~~~g~~--~~A~~~~~~al~  100 (281)
T 2c2l_A           81 CQLEMESY--DEAIANLQRAYS  100 (281)
T ss_dssp             HHHHTTCH--HHHHHHHHHHHH
T ss_pred             HHHHcCCH--HHHHHHHHHHHH
Confidence            88888866  888888877654

>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=97.55  E-value=0.0027  Score=57.15  Aligned_cols=98  Identities=10%  Similarity=-0.066  Sum_probs=61.7

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcc--------------HHHHHHHHHHHHHcCChhhHHHHHHHHHHcC
Q 013323          111 VAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPN--------------GQTYVCLLNACAAAGQLDPVYAIVRDMTAAG  176 (445)
Q Consensus       111 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~--------------~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g  176 (445)
                      ...|..+-..|.+.|++++|...|++.....-...              ...|..+-.++.+.|++++|...|++..+..
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  226 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD  226 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            45666677777777777777777777665321111              3667777777777777777777777776643


Q ss_pred             CCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHH
Q 013323          177 AGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQ  211 (445)
Q Consensus       177 ~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~  211 (445)
                       +.+...+..+-.++...|+.  +.|...++....
T Consensus       227 -p~~~~a~~~lg~~~~~~g~~--~~A~~~~~~al~  258 (336)
T 1p5q_A          227 -SNNEKGLSRRGEAHLAVNDF--ELARADFQKVLQ  258 (336)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHH
T ss_pred             -CCcHHHHHHHHHHHHHCCCH--HHHHHHHHHHHH
Confidence             22455555565666666654  666666665544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.54  E-value=0.0019  Score=51.07  Aligned_cols=100  Identities=5%  Similarity=-0.046  Sum_probs=86.8

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLI  118 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  118 (445)
                      .+...|..+-..+.+.|++++|++.|++..+.. +-+...|..+-.++.+.|++++|...|+...+.. +.+...|..+-
T Consensus         9 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg   86 (164)
T 3sz7_A            9 PESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            356678888899999999999999999988754 2367788889999999999999999999999865 23588999999


Q ss_pred             HHHHccCCHHHHHHHHHHHHhC
Q 013323          119 SVCGKCKNSDQAIRIFEEMKKY  140 (445)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~m~~~  140 (445)
                      .+|.+.|++++|...|++..+.
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHh
Confidence            9999999999999999998764

>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=97.52  E-value=0.0012  Score=62.72  Aligned_cols=160  Identities=8%  Similarity=-0.022  Sum_probs=115.1

Q ss_pred             HHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHH
Q 013323           49 TSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSD  128 (445)
Q Consensus        49 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~  128 (445)
                      ..+.+.|++++|.+.|++..+.. +-+...|..+-.++.+.|++++|...+++..+.. +.+..+|..+-.+|.+.|+++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            34567899999999999988753 2357789999999999999999999999999875 246788999999999999999


Q ss_pred             HHHHHHHHHHhCCCCccHHHHHHHHHH--HHHcCChhhHHHHHHH-----------HHHc-----CC-----CCCHHHHH
Q 013323          129 QAIRIFEEMKKYEVKPNGQTYVCLLNA--CAAAGQLDPVYAIVRD-----------MTAA-----GA-----GLDKFCYA  185 (445)
Q Consensus       129 ~a~~~~~~m~~~g~~p~~~~y~~li~~--~~~~g~~~~a~~~~~~-----------m~~~-----g~-----~p~~~~~~  185 (445)
                      +|++.|++..+..- -+...+..+-.+  +.+.|++++|.+.+++           ....     |.     ..+.....
T Consensus        92 eA~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~itl~~l~  170 (477)
T 1wao_1           92 AALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEHKRSVVDSLDIESMTIEDEYSGPKLEDGKVTISFMK  170 (477)
T ss_dssp             HHHHHHHHHHHHST-TCTTHHHHHHHHHHHHHHHHHCCC------CCSTTTCCTTSSCCCCTTCCSCCCGGGSCCHHHHH
T ss_pred             HHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHhccccccchhHhhhhhhhccccccccccccccccccHHHHH
Confidence            99999999877421 133455555555  8888999999999882           2110     00     12455667


Q ss_pred             HHHHHHHccCCCchHHHHHHHHHHHH
Q 013323          186 GLITAHTNKIPRADDTATKIIELVEQ  211 (445)
Q Consensus       186 ~li~~~~~~~~~~~~~a~~~~~~~~~  211 (445)
                      .++..+.+.+....+.+..++.....
T Consensus       171 ~lie~l~~~~~l~e~~v~~L~~~a~e  196 (477)
T 1wao_1          171 ELMQWYKDQKKLHRKCAYQILVQVKE  196 (477)
T ss_dssp             HHHHHHHTCCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            78888877777766666666655443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.51  E-value=0.018  Score=53.49  Aligned_cols=199  Identities=11%  Similarity=0.023  Sum_probs=113.6

Q ss_pred             HHHccCCHHHHHHHHHHHHhCCCCc-c---------------HHHHHHHHHHHHHcCChhhHHHHHHHHHHc-CCCCCHH
Q 013323          120 VCGKCKNSDQAIRIFEEMKKYEVKP-N---------------GQTYVCLLNACAAAGQLDPVYAIVRDMTAA-GAGLDKF  182 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~~g~~p-~---------------~~~y~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~  182 (445)
                      .+.+.|++++|++.|....+..-.. +               ...+..+...|...|++++|.+.+...... +-.++..
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            3455666667776666665432110 0               123566777778888888888877776542 1112222


Q ss_pred             ---HHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhH
Q 013323          183 ---CYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTV  259 (445)
Q Consensus       183 ---~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~  259 (445)
                         .....+..+... ....+.+..+++......                                  ...+....-..+
T Consensus        93 ~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~----------------------------------~~~~~~~~~~~~  137 (434)
T 4b4t_Q           93 TVKVLKTLIEKFEQV-PDSLDDQIFVCEKSIEFA----------------------------------KREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHHCSC-CSCHHHHHHHHHHHHHHH----------------------------------HHSSCCSSHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHH----------------------------------HHhCccHHHHHH
Confidence               222223322221 113356666655543321                                  000111223456


Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhC--C--CCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhC--CCCCCH----H
Q 013323          260 YHVAFHACAELKDVQAMETLLEMLKKD--R--KSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICS--EKFPPA----E  328 (445)
Q Consensus       260 ~~~li~~~~~~g~~~~a~~~~~~m~~~--~--~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~~----~  328 (445)
                      +..+...+...|++++|..++......  +  -.| ...+|..++..|...|++++|..+++.....  .+..+.    .
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            778889999999999999999877543  2  122 2457888999999999999999999887653  222122    2


Q ss_pred             HHHHHHHhHhhcCChhhH-HHHHHHHHHHH
Q 013323          329 LYATLVEGAMFGYTPKGM-QLAQDTLVNMN  357 (445)
Q Consensus       329 ~~~~li~~~~~~~~~~g~-~~a~~~~~~m~  357 (445)
                      .+..+..    .+...+. +.|...|.+..
T Consensus       218 ~~~~~g~----~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          218 LDLMSGI----LHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             HHHHHHH----HTTSSSCHHHHHHHHHHHH
T ss_pred             HHHHHHH----HHHHHHhHHHHHHHHHHHH
Confidence            2222222    3556665 77766665543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=97.45  E-value=0.0062  Score=52.61  Aligned_cols=199  Identities=9%  Similarity=-0.022  Sum_probs=115.7

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHH-------HHHHHccCCHHHHHHHHHHHHhCCCCcc---------------
Q 013323           88 KGSRLQDTFFFRDQMKANGFLPDVAVYNYL-------ISVCGKCKNSDQAIRIFEEMKKYEVKPN---------------  145 (445)
Q Consensus        88 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l-------l~~~~~~g~~~~a~~~~~~m~~~g~~p~---------------  145 (445)
                      ..++...|.+.|.+..+.. +-....|+.+       ...+.+.+...+++..+..-..  +.|+               
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~   94 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDI   94 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCC
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCccccc
Confidence            4677888888888877754 1235666666       3444444444444444433322  2221               


Q ss_pred             -------HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccc
Q 013323          146 -------GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSV  218 (445)
Q Consensus       146 -------~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  218 (445)
                             ...+-.....+...|++++|.++|+.+...+  |+....-.+-..+.+.++.  +.+...++....   ++  
T Consensus        95 ~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~--~dA~~~l~~a~~---~~--  165 (282)
T 4f3v_A           95 TYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERW--TDVIDQVKSAGK---WP--  165 (282)
T ss_dssp             EEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCH--HHHHHHHTTGGG---CS--
T ss_pred             ccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCH--HHHHHHHHHhhc---cC--
Confidence                   1223445566777788888888887776643  4333222222234444544  666666642111   00  


Q ss_pred             cccccccchhhcccchhhhcchhhhhHHhhhcCcccC--chhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCC--HHH
Q 013323          219 ETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSR--LLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPD--VYI  294 (445)
Q Consensus       219 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~  294 (445)
                                                         .|  ....+..+-.++...|++++|...|++.......|.  ...
T Consensus       166 -----------------------------------d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da  210 (282)
T 4f3v_A          166 -----------------------------------DKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAI  210 (282)
T ss_dssp             -----------------------------------CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHH
T ss_pred             -----------------------------------CcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHH
Confidence                                               01  122455677778889999999999998775433254  224


Q ss_pred             HHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHH
Q 013323          295 VMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVE  335 (445)
Q Consensus       295 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  335 (445)
                      ....-.++.+.|+.++|..+|+++...  .|+...+..|..
T Consensus       211 ~~~~glaL~~lGr~deA~~~l~~a~a~--~P~~~~~~aL~~  249 (282)
T 4f3v_A          211 AWYLAMARRSQGNESAAVALLEWLQTT--HPEPKVAAALKD  249 (282)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--SCCHHHHHHHHC
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcHHHHHHHhC
Confidence            455667788899999999999998876  355555555544

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.43  E-value=0.0026  Score=47.67  Aligned_cols=87  Identities=7%  Similarity=-0.093  Sum_probs=37.4

Q ss_pred             HHHHhcCcHhHHHHHHHHHHHCCCCCCH----HHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC----HHHHHHHHHH
Q 013323           49 TSLTSQRRFFLLRDVYDDMMLDGVQPTR----DLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD----VAVYNYLISV  120 (445)
Q Consensus        49 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~ll~~  120 (445)
                      ..+.+.|++++|.+.|+...+..  |+.    ..+..+-.++.+.|++++|...|+...+..  |+    ..++..+-.+
T Consensus        10 ~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la~~   85 (129)
T 2xev_A           10 FDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHH
Confidence            33444555555555555544421  111    233333344444444444444444444322  21    2334444444


Q ss_pred             HHccCCHHHHHHHHHHHHh
Q 013323          121 CGKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus       121 ~~~~g~~~~a~~~~~~m~~  139 (445)
                      +.+.|++++|...|+....
T Consensus        86 ~~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            4444444444444444443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.42  E-value=0.0012  Score=49.40  Aligned_cols=94  Identities=10%  Similarity=0.002  Sum_probs=50.7

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 013323           44 YNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGK  123 (445)
Q Consensus        44 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  123 (445)
                      +..+-..+.+.|++++|...|+...+.. +-+...|..+-.++...|++++|...|+...+.. +-+...+..+-.++.+
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            3344445555666666666666655532 1144445555555555666666666666555533 1234455555555666


Q ss_pred             cCCHHHHHHHHHHHHh
Q 013323          124 CKNSDQAIRIFEEMKK  139 (445)
Q Consensus       124 ~g~~~~a~~~~~~m~~  139 (445)
                      .|++++|...|++..+
T Consensus        98 ~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           98 EHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            6666666666655543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.40  E-value=0.0079  Score=55.95  Aligned_cols=64  Identities=8%  Similarity=0.025  Sum_probs=42.5

Q ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 013323          257 LTVYHVAFHACAELKDVQAMETLLEMLKKD----RKSPD--VYIVMQNIRCYLHSGDIDNGHKVFEDYIC  320 (445)
Q Consensus       257 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~  320 (445)
                      ..+|..++..|...|++++|..+++.....    +.+|.  ...+..+...+...|++++|...|.+..+
T Consensus       175 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          175 VDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            346777788888888888888888765432    11111  23556666677778888888777766543

>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=97.37  E-value=0.002  Score=48.54  Aligned_cols=107  Identities=9%  Similarity=0.035  Sum_probs=83.0

Q ss_pred             hhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCC--CCCC----HHHHH
Q 013323           42 SEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANG--FLPD----VAVYN  115 (445)
Q Consensus        42 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g--~~p~----~~~~~  115 (445)
                      .+|..+=..+.+.|++++|++.|++..+.. +-+...|..+-.++.+.|++++|.+.++...+..  ..++    ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            345666678889999999999999988753 2356778888899999999999999999987642  1122    24677


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHH
Q 013323          116 YLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVC  151 (445)
Q Consensus       116 ~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~  151 (445)
                      .+-.++...|++++|++.|++....  .||..+...
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~  121 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVKK  121 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHHH
Confidence            7888899999999999999988763  466655443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.36  E-value=0.00039  Score=51.63  Aligned_cols=104  Identities=9%  Similarity=-0.061  Sum_probs=75.0

Q ss_pred             hcCcHhHHHHHHHHHHHCCC-CC-CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHH
Q 013323           53 SQRRFFLLRDVYDDMMLDGV-QP-TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQA  130 (445)
Q Consensus        53 ~~~~~~~a~~~~~~m~~~g~-~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a  130 (445)
                      ..|++++|+..|++..+.+. .| +...|..+-..+.+.|++++|...|++..+.. +-+..++..+-.++.+.|++++|
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHH
Confidence            46888999999999887541 13 34567888888999999999999999998865 23578889999999999999999


Q ss_pred             HHHHHHHHhCC-CCccHHHHHHHHHHHH
Q 013323          131 IRIFEEMKKYE-VKPNGQTYVCLLNACA  157 (445)
Q Consensus       131 ~~~~~~m~~~g-~~p~~~~y~~li~~~~  157 (445)
                      ...|++..... -.|+...|...+..+.
T Consensus        81 ~~~~~~al~~~p~~~~~~~~~~ai~~~~  108 (117)
T 3k9i_A           81 VELLLKIIAETSDDETIQSYKQAILFYA  108 (117)
T ss_dssp             HHHHHHHHHHHCCCHHHHHTHHHHHHHT
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            99999887642 2233444444444443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.36  E-value=0.0022  Score=48.06  Aligned_cols=91  Identities=12%  Similarity=0.074  Sum_probs=73.3

Q ss_pred             HHHHHhcCCChhHHHHHHHHHHHCCCCCC-H---HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcc----HHHHHHHH
Q 013323           82 LIVGTMKGSRLQDTFFFRDQMKANGFLPD-V---AVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPN----GQTYVCLL  153 (445)
Q Consensus        82 ll~~~~~~~~~~~a~~~~~~m~~~g~~p~-~---~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~----~~~y~~li  153 (445)
                      +-..+.+.|++++|...|+...+..  |+ .   ..+..+-.++.+.|++++|...|+......  |+    ...+..+.
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la   83 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHH
Confidence            3445678899999999999988754  33 2   477778888999999999999999987743  33    56788888


Q ss_pred             HHHHHcCChhhHHHHHHHHHHcC
Q 013323          154 NACAAAGQLDPVYAIVRDMTAAG  176 (445)
Q Consensus       154 ~~~~~~g~~~~a~~~~~~m~~~g  176 (445)
                      .++...|++++|...|+...+..
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC
Confidence            88999999999999999988763

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.34  E-value=0.0018  Score=48.29  Aligned_cols=95  Identities=8%  Similarity=-0.007  Sum_probs=80.0

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHH
Q 013323           79 FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA  158 (445)
Q Consensus        79 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~  158 (445)
                      +..+-..+.+.|++++|...|+...+.. +.+...|..+-.++.+.|++++|+..|++..+... -+...|..+...+.+
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHH
Confidence            4445566788999999999999999864 23688899999999999999999999999887531 257788999999999


Q ss_pred             cCChhhHHHHHHHHHHc
Q 013323          159 AGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       159 ~g~~~~a~~~~~~m~~~  175 (445)
                      .|++++|...|++..+.
T Consensus        98 ~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           98 EHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHC-
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            99999999999998764

>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=97.19  E-value=0.0038  Score=58.87  Aligned_cols=122  Identities=10%  Similarity=-0.077  Sum_probs=70.8

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCC----------------HHHHHHHHHHHhcCCChhHHHHHHHHHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPT----------------RDLFHSLIVGTMKGSRLQDTFFFRDQMKA  104 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~  104 (445)
                      ...|..+-..+.+.|+++.|...|++..+..  |+                ...|..+-.++.+.|++++|...++...+
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  345 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL--EMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALG  345 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            3355566666777777777777777766532  22                34555566666666666666666666665


Q ss_pred             CCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHH
Q 013323          105 NGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVY  166 (445)
Q Consensus       105 ~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~  166 (445)
                      .. +.+...|..+-.+|.+.|++++|...|++..+.. +-+...|..+-..+.+.++.+++.
T Consensus       346 ~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          346 LD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             HS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             cC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            43 2245566666666666666666666666665532 113345555555555555555443

>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=97.17  E-value=0.014  Score=47.66  Aligned_cols=126  Identities=12%  Similarity=-0.025  Sum_probs=70.7

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCC-CCC--------------HH
Q 013323           48 VTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGF-LPD--------------VA  112 (445)
Q Consensus        48 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~-~p~--------------~~  112 (445)
                      +......|+++.+.+.|+.-.... ......+..+-..+.+.|++++|...|++..+..- .|+              ..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~   89 (198)
T 2fbn_A           11 SSGRENLYFQGAKKSIYDYTDEEK-VQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEIS   89 (198)
T ss_dssp             -----------CCCSGGGCCHHHH-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhccccCchhhCCHHHH-HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHH
Confidence            333444555555555554222110 01233455566667777888888888887776421 110              25


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHc
Q 013323          113 VYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       113 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      +|..+-.+|.+.|++++|+..++...... +.+...|..+-.++...|++++|...|++..+.
T Consensus        90 ~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A           90 CNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            66667777777777777777777766542 234566777777777777777777777776654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.14  E-value=0.003  Score=59.76  Aligned_cols=124  Identities=4%  Similarity=-0.120  Sum_probs=62.5

Q ss_pred             HHhcCcHhHHHHHHHHHHHC---CCCC----CHHHHHHHHHHHhcCCChhHHHHHHHHHHHC-----C-CCCC-HHHHHH
Q 013323           51 LTSQRRFFLLRDVYDDMMLD---GVQP----TRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN-----G-FLPD-VAVYNY  116 (445)
Q Consensus        51 ~~~~~~~~~a~~~~~~m~~~---g~~p----~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----g-~~p~-~~~~~~  116 (445)
                      +...|++++|..++++..+.   -+-|    ...+++.|..+|...|++++|..++++..+.     | --|+ ..+++.
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            33456666666666554431   1111    1224556666666666666666666654421     2 0122 345666


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHh-----CCC-Ccc-HHHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          117 LISVCGKCKNSDQAIRIFEEMKK-----YEV-KPN-GQTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       117 ll~~~~~~g~~~~a~~~~~~m~~-----~g~-~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      |-..|...|++++|+.++++...     .|- .|+ ..+.+.+-.++...+.+++|+.+|..+.+
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            66666666666666666655432     121 121 23344455555555566666666666544

>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=97.14  E-value=0.13  Score=45.93  Aligned_cols=175  Identities=9%  Similarity=-0.015  Sum_probs=112.0

Q ss_pred             cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC-CHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHc-C-Chhh
Q 013323           88 KGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCK-NSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAA-G-QLDP  164 (445)
Q Consensus        88 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~-g-~~~~  164 (445)
                      +.+..++|+++++.+...+ +-+..+||.--..+...| .+++++.+++.+..... -+..+|+.--..+.+. + ++++
T Consensus        66 ~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nP-Kny~aW~hR~wlL~~l~~~~~~~  143 (349)
T 3q7a_A           66 KEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNL-KSYQVWHHRLLLLDRISPQDPVS  143 (349)
T ss_dssp             TTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHHHCCSCCHH
T ss_pred             hCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHhcCCChHH
Confidence            3445568999999999865 234667888777777778 59999999999998653 3677888877777776 6 8899


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCc---h---HHHHHHHHHHHHhcCCccccccccccchhhcccchhhhc
Q 013323          165 VYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRA---D---DTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELY  238 (445)
Q Consensus       165 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~---~---~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  238 (445)
                      ++++++.+.+... -+-..|+.--..+.+.+..+   .   ..+...++.+....                         
T Consensus       144 EL~~~~k~L~~dp-kNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-------------------------  197 (349)
T 3q7a_A          144 EIEYIHGSLLPDP-KNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-------------------------  197 (349)
T ss_dssp             HHHHHHHHTSSCT-TCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-------------------------
T ss_pred             HHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-------------------------
Confidence            9999999987542 25555554333332222221   0   13334444333321                         


Q ss_pred             chhhhhHHhhhcCcccCchhHHHHHHHHHHhccc-------HHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCC
Q 013323          239 NLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKD-------VQAMETLLEMLKKDRKSP-DVYIVMQNIRCYLHSGD  307 (445)
Q Consensus       239 ~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~-------~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~  307 (445)
                                     +.|...|+..-..+.+.++       ++++.+.+......  .| |...|+-+-..+.+.|+
T Consensus       198 ---------------p~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~--~P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          198 ---------------GRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHL--IPHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             ---------------TTCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             ---------------CCCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCC
Confidence                           5566677776666666664       56677676666552  34 56666655555555554

>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=97.09  E-value=0.033  Score=42.48  Aligned_cols=113  Identities=9%  Similarity=-0.037  Sum_probs=91.4

Q ss_pred             cCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHH
Q 013323           54 QRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGK----CKNSDQ  129 (445)
Q Consensus        54 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~g~~~~  129 (445)
                      .+++++|++.|++-.+.|. |+..    |-..+...+..+.|.+.|+...+.|   +...+..|-..|..    .+++++
T Consensus         8 ~~d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             ccCHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHH
Confidence            4578899999999988873 4444    5566677778888999999998875   56777788888887    789999


Q ss_pred             HHHHHHHHHhCCCCccHHHHHHHHHHHHH----cCChhhHHHHHHHHHHcCC
Q 013323          130 AIRIFEEMKKYEVKPNGQTYVCLLNACAA----AGQLDPVYAIVRDMTAAGA  177 (445)
Q Consensus       130 a~~~~~~m~~~g~~p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g~  177 (445)
                      |..+|++..+.|   +...+..+-..|..    .++.++|...|+...+.|.
T Consensus        80 A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            999999998865   56777888888888    7899999999999888763

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.06  E-value=0.0067  Score=47.14  Aligned_cols=62  Identities=15%  Similarity=0.035  Sum_probs=34.4

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHhCCC-Ccc----HHHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          113 VYNYLISVCGKCKNSDQAIRIFEEMKKYEV-KPN----GQTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       113 ~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      ++..+-..+...|++++|...+++..+..- .++    ..++..+-..+...|++++|...+++..+
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~   77 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLL   77 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            455555566666666666666665543200 001    13556666666666777776666666543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.01  E-value=0.0087  Score=47.06  Aligned_cols=64  Identities=17%  Similarity=0.105  Sum_probs=53.1

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHc
Q 013323          111 VAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       111 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      ..+|..+-.+|.+.|++++|+..++...... +.+...|..+-.++...|++++|...|+...+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            4678888888999999999999998887753 235778888889999999999999999888775

>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=96.88  E-value=0.0096  Score=54.29  Aligned_cols=64  Identities=9%  Similarity=-0.002  Sum_probs=36.5

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHc
Q 013323          111 VAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       111 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      ..+|+.+-.+|.+.|++++|+..+++..+.. +-+...|..+-.+|.+.|++++|...|++..+.
T Consensus       273 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l  336 (370)
T 1ihg_A          273 LSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  336 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            4455555566666666666666666655532 123455555566666666666666666665553

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=96.85  E-value=0.0078  Score=43.47  Aligned_cols=64  Identities=14%  Similarity=0.054  Sum_probs=39.2

Q ss_pred             HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 013323           76 RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKY  140 (445)
Q Consensus        76 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  140 (445)
                      ...|..+-..+.+.|++++|...|+...+.. +.+...|..+-.++.+.|++++|...|++..+.
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            3445555556666666666666666665543 234556666666666667777777766666653

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.81  E-value=0.011  Score=43.23  Aligned_cols=79  Identities=11%  Similarity=0.027  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHH
Q 013323           94 DTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMT  173 (445)
Q Consensus        94 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~  173 (445)
                      .+...|+...+.. +.+...|..+-..|.+.|++++|...|++..... +.+...|..+-.++...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4566677766643 2356777778888888888888888888877643 2346677778888888888888888888776


Q ss_pred             H
Q 013323          174 A  174 (445)
Q Consensus       174 ~  174 (445)
                      +
T Consensus        81 ~   81 (115)
T 2kat_A           81 A   81 (115)
T ss_dssp             H
T ss_pred             H
Confidence            5

>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=96.80  E-value=0.043  Score=42.68  Aligned_cols=103  Identities=10%  Similarity=0.053  Sum_probs=70.0

Q ss_pred             HHHhcCCChhHHHHHHHHHHHCCCCCC-------------HHHHHHHHHHHHccCCHHHHHHHHHHHHhC-----CCCcc
Q 013323           84 VGTMKGSRLQDTFFFRDQMKANGFLPD-------------VAVYNYLISVCGKCKNSDQAIRIFEEMKKY-----EVKPN  145 (445)
Q Consensus        84 ~~~~~~~~~~~a~~~~~~m~~~g~~p~-------------~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-----g~~p~  145 (445)
                      ..+.+.|++++|...|+...+..  |+             ...|+.+-.++.+.|++++|+..+++..+.     .+.|+
T Consensus        19 ~~l~~~g~~eeAi~~Y~kAL~l~--p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd   96 (159)
T 2hr2_A           19 QRQLVAGEYDEAAANCRRAMEIS--HTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQD   96 (159)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHH--TTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTST
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhC--CCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCc
Confidence            34455566666666666655432  22             238888888888889988888888887763     12454


Q ss_pred             -HHHH----HHHHHHHHHcCChhhHHHHHHHHHH-----cCCCCCHHHHHHHH
Q 013323          146 -GQTY----VCLLNACAAAGQLDPVYAIVRDMTA-----AGAGLDKFCYAGLI  188 (445)
Q Consensus       146 -~~~y----~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~~li  188 (445)
                       ...|    ...-.++...|++++|+..|++..+     .|+.+........+
T Consensus        97 ~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~~~~  149 (159)
T 2hr2_A           97 EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVA  149 (159)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHHHH
T ss_pred             hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHH
Confidence             4567    7888888899999999999988865     35555554444443

>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=96.79  E-value=0.0071  Score=57.27  Aligned_cols=90  Identities=10%  Similarity=0.015  Sum_probs=78.2

Q ss_pred             HHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhh
Q 013323           85 GTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDP  164 (445)
Q Consensus        85 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~  164 (445)
                      .+.+.|++++|.+.|++..+.. +.+..+|..+-.+|.+.|++++|+..+++..+.. +-+..+|..+-.+|...|++++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            4567899999999999998864 2358899999999999999999999999998864 2357889999999999999999


Q ss_pred             HHHHHHHHHHcC
Q 013323          165 VYAIVRDMTAAG  176 (445)
Q Consensus       165 a~~~~~~m~~~g  176 (445)
                      |.+.|++..+..
T Consensus        93 A~~~~~~al~~~  104 (477)
T 1wao_1           93 ALRDYETVVKVK  104 (477)
T ss_dssp             HHHHHHHHHHHS
T ss_pred             HHHHHHHHHHhC
Confidence            999999988753

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=96.78  E-value=0.0051  Score=55.33  Aligned_cols=113  Identities=16%  Similarity=0.015  Sum_probs=59.9

Q ss_pred             hhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 013323           42 SEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVC  121 (445)
Q Consensus        42 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  121 (445)
                      ..|..+-..+.+.|++++|...|++..+.  .|+...       +...++.+++...+          ....|+.+-.+|
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l----------~~~~~~nla~~~  240 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV----------KNPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH----------HTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH----------HHHHHHHHHHHH
Confidence            33455555666667777777777765543  233321       11111111111111          012556666666


Q ss_pred             HccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          122 GKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       122 ~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      .+.|++++|+..|++..+.. +.+...|..+-.+|...|++++|...|++..+
T Consensus       241 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~  292 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQK  292 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666665532 12455666666666666666666666666544

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=96.70  E-value=0.054  Score=42.36  Aligned_cols=103  Identities=10%  Similarity=0.018  Sum_probs=82.4

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHC-------CC---------CC-CHHHHHHHHHHHhcCCChhHHHHHHHHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLD-------GV---------QP-TRDLFHSLIVGTMKGSRLQDTFFFRDQMK  103 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------g~---------~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~  103 (445)
                      +..|...=..+.+.|+++.|+..|......       .-         .| +...|..+-.++.+.|++++|...++...
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            445666677888999999999999887764       00         12 23467778888999999999999999998


Q ss_pred             HCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccH
Q 013323          104 ANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNG  146 (445)
Q Consensus       104 ~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~  146 (445)
                      +.. +.+...|..+-.+|...|++++|...|+.....  .|+.
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~~  130 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN--HPAA  130 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGGG
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCCC
Confidence            864 346788999999999999999999999998874  4554

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=96.67  E-value=0.023  Score=53.67  Aligned_cols=89  Identities=9%  Similarity=0.004  Sum_probs=65.2

Q ss_pred             HhcCCChhHHHHHHHHHHHC--C-CCC----CHHHHHHHHHHHHccCCHHHHHHHHHHHHhC-----C-CCcc-HHHHHH
Q 013323           86 TMKGSRLQDTFFFRDQMKAN--G-FLP----DVAVYNYLISVCGKCKNSDQAIRIFEEMKKY-----E-VKPN-GQTYVC  151 (445)
Q Consensus        86 ~~~~~~~~~a~~~~~~m~~~--g-~~p----~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-----g-~~p~-~~~y~~  151 (445)
                      +...|++++|..++++..+.  . +-|    ...+++.|..+|...|++++|+.++++...-     | -.|+ ..+++.
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            45788899999888877642  1 112    2467888888999999999998888876531     2 1233 567888


Q ss_pred             HHHHHHHcCChhhHHHHHHHHHH
Q 013323          152 LLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       152 li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      +-..|...|++++|..++++..+
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~  421 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYA  421 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            88888899999999888887654

>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=96.60  E-value=0.023  Score=51.74  Aligned_cols=123  Identities=11%  Similarity=0.031  Sum_probs=95.7

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHC--------------CCCC-CHHHHHHHHHHHhcCCChhHHHHHHHHHHHC
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLD--------------GVQP-TRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN  105 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------------g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~  105 (445)
                      ...|..+-..+.+.|++++|.+.|++..+.              ...| +...|..+-.++.+.|++++|...+++..+.
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  302 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI  302 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh
Confidence            345777778889999999999999988761              0223 3456788888899999999999999999986


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCc-cHHHHHHHHHHHHHcCChhhHH
Q 013323          106 GFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKP-NGQTYVCLLNACAAAGQLDPVY  166 (445)
Q Consensus       106 g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~y~~li~~~~~~g~~~~a~  166 (445)
                      . +.+...|..+-.+|.+.|++++|...|++..+.  .| +...+..+-..+...++.+++.
T Consensus       303 ~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          303 D-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             C-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            4 236788999999999999999999999998774  34 5566666666666666665554

>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=96.52  E-value=0.4  Score=42.51  Aligned_cols=150  Identities=5%  Similarity=-0.025  Sum_probs=104.2

Q ss_pred             CChhhHHHHHHHH---HhcCcHh-HHHHHHHHHHHCCCCCCHHH-HHHHHHHHhcCCC----------hhHHHHHHHHHH
Q 013323           39 NNASEYNTVVTSL---TSQRRFF-LLRDVYDDMMLDGVQPTRDL-FHSLIVGTMKGSR----------LQDTFFFRDQMK  103 (445)
Q Consensus        39 p~~~~~~~li~~~---~~~~~~~-~a~~~~~~m~~~g~~p~~~~-~~~ll~~~~~~~~----------~~~a~~~~~~m~  103 (445)
                      .-+..|..+...+   .+.|.++ +|+++++.+...+  |+..| |+.-=..+...+.          +++++.+++.+.
T Consensus        24 ~ki~~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~~n--P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L  101 (331)
T 3dss_A           24 QKLKLYQSATQAVFQKRQAGELDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCL  101 (331)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHH
Confidence            4455666655443   3456654 8999999998754  65444 5543222222222          678889999988


Q ss_pred             HCCCCCCHHHHHHHHHHHHccC--CHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCC-hhhHHHHHHHHHHcCCCCC
Q 013323          104 ANGFLPDVAVYNYLISVCGKCK--NSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQ-LDPVYAIVRDMTAAGAGLD  180 (445)
Q Consensus       104 ~~g~~p~~~~~~~ll~~~~~~g--~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~-~~~a~~~~~~m~~~g~~p~  180 (445)
                      ... +-+..+|+.---.+.+.+  ++++++.+++.+.+... -|...|+.--......|. ++++++.++.+.+... -|
T Consensus       102 ~~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p-~N  178 (331)
T 3dss_A          102 RVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SN  178 (331)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCS-CC
T ss_pred             HhC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCC-CC
Confidence            754 347788888777777777  48999999999998653 478888888777788888 5899999999998753 36


Q ss_pred             HHHHHHHHHHHHc
Q 013323          181 KFCYAGLITAHTN  193 (445)
Q Consensus       181 ~~~~~~li~~~~~  193 (445)
                      ...|+..-..+.+
T Consensus       179 ~SAW~~R~~ll~~  191 (331)
T 3dss_A          179 YSSWHYRSCLLPQ  191 (331)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            6666655444443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=96.52  E-value=0.01  Score=53.30  Aligned_cols=112  Identities=8%  Similarity=-0.096  Sum_probs=73.4

Q ss_pred             HHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHH
Q 013323           79 FHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA  158 (445)
Q Consensus        79 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~  158 (445)
                      +..+-..+.+.|++++|...|+...+..  |+...       +...++.+++...+   .       ...|..+-.++.+
T Consensus       182 ~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l---~-------~~~~~nla~~~~~  242 (338)
T 2if4_A          182 RKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAV---K-------NPCHLNIAACLIK  242 (338)
T ss_dssp             HHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHH---H-------THHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHH---H-------HHHHHHHHHHHHH
Confidence            4444455566666666666666655432  33221       12222333322211   1       1378889999999


Q ss_pred             cCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHh
Q 013323          159 AGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQS  212 (445)
Q Consensus       159 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~  212 (445)
                      .|++++|...++...+.. +.+...|..+-.++...|+.  +.|...++.....
T Consensus       243 ~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~--~~A~~~l~~al~l  293 (338)
T 2if4_A          243 LKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQM--DSARDDFRKAQKY  293 (338)
T ss_dssp             TTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCH--HHHHHHHHHTTC-
T ss_pred             cCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH--HHHHHHHHHHHHH
Confidence            999999999999998853 23677888888899998876  8898888876543

>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=96.49  E-value=0.044  Score=51.53  Aligned_cols=61  Identities=8%  Similarity=-0.093  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHH
Q 013323          147 QTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVE  210 (445)
Q Consensus       147 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~  210 (445)
                      ..|..+-.+|.+.|++++|+..|++..+.. +.+...|..+-.++...|+.  +.|...|+...
T Consensus       318 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~~g~a~~~~g~~--~~A~~~~~~al  378 (457)
T 1kt0_A          318 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEF--ESAKGDFEKVL  378 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCH--HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHccCH--HHHHHHHHHHH
Confidence            444555555555555555555555554432 11344444444444444433  44554444443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=96.40  E-value=0.0045  Score=44.82  Aligned_cols=94  Identities=10%  Similarity=0.008  Sum_probs=70.8

Q ss_pred             CChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC-------H
Q 013323           39 NNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD-------V  111 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~-------~  111 (445)
                      ++...|..+-..+.+.|++++|.+.|++..+.. +.+...|..+-.++.+.|++++|...|+...+..  |+       .
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            456678888899999999999999999988753 2367788888889999999999999999998754  54       4


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHH
Q 013323          112 AVYNYLISVCGKCKNSDQAIRIFE  135 (445)
Q Consensus       112 ~~~~~ll~~~~~~g~~~~a~~~~~  135 (445)
                      ..+..+-.++...|+.+.|...|+
T Consensus        79 ~~~~~~~~~~~~~~~~~~a~~~~~  102 (111)
T 2l6j_A           79 KLQYRLELAQGAVGSVQIPVVEVD  102 (111)
T ss_dssp             HHHHHHHHHHHHHHCCCCCSSSSS
T ss_pred             HHHHHHHHHHHHHHhHhhhHhHHH
Confidence            445555555555555555444333

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.35  E-value=0.04  Score=37.84  Aligned_cols=25  Identities=20%  Similarity=0.231  Sum_probs=10.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHH
Q 013323          113 VYNYLISVCGKCKNSDQAIRIFEEM  137 (445)
Q Consensus       113 ~~~~ll~~~~~~g~~~~a~~~~~~m  137 (445)
                      ++..+-.++.+.|++++|...|++.
T Consensus        45 ~~~~l~~~~~~~~~~~~A~~~~~~a   69 (91)
T 1na3_A           45 AWYNLGNAYYKQGDYDEAIEYYQKA   69 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            3333444444444444444444433

>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=96.29  E-value=0.063  Score=41.76  Aligned_cols=95  Identities=7%  Similarity=-0.080  Sum_probs=76.8

Q ss_pred             hHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCC--------H-----HHHHHHHHHHhcCCChhHHHHHHHHHHHC----
Q 013323           43 EYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPT--------R-----DLFHSLIVGTMKGSRLQDTFFFRDQMKAN----  105 (445)
Q Consensus        43 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~--------~-----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----  105 (445)
                      .+...-..+.+.|++++|++.|+...+..  |+        .     ..|..+-.++.+.|++++|...++...+.    
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~--p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~   90 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEIS--HTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   90 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHH--TTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            34455567788999999999999987743  33        2     27888888999999999999999999874    


Q ss_pred             -CCCCC-HHHH----HHHHHHHHccCCHHHHHHHHHHHHh
Q 013323          106 -GFLPD-VAVY----NYLISVCGKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus       106 -g~~p~-~~~~----~~ll~~~~~~g~~~~a~~~~~~m~~  139 (445)
                       .+.|+ ...|    ...-.++...|++++|+..|++..+
T Consensus        91 ~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           91 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence             12465 4577    8888999999999999999998864

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.21  E-value=0.064  Score=36.72  Aligned_cols=80  Identities=16%  Similarity=0.133  Sum_probs=61.6

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHH
Q 013323          110 DVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLIT  189 (445)
Q Consensus       110 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  189 (445)
                      +...|..+-..+.+.|++++|...|++..+.. +.+...|..+-..+.+.|++++|...|++..+.. +.+...+..+-.
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~   85 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            35677888888999999999999999987653 2357788899999999999999999999988753 123444444444


Q ss_pred             HH
Q 013323          190 AH  191 (445)
Q Consensus       190 ~~  191 (445)
                      .+
T Consensus        86 ~~   87 (91)
T 1na3_A           86 AK   87 (91)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.18  E-value=0.035  Score=40.48  Aligned_cols=79  Identities=9%  Similarity=0.006  Sum_probs=62.7

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 013323           59 LLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMK  138 (445)
Q Consensus        59 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  138 (445)
                      .+++.|+...+.. +.+...|..+-..+...|++++|...|+...+.. +.+...|..+-.+|.+.|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4566777766543 2356778888888899999999999999988754 2457788889999999999999999998876


Q ss_pred             h
Q 013323          139 K  139 (445)
Q Consensus       139 ~  139 (445)
                      .
T Consensus        81 ~   81 (115)
T 2kat_A           81 A   81 (115)
T ss_dssp             H
T ss_pred             H
Confidence            5

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.15  E-value=0.031  Score=39.69  Aligned_cols=64  Identities=19%  Similarity=0.104  Sum_probs=45.7

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          110 DVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       110 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      +...|..+-.+|.+.|++++|...|++..+... -+...|..+-.+|...|++++|.+.|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDP-DYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            456677777777777888888888877766431 2455677777777788888888877777654

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=95.94  E-value=0.032  Score=39.59  Aligned_cols=64  Identities=13%  Similarity=0.097  Sum_probs=42.7

Q ss_pred             CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 013323           75 TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus        75 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  139 (445)
                      +...+..+-..+.+.|++++|...|+...+.. +.+...|..+-.+|.+.|++++|...|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            44556666666777777777777777776654 12455677777777777777777777776553

>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=95.88  E-value=0.11  Score=39.45  Aligned_cols=116  Identities=8%  Similarity=-0.225  Sum_probs=83.8

Q ss_pred             ccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHH
Q 013323          271 KDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLA  349 (445)
Q Consensus       271 g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a  349 (445)
                      ++.++|.+.|+...+.| .|+..    |-..|...+.+++|.++|+...+.|   ++..+..|=..+..+..-.++ ++|
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            57889999999888877 44444    5566777788899999999988875   445555554433223333455 999


Q ss_pred             HHHHHHHHhCCCCCCcchhhHHHHHhhccc----CCChhhHHHHHHHHHHCCCC
Q 013323          350 QDTLVNMNSRNIFLSPRMGSDLLLVAAGEK----SGGYTTANYIWDLMQARKIT  399 (445)
Q Consensus       350 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~----~g~~~~A~~~~~~m~~~~~~  399 (445)
                      .+.|++..+.|   ++..+..+-..|.  .    .+++++|...|++-.+.|..
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~--~G~g~~~d~~~A~~~~~~Aa~~g~~  129 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQY--AGKGVVKNEKQAVKTFEKACRLGSE  129 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHH--HTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHH--CCCCCCcCHHHHHHHHHHHHHCCCH
Confidence            99999998887   4555555555554  5    78999999999998887743

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.68  E-value=0.44  Score=35.46  Aligned_cols=69  Identities=10%  Similarity=0.031  Sum_probs=57.4

Q ss_pred             CchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCC
Q 013323          255 RLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKF  324 (445)
Q Consensus       255 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  324 (445)
                      .+...+...+..+...|+-++..++...+.. +.+|+....-.+-.+|.+.|+..+|.+++.+.-+.|++
T Consensus        89 ~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           89 TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            3455678888999999999999999998644 35678888888999999999999999999999988874

>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=95.68  E-value=0.78  Score=41.08  Aligned_cols=151  Identities=6%  Similarity=-0.071  Sum_probs=101.8

Q ss_pred             HHhcCCCCChhhHHHHHHHHHhc-----CcHhHHHHHHHHHHHCCCCCCH-HHHHHHHHHHh----cCC-ChhHHH---H
Q 013323           32 YARRNYANNASEYNTVVTSLTSQ-----RRFFLLRDVYDDMMLDGVQPTR-DLFHSLIVGTM----KGS-RLQDTF---F   97 (445)
Q Consensus        32 ~~~~~~~p~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~----~~~-~~~~a~---~   97 (445)
                      ...+....+..+|...+.+....     ....+|.++|++..+.  .|+- ..|..+--++.    ... ......   .
T Consensus       185 r~~~~~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~  262 (372)
T 3ly7_A          185 TLQKILPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNT  262 (372)
T ss_dssp             HHHHHSCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHH
T ss_pred             HHhccCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHH
Confidence            34455677899999999766542     3457899999998875  4652 33333222221    111 111111   1


Q ss_pred             HHHHHHHC-CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcC
Q 013323           98 FRDQMKAN-GFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAG  176 (445)
Q Consensus        98 ~~~~m~~~-g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g  176 (445)
                      .++..... .-+.+..+|.++-..+...|++++|...+++....+  |+...|..+-..+...|++++|.+.|++.... 
T Consensus       263 a~~a~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL-  339 (372)
T 3ly7_A          263 EIDNIVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL-  339 (372)
T ss_dssp             HHHHHHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-
Confidence            22221111 224678888888777888899999999999999875  88888888888889999999999999988885 


Q ss_pred             CCCCHHHHHHHH
Q 013323          177 AGLDKFCYAGLI  188 (445)
Q Consensus       177 ~~p~~~~~~~li  188 (445)
                       .|...||...=
T Consensus       340 -~P~~~t~~~~~  350 (372)
T 3ly7_A          340 -RPGANTLYWIE  350 (372)
T ss_dssp             -SCSHHHHHHHH
T ss_pred             -CCCcChHHHHh
Confidence             47776665443

>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=95.49  E-value=0.057  Score=50.13  Aligned_cols=87  Identities=10%  Similarity=0.075  Sum_probs=67.0

Q ss_pred             cCCChhHHHHHHHHHHHC---CCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHh-----CC-CCcc-HHHHHHHH
Q 013323           88 KGSRLQDTFFFRDQMKAN---GFLPD----VAVYNYLISVCGKCKNSDQAIRIFEEMKK-----YE-VKPN-GQTYVCLL  153 (445)
Q Consensus        88 ~~~~~~~a~~~~~~m~~~---g~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~m~~-----~g-~~p~-~~~y~~li  153 (445)
                      ..|++++|..++++..+.   -+-|+    ..+++.|..+|...|++++|+.++++...     .| -.|+ ..+|+.+-
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            467889999999887642   12232    46789999999999999999999988753     12 2333 56799999


Q ss_pred             HHHHHcCChhhHHHHHHHHHH
Q 013323          154 NACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       154 ~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      ..|...|++++|+.++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999988754

>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=95.43  E-value=1  Score=43.38  Aligned_cols=127  Identities=6%  Similarity=-0.039  Sum_probs=75.2

Q ss_pred             HhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCCC----------hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 013323           57 FFLLRDVYDDMMLDGVQPT-RDLFHSLIVGTMKGSR----------LQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCK  125 (445)
Q Consensus        57 ~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~----------~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g  125 (445)
                      .++|++.++.+...+  |+ ...|+.-=.++...++          ++++.+.++.+.+.. +-+..+|+.---++.+.+
T Consensus        45 ~eeal~~~~~~l~~n--P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           45 DESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             SHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCS
T ss_pred             CHHHHHHHHHHHHHC--chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcc
Confidence            356677777777643  43 3345543333333344          677777777777654 235666776666666677


Q ss_pred             --CHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcC-ChhhHHHHHHHHHHcCCCCCHHHHHHHH
Q 013323          126 --NSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAG-QLDPVYAIVRDMTAAGAGLDKFCYAGLI  188 (445)
Q Consensus       126 --~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~~~~~li  188 (445)
                        ++++++++++++.+... -|...|+.--..+.+.| .++++++.++++.+... -+...|+..-
T Consensus       122 ~~~~~~el~~~~k~l~~d~-~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p-~n~saW~~r~  185 (567)
T 1dce_A          122 EPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRS  185 (567)
T ss_dssp             SCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHhhcc-ccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCC-CCccHHHHHH
Confidence              55777777777776543 35666766666666666 66666666666665432 1344444333

>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=95.43  E-value=1.3  Score=39.19  Aligned_cols=222  Identities=8%  Similarity=0.014  Sum_probs=134.1

Q ss_pred             cCCChh-HHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCC----------HHHHHHHHHHHHhCCCCccHHHHHHHHHH
Q 013323           88 KGSRLQ-DTFFFRDQMKANGFLPD-VAVYNYLISVCGKCKN----------SDQAIRIFEEMKKYEVKPNGQTYVCLLNA  155 (445)
Q Consensus        88 ~~~~~~-~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~----------~~~a~~~~~~m~~~g~~p~~~~y~~li~~  155 (445)
                      +.|.++ +|+.+++.+...+  |+ ..+||.-=..+...+.          +++++.+++.+.... +-+..+|+.--..
T Consensus        41 ~~~e~s~eaL~~t~~~L~~n--P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wl  117 (331)
T 3dss_A           41 QAGELDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWL  117 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            455544 8999999999865  54 4556653333332222          678899999988754 2377888887777


Q ss_pred             HHHcC--ChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccc
Q 013323          156 CAAAG--QLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVS  233 (445)
Q Consensus       156 ~~~~g--~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  233 (445)
                      +.+.+  .+++++.+++.+.+... -|-..|+.--..+...|.. .+.+...++.+....                    
T Consensus       118 L~~l~~~~~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~~~-~~eel~~~~~~I~~~--------------------  175 (331)
T 3dss_A          118 LSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVA-PAEELAFTDSLITRN--------------------  175 (331)
T ss_dssp             HHHCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCC-HHHHHHHHHHHHHHC--------------------
T ss_pred             HhccCcccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCcC-HHHHHHHHHHHHHHC--------------------
Confidence            77777  48999999999998643 3566666555555555542 245555555554432                    


Q ss_pred             hhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhc--------------ccHHHHHHHHHHHHhCCCCC-CHHHHHHH
Q 013323          234 KEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAEL--------------KDVQAMETLLEMLKKDRKSP-DVYIVMQN  298 (445)
Q Consensus       234 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~--------------g~~~~a~~~~~~m~~~~~~p-~~~~~~~l  298 (445)
                                          +.|...|+..-..+.+.              +.++++.+.+......  .| |...|+-+
T Consensus       176 --------------------p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~--~P~d~SaW~Y~  233 (331)
T 3dss_A          176 --------------------FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFT--DPNDQSAWFYH  233 (331)
T ss_dssp             --------------------SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHH--STTCHHHHHHH
T ss_pred             --------------------CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence                                45556666555544443              4577777777766652  35 66666644


Q ss_pred             HHHHHhc-----------CChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHh-hcCChhhH-HHHHHHHHHHHhC
Q 013323          299 IRCYLHS-----------GDIDNGHKVFEDYICSEKFPPAELYATLVEGAM-FGYTPKGM-QLAQDTLVNMNSR  359 (445)
Q Consensus       299 i~~~~~~-----------g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~-~~~~~~g~-~~a~~~~~~m~~~  359 (445)
                      -..+.+.           +.++++++.++++.+.  .||. .|..+-.+++ .+....+. +++...+.++.+-
T Consensus       234 r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~--~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          234 RWLLGAGSGRCELSVEKSTVLQSELESCKELQEL--EPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             HHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhccCccccchHHHHHHHHHHHHHHHHHhh--Cccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence            4444443           3567888888888875  3544 3432211110 01123344 6677777777653

>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=95.39  E-value=0.086  Score=48.91  Aligned_cols=92  Identities=9%  Similarity=0.062  Sum_probs=68.4

Q ss_pred             HHHHhcCCChhHHHHHHHHHHHCC---CCC----CHHHHHHHHHHHHccCCHHHHHHHHHHHHh-----CC-CCcc-HHH
Q 013323           83 IVGTMKGSRLQDTFFFRDQMKANG---FLP----DVAVYNYLISVCGKCKNSDQAIRIFEEMKK-----YE-VKPN-GQT  148 (445)
Q Consensus        83 l~~~~~~~~~~~a~~~~~~m~~~g---~~p----~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~-----~g-~~p~-~~~  148 (445)
                      +..+.+.|++++|..++++..+..   +.|    ...+++.|..+|...|++++|+.++++...     .| -.|+ ..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            444556788999999998887531   222    246788899999999999999998887653     12 2233 567


Q ss_pred             HHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          149 YVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       149 y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      |+.+-..|...|++++|+.++++..+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            88888999999999999988887654

>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=95.28  E-value=0.065  Score=41.61  Aligned_cols=70  Identities=9%  Similarity=-0.061  Sum_probs=34.8

Q ss_pred             HhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCCh----------hHHHHHHHHHHHCCCCC-CHHHHHHHHHH
Q 013323           52 TSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRL----------QDTFFFRDQMKANGFLP-DVAVYNYLISV  120 (445)
Q Consensus        52 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~----------~~a~~~~~~m~~~g~~p-~~~~~~~ll~~  120 (445)
                      .+.+.+++|.+.++...+.. +-+...|..+-.++...+++          ++|...|++..+..  | +...|..+-.+
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld--P~~~~A~~~LG~a   89 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID--PKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC--cCcHHHHHHHHHH
Confidence            34455666666666665543 12444455444444444433          35555555555432  2 34455555555


Q ss_pred             HHcc
Q 013323          121 CGKC  124 (445)
Q Consensus       121 ~~~~  124 (445)
                      |...
T Consensus        90 y~~l   93 (158)
T 1zu2_A           90 YTSF   93 (158)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            5444

>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=95.01  E-value=0.084  Score=48.98  Aligned_cols=87  Identities=3%  Similarity=-0.026  Sum_probs=67.8

Q ss_pred             hcCcHhHHHHHHHHHHHC---CCCCC----HHHHHHHHHHHhcCCChhHHHHHHHHHHHC-----C-CCCC-HHHHHHHH
Q 013323           53 SQRRFFLLRDVYDDMMLD---GVQPT----RDLFHSLIVGTMKGSRLQDTFFFRDQMKAN-----G-FLPD-VAVYNYLI  118 (445)
Q Consensus        53 ~~~~~~~a~~~~~~m~~~---g~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----g-~~p~-~~~~~~ll  118 (445)
                      ..|++++|..++++..+.   -+-|+    ..+++.|..+|...|++++|..++++..+.     | --|+ ..++|.|-
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            357889999999887652   12233    346899999999999999999999987642     3 1233 46799999


Q ss_pred             HHHHccCCHHHHHHHHHHHHh
Q 013323          119 SVCGKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~m~~  139 (445)
                      ..|...|++++|+.+|++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999987653

>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=94.97  E-value=0.086  Score=48.93  Aligned_cols=93  Identities=6%  Similarity=0.025  Sum_probs=72.8

Q ss_pred             HHHHHHHhcCcHhHHHHHHHHHHHCC---CCCC----HHHHHHHHHHHhcCCChhHHHHHHHHHHHC-----C-CCCC-H
Q 013323           46 TVVTSLTSQRRFFLLRDVYDDMMLDG---VQPT----RDLFHSLIVGTMKGSRLQDTFFFRDQMKAN-----G-FLPD-V  111 (445)
Q Consensus        46 ~li~~~~~~~~~~~a~~~~~~m~~~g---~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----g-~~p~-~  111 (445)
                      ..+..+.+.|++++|.+++++..+..   +.|+    ..+++.+..+|...|++++|..++++..+.     | --|+ .
T Consensus       292 ~~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a  371 (429)
T 3qwp_A          292 KKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRG  371 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHH
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHH
Confidence            33566778899999999999887631   2232    346889999999999999999999987642     3 1233 4


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHH
Q 013323          112 AVYNYLISVCGKCKNSDQAIRIFEEMK  138 (445)
Q Consensus       112 ~~~~~ll~~~~~~g~~~~a~~~~~~m~  138 (445)
                      .+++.|-..|...|++++|+.++++..
T Consensus       372 ~~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          372 VQVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            679999999999999999999998765

>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=94.93  E-value=0.059  Score=41.86  Aligned_cols=101  Identities=14%  Similarity=0.071  Sum_probs=79.1

Q ss_pred             hcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH----------HHHHHHHHHHHhCCCCc-cHHHHHHHHHH
Q 013323           87 MKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNS----------DQAIRIFEEMKKYEVKP-NGQTYVCLLNA  155 (445)
Q Consensus        87 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~----------~~a~~~~~~m~~~g~~p-~~~~y~~li~~  155 (445)
                      .+.+.+++|.+.++...+.. +.+...|+.+-.++.+.+++          ++|+..|++..+.  .| +...|..+-.+
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l--dP~~~~A~~~LG~a   89 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI--DPKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh--CcCcHHHHHHHHHH
Confidence            34467888999999888765 34778888888888877664          5999999998875  34 46789999999


Q ss_pred             HHHcC-----------ChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 013323          156 CAAAG-----------QLDPVYAIVRDMTAAGAGLDKFCYAGLITAHT  192 (445)
Q Consensus       156 ~~~~g-----------~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  192 (445)
                      |...|           ++++|.+.|++..+.  .|+...|...+...-
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~~~~  135 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMTA  135 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            98764           899999999999885  588777777776553

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.80  E-value=0.99  Score=35.56  Aligned_cols=104  Identities=7%  Similarity=-0.018  Sum_probs=78.9

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 013323           48 VTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNS  127 (445)
Q Consensus        48 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  127 (445)
                      .....+.|+++.|.++.+.+      -+...|..|-..+.+.|+++-|.+.|.....         |..|.-.|.-.|+.
T Consensus        12 F~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~   76 (177)
T 3mkq_B           12 FDLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDV   76 (177)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCH
T ss_pred             HHHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCH
Confidence            34456789999999998876      3678899999999999999999999988754         34466667778888


Q ss_pred             HHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHH
Q 013323          128 DQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDM  172 (445)
Q Consensus       128 ~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m  172 (445)
                      ++..++-+.-...|      -++.....+.-.|+++++.++|.+.
T Consensus        77 e~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           77 NKLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC
Confidence            77776665555544      2667777777889999999888543

>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=94.79  E-value=1.9  Score=41.61  Aligned_cols=99  Identities=4%  Similarity=-0.029  Sum_probs=61.7

Q ss_pred             HhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCC--ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC-CHHHHHHH
Q 013323           57 FFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGS--RLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCK-NSDQAIRI  133 (445)
Q Consensus        57 ~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g-~~~~a~~~  133 (445)
                      ++++++.++.+.+..- -+..+|+.--.++.+.+  +++++.+.++.+.+.. +-+..+|+.--.++.+.| .++++++.
T Consensus        89 ~~~eL~~~~~~l~~~p-K~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~  166 (567)
T 1dce_A           89 VKAELGFLESCLRVNP-KSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAF  166 (567)
T ss_dssp             HHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHH
Confidence            6677777777766442 25556666666666666  5577777777777654 245666766666666666 66777777


Q ss_pred             HHHHHhCCCCccHHHHHHHHHHHHH
Q 013323          134 FEEMKKYEVKPNGQTYVCLLNACAA  158 (445)
Q Consensus       134 ~~~m~~~g~~p~~~~y~~li~~~~~  158 (445)
                      ++++.+... -|...|+..-..+.+
T Consensus       167 ~~~~I~~~p-~n~saW~~r~~ll~~  190 (567)
T 1dce_A          167 TDSLITRNF-SNYSSWHYRSCLLPQ  190 (567)
T ss_dssp             HHTTTTTTC-CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCC-CCccHHHHHHHHHHh
Confidence            777666542 255566655555444

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=94.77  E-value=0.81  Score=46.21  Aligned_cols=102  Identities=8%  Similarity=0.010  Sum_probs=73.6

Q ss_pred             HHHHhcCcHhHHHH-HHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 013323           49 TSLTSQRRFFLLRD-VYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNS  127 (445)
Q Consensus        49 ~~~~~~~~~~~a~~-~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  127 (445)
                      ......+++++|.+ ++..+      |+......++..+.+.|..+.|.++.++-.            .-.......|++
T Consensus       607 ~~~~~~~~~~~a~~~~l~~i------~~~~~~~~~~~~l~~~~~~~~a~~~~~~~~------------~~f~~~l~~~~~  668 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPNV------EGKDSLTKIARFLEGQEYYEEALNISPDQD------------QKFELALKVGQL  668 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGGC------CCHHHHHHHHHHHHHTTCHHHHHHHCCCHH------------HHHHHHHHHTCH
T ss_pred             hHHHHhCCHHHHHHHHHhcC------CchHHHHHHHHHHHhCCChHHheecCCCcc------------hheehhhhcCCH
Confidence            34456889999877 55222      212334777788888899999887664221            113345678999


Q ss_pred             HHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          128 DQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       128 ~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      +.|.++.+.+      .+...|..+-..+.+.|+++.|.++|..+..
T Consensus       669 ~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d  709 (814)
T 3mkq_A          669 TLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD  709 (814)
T ss_dssp             HHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC
T ss_pred             HHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC
Confidence            9999986554      3678899999999999999999999998754

>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=94.02  E-value=3.2  Score=37.13  Aligned_cols=78  Identities=8%  Similarity=-0.047  Sum_probs=60.6

Q ss_pred             cCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHH
Q 013323          254 SRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATL  333 (445)
Q Consensus       254 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  333 (445)
                      +.+..+|..+-..+...|++++|...++.....+  |+...|..+-..+.-.|++++|.+.|++....  .|...||...
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~~~  349 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLYWI  349 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHHHH
Confidence            5566778777777777799999999999888764  77777777777888899999999999877765  5677776554


Q ss_pred             HH
Q 013323          334 VE  335 (445)
Q Consensus       334 i~  335 (445)
                      =.
T Consensus       350 ~~  351 (372)
T 3ly7_A          350 EN  351 (372)
T ss_dssp             HH
T ss_pred             hC
Confidence            43

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=93.85  E-value=1.5  Score=32.69  Aligned_cols=122  Identities=11%  Similarity=0.043  Sum_probs=77.4

Q ss_pred             hcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHC-C----------------CCCCHHHHH
Q 013323           53 SQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN-G----------------FLPDVAVYN  115 (445)
Q Consensus        53 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-g----------------~~p~~~~~~  115 (445)
                      -.|.+++..++..+..+.   -+..-||-+|--....-+-+...++++.+-+. +                ...+....+
T Consensus        19 ldG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis~C~NlKrVi~C~~~~n~~se~vd   95 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEHVN   95 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHHHH
T ss_pred             HhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhhcCcHhhhcHHHHHHHHHHhcchHHHHH
Confidence            346666666666666553   23444444444433333333333333332110 0                013455667


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCC
Q 013323          116 YLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAG  178 (445)
Q Consensus       116 ~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~  178 (445)
                      ..++.....|+-+.-.+++..+.. +-+|++...-.+-.+|.+.|+..++.+++.+..+.|++
T Consensus        96 ~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           96 KALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            778888888888888888888643 23678888888999999999999999999999998864

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=93.63  E-value=1.2  Score=34.07  Aligned_cols=83  Identities=13%  Similarity=0.001  Sum_probs=58.4

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC---CHHHHHHHHHHHHhCCCCc--cHHHHHHHHHHHHHcCChhhH
Q 013323           91 RLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCK---NSDQAIRIFEEMKKYEVKP--NGQTYVCLLNACAAAGQLDPV  165 (445)
Q Consensus        91 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g---~~~~a~~~~~~m~~~g~~p--~~~~y~~li~~~~~~g~~~~a  165 (445)
                      .+..+.+-|.+..+.|. ++..+.-.+--++++++   +.+++..+|++..+.+ .|  +...+-.+--+|.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            34556666666666664 67777666777778877   5668888888887754 24  344555566667888999999


Q ss_pred             HHHHHHHHHc
Q 013323          166 YAIVRDMTAA  175 (445)
Q Consensus       166 ~~~~~~m~~~  175 (445)
                      .+.++.+.+.
T Consensus        91 ~~y~~~lL~i  100 (152)
T 1pc2_A           91 LKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            9988888875

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=93.44  E-value=0.71  Score=35.40  Aligned_cols=86  Identities=8%  Similarity=0.157  Sum_probs=62.0

Q ss_pred             cHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCC---ChhHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHccCCHHHH
Q 013323           56 RFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGS---RLQDTFFFRDQMKANGFLP--DVAVYNYLISVCGKCKNSDQA  130 (445)
Q Consensus        56 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~g~~p--~~~~~~~ll~~~~~~g~~~~a  130 (445)
                      ....+.+-|.+..+.|. ++..+--.+-.++++.+   +.+++..+|++..+.+ .|  ....+=.|--+|.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            34456666666666655 67777666667777777   6779999999998865 24  244444455667999999999


Q ss_pred             HHHHHHHHhCCCCcc
Q 013323          131 IRIFEEMKKYEVKPN  145 (445)
Q Consensus       131 ~~~~~~m~~~g~~p~  145 (445)
                      .+.++...+.  .|+
T Consensus        91 ~~y~~~lL~i--eP~  103 (152)
T 1pc2_A           91 LKYVRGLLQT--EPQ  103 (152)
T ss_dssp             HHHHHHHHHH--CTT
T ss_pred             HHHHHHHHhc--CCC
Confidence            9999999874  453

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=93.33  E-value=0.53  Score=47.53  Aligned_cols=134  Identities=11%  Similarity=0.031  Sum_probs=90.8

Q ss_pred             hHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013323           43 EYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCG  122 (445)
Q Consensus        43 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  122 (445)
                      ....++..+.+.|..+.|+++.+.       |.     .-+......|++++|+++.+.+      .+...|..|-..+.
T Consensus       631 ~~~~~~~~l~~~~~~~~a~~~~~~-------~~-----~~f~~~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al  692 (814)
T 3mkq_A          631 SLTKIARFLEGQEYYEEALNISPD-------QD-----QKFELALKVGQLTLARDLLTDE------SAEMKWRALGDASL  692 (814)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHCCC-------HH-----HHHHHHHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCChHHheecCCC-------cc-----hheehhhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHH
Confidence            337788888888999988877632       11     1123345678999998885433      56789999999999


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHH
Q 013323          123 KCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTA  202 (445)
Q Consensus       123 ~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a  202 (445)
                      +.++++.|++.|..+..         |..+...+...|+.+...++-+.....|-      ++....++.+.|+.  +.|
T Consensus       693 ~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~------~~~A~~~~~~~g~~--~~a  755 (814)
T 3mkq_A          693 QRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTGK------FNLAFNAYWIAGDI--QGA  755 (814)
T ss_dssp             HTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC------HHHHHHHHHHHTCH--HHH
T ss_pred             HcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc------hHHHHHHHHHcCCH--HHH
Confidence            99999999999998864         55566666667777776666666655542      13333344455644  677


Q ss_pred             HHHHHHHHH
Q 013323          203 TKIIELVEQ  211 (445)
Q Consensus       203 ~~~~~~~~~  211 (445)
                      .+++..+.+
T Consensus       756 ~~~~~~~~~  764 (814)
T 3mkq_A          756 KDLLIKSQR  764 (814)
T ss_dssp             HHHHHHTTC
T ss_pred             HHHHHHcCC
Confidence            777666553

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=93.29  E-value=0.31  Score=33.87  Aligned_cols=53  Identities=15%  Similarity=0.141  Sum_probs=22.0

Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCccHH-HHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          121 CGKCKNSDQAIRIFEEMKKYEVKPNGQ-TYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       121 ~~~~g~~~~a~~~~~~m~~~g~~p~~~-~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      +.+.|++++|...|++..+.. +.+.. .|..+-.++...|++++|...|++..+
T Consensus        10 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A           10 LINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            334444444444444443321 11223 344444444444444444444444443

>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=93.12  E-value=1.3  Score=30.97  Aligned_cols=72  Identities=14%  Similarity=0.152  Sum_probs=58.3

Q ss_pred             HHHHHHhcc-cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHH
Q 013323          263 AFHACAELK-DVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVE  335 (445)
Q Consensus       263 li~~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  335 (445)
                      ....|.+.. |.-++.+-++.+....+.|+..+..+.+.+|.+.+++..|.++|+.++.+ +.+...+|..+++
T Consensus        15 y~~~F~~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lq   87 (109)
T 1v54_E           15 WVTYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   87 (109)
T ss_dssp             HHHHHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HHHHcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHH
Confidence            334444555 66778888888888899999999999999999999999999999999877 2334567888887

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=92.45  E-value=1.1  Score=30.91  Aligned_cols=58  Identities=7%  Similarity=0.102  Sum_probs=48.8

Q ss_pred             HHHHhcCCChhHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 013323           83 IVGTMKGSRLQDTFFFRDQMKANGFLPDVA-VYNYLISVCGKCKNSDQAIRIFEEMKKYE  141 (445)
Q Consensus        83 l~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~m~~~g  141 (445)
                      ...+.+.|++++|...|+...+.. +.+.. .|..+-.+|.+.|++++|...|++..+..
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            345678899999999999998864 23567 88899999999999999999999998753

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=92.04  E-value=1.7  Score=30.03  Aligned_cols=48  Identities=8%  Similarity=-0.065  Sum_probs=25.4

Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 013323           92 LQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKY  140 (445)
Q Consensus        92 ~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~  140 (445)
                      .++|..++++..+.. +-+......+-..+.+.|++++|...|+.+.+.
T Consensus        25 ~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A           25 TDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            455555555555533 123444444555555566666666666655553

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=91.92  E-value=1.2  Score=31.43  Aligned_cols=66  Identities=12%  Similarity=-0.010  Sum_probs=41.5

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhC------CCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHc
Q 013323          110 DVAVYNYLISVCGKCKNSDQAIRIFEEMKKY------EVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       110 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~------g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      +..-+-.|-..+.+.++++.|..+|+...+.      +-.+....|..+..++.+.|++++|...+++..+.
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            3344445666666777777777777665432      11234566777777777777777777777777653

>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=91.51  E-value=2.3  Score=36.54  Aligned_cols=94  Identities=13%  Similarity=0.121  Sum_probs=72.4

Q ss_pred             hhHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHcc-----CCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHc-CCh
Q 013323           92 LQDTFFFRDQMKANGFLPD---VAVYNYLISVCGKC-----KNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAA-GQL  162 (445)
Q Consensus        92 ~~~a~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~-----g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~-g~~  162 (445)
                      ...|...+++..+.  .|+   ...|..|...|.+.     |+.++|.+.|++-.+.+-.-+..++...-..+++. |+.
T Consensus       179 l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            45566667777664  466   56899999999994     99999999999998853222477888888888885 999


Q ss_pred             hhHHHHHHHHHHcCCC--CCHHHHHHH
Q 013323          163 DPVYAIVRDMTAAGAG--LDKFCYAGL  187 (445)
Q Consensus       163 ~~a~~~~~~m~~~g~~--p~~~~~~~l  187 (445)
                      +++.+.+++.......  |+....+.+
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~~~lan~~  283 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPHNKLLVIL  283 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSSCHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCChhHHHHH
Confidence            9999999999997665  765544444

>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=91.18  E-value=2.4  Score=31.39  Aligned_cols=72  Identities=14%  Similarity=0.152  Sum_probs=58.7

Q ss_pred             HHHHHHhcc-cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHH
Q 013323          263 AFHACAELK-DVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVE  335 (445)
Q Consensus       263 li~~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  335 (445)
                      ....|.+.. |.-+..+-++.+....+.|+..+..+.+.+|-+.+++..|.++|+-++.+ +.+....|..+++
T Consensus        58 y~~~F~~~~iD~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           58 WVTYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HHHHcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            344444555 66677888888888889999999999999999999999999999999877 3345667988887

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=91.11  E-value=4.6  Score=31.75  Aligned_cols=101  Identities=10%  Similarity=0.087  Sum_probs=65.6

Q ss_pred             HHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChh
Q 013323           84 VGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLD  163 (445)
Q Consensus        84 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~  163 (445)
                      ....+.|+++.|.++-+++      -+...|..|-+...+.|+++-|++.|.....         |..+.--|.-.|+.+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHH
T ss_pred             HHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHH
Confidence            3445678888888887665      3677888888888888888888888887764         566666666677777


Q ss_pred             hHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHH
Q 013323          164 PVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIE  207 (445)
Q Consensus       164 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~  207 (445)
                      +...+-+.....|-      ++.....+...|+.  +.+.+++.
T Consensus        78 ~L~kla~iA~~~g~------~n~af~~~l~lGdv--~~~i~lL~  113 (177)
T 3mkq_B           78 KLSKMQNIAQTRED------FGSMLLNTFYNNST--KERSSIFA  113 (177)
T ss_dssp             HHHHHHHHHHHTTC------HHHHHHHHHHHTCH--HHHHHHHH
T ss_pred             HHHHHHHHHHHCcc------HHHHHHHHHHcCCH--HHHHHHHH
Confidence            76655555554441      33334444445543  55555543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=90.82  E-value=2.1  Score=29.55  Aligned_cols=68  Identities=7%  Similarity=-0.040  Sum_probs=54.2

Q ss_pred             CCCHHHHHHHHHHHHccCC---HHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcC
Q 013323          108 LPDVAVYNYLISVCGKCKN---SDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAG  176 (445)
Q Consensus       108 ~p~~~~~~~ll~~~~~~g~---~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g  176 (445)
                      +.|...+..+-.++...++   .++|..+|++..... +-+......+-..+.+.|++++|...|+.+.+..
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~   73 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN   73 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            3567777777777765554   699999999998754 2356778888889999999999999999999864

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=90.75  E-value=1.6  Score=30.90  Aligned_cols=65  Identities=15%  Similarity=0.111  Sum_probs=43.8

Q ss_pred             CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCC------CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 013323           75 TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANG------FLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus        75 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g------~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  139 (445)
                      +...+-.+-..+.+.++++.|...|+...+.-      -.+...++..|-.++.+.|+++.|..++++...
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            34444555566667777777777777665420      124566777888888888888888888887765

>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=88.66  E-value=3.5  Score=31.38  Aligned_cols=36  Identities=17%  Similarity=0.251  Sum_probs=24.0

Q ss_pred             CChhhHHHHHHHHHhcCcH------hHHHHHHHHHHHCCCCCC
Q 013323           39 NNASEYNTVVTSLTSQRRF------FLLRDVYDDMMLDGVQPT   75 (445)
Q Consensus        39 p~~~~~~~li~~~~~~~~~------~~a~~~~~~m~~~g~~p~   75 (445)
                      -|..+|-..+...-+.|+.      ++..++|++-.. .++|+
T Consensus        11 ~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia-~~Pp~   52 (161)
T 4h7y_A           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE-ALPPD   52 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH-HSCGG
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH-cCCcc
Confidence            4567777777777777777      677777776654 34554

>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=88.45  E-value=2.1  Score=38.88  Aligned_cols=116  Identities=11%  Similarity=0.027  Sum_probs=79.1

Q ss_pred             CHHHHHHHHHHHh---cCCChhHHHHHHHHHHHC--C-CCCCH------------------HHHHHHHHHHHccCCHHHH
Q 013323           75 TRDLFHSLIVGTM---KGSRLQDTFFFRDQMKAN--G-FLPDV------------------AVYNYLISVCGKCKNSDQA  130 (445)
Q Consensus        75 ~~~~~~~ll~~~~---~~~~~~~a~~~~~~m~~~--g-~~p~~------------------~~~~~ll~~~~~~g~~~~a  130 (445)
                      |...|..++....   ..|+.+.+...+++....  | +-++.                  .+...++..+...|+++++
T Consensus       111 D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~~~~w~~~~r~~l~~~~~~a~~~~~~~~l~~g~~~~a  190 (388)
T 2ff4_A          111 DLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAV  190 (388)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             hHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            3334555444322   346677777777666542  2 11111                  1234466677789999999


Q ss_pred             HHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHH-----cCCCCCHHHHHHHHHHH
Q 013323          131 IRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA-----AGAGLDKFCYAGLITAH  191 (445)
Q Consensus       131 ~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~~li~~~  191 (445)
                      ...+....... +.+...|..+|.++.+.|+..+|++.|+.+.+     -|+.|+..+-...-..+
T Consensus       191 ~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~~~il  255 (388)
T 2ff4_A          191 IAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALNERIL  255 (388)
T ss_dssp             HHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            99988887643 34778999999999999999999999998754     49999988755544433

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=88.41  E-value=16  Score=33.87  Aligned_cols=120  Identities=9%  Similarity=0.062  Sum_probs=61.0

Q ss_pred             CcHhHHHHHHHHHHH-----CCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHC-CCCCCHHH--HHHHHHHHHccCC
Q 013323           55 RRFFLLRDVYDDMML-----DGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN-GFLPDVAV--YNYLISVCGKCKN  126 (445)
Q Consensus        55 ~~~~~a~~~~~~m~~-----~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~--~~~ll~~~~~~g~  126 (445)
                      |+++.|++-+-.+.+     ....-+......++..|...++++...+.+..+.+. |..+...+  -+.++......+.
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~  109 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKS  109 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCc
Confidence            677777777665553     223345666777888888888888887777666543 43222221  1222222222333


Q ss_pred             HHHHH--HHHHHHHh--CC-CCc---cHHHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          127 SDQAI--RIFEEMKK--YE-VKP---NGQTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       127 ~~~a~--~~~~~m~~--~g-~~p---~~~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      .+...  .+.+....  .| +-.   .......+...+-..|++.+|..++.++..
T Consensus       110 ~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~  165 (445)
T 4b4t_P          110 LDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQV  165 (445)
T ss_dssp             THHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            22211  11111110  01 101   122334556666667777777777776654

>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=87.86  E-value=5.1  Score=34.45  Aligned_cols=111  Identities=7%  Similarity=-0.031  Sum_probs=80.5

Q ss_pred             ChhhHHHHHH-HHHhc--Cc------HhHHHHHHHHHHHCCCCCC---HHHHHHHHHHHhc-----CCChhHHHHHHHHH
Q 013323           40 NASEYNTVVT-SLTSQ--RR------FFLLRDVYDDMMLDGVQPT---RDLFHSLIVGTMK-----GSRLQDTFFFRDQM  102 (445)
Q Consensus        40 ~~~~~~~li~-~~~~~--~~------~~~a~~~~~~m~~~g~~p~---~~~~~~ll~~~~~-----~~~~~~a~~~~~~m  102 (445)
                      ....|..++. .+...  |.      ...|..++++..+  +.|+   -..|..+-..|.+     .|+.+.|.+.|++.
T Consensus       153 e~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferA  230 (301)
T 3u64_A          153 GTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACD--LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHL  230 (301)
T ss_dssp             HHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHH
Confidence            3455666554 33332  33      3456666666655  3476   4578888888888     59999999999999


Q ss_pred             HHCCCCC--CHHHHHHHHHHHHcc-CCHHHHHHHHHHHHhCCCC--ccHHHHHHHHH
Q 013323          103 KANGFLP--DVAVYNYLISVCGKC-KNSDQAIRIFEEMKKYEVK--PNGQTYVCLLN  154 (445)
Q Consensus       103 ~~~g~~p--~~~~~~~ll~~~~~~-g~~~~a~~~~~~m~~~g~~--p~~~~y~~li~  154 (445)
                      .+.+  |  +..++...-..+++. |+.+++.+.+++.......  |+....+.+-+
T Consensus       231 L~Ln--P~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan~~~q  285 (301)
T 3u64_A          231 TRYC--SAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNKLLVILSQ  285 (301)
T ss_dssp             HHHC--CTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHHHHHH
T ss_pred             HHhC--CCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHHHHHH
Confidence            9865  6  478888888989885 9999999999999987666  66555555443

>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=87.73  E-value=2.3  Score=38.67  Aligned_cols=74  Identities=16%  Similarity=0.011  Sum_probs=59.2

Q ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHh-----CCCCCCHHHHHHH
Q 013323          259 VYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYIC-----SEKFPPAELYATL  333 (445)
Q Consensus       259 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~~~~p~~~~~~~l  333 (445)
                      ....++.++...|+++++...+..+... -+.+...|..+|.++.+.|+..+|++.|+...+     .|+.|+..+-...
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            4556777788899999999888877653 234788999999999999999999999998764     2899988764443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=87.71  E-value=3.7  Score=40.71  Aligned_cols=124  Identities=9%  Similarity=0.072  Sum_probs=78.7

Q ss_pred             HHHHHHHhcCc-HhHHHHHHHHHHHCCCCCCHHH--HHHHHHHHhcCCC-hhHHHHHHHHHHHC------CCCC-CHHH-
Q 013323           46 TVVTSLTSQRR-FFLLRDVYDDMMLDGVQPTRDL--FHSLIVGTMKGSR-LQDTFFFRDQMKAN------GFLP-DVAV-  113 (445)
Q Consensus        46 ~li~~~~~~~~-~~~a~~~~~~m~~~g~~p~~~~--~~~ll~~~~~~~~-~~~a~~~~~~m~~~------g~~p-~~~~-  113 (445)
                      .++..+...++ .+.|.++|+.+....  |...+  ...++....+.++ --+|.+++.+..+.      ...+ +... 
T Consensus       253 ~Ll~~~~~t~~~~~~a~~~le~L~~~~--p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~  330 (754)
T 4gns_B          253 SLKSFIAITPSLVDFTIDYLKGLTKKD--PIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSA  330 (754)
T ss_dssp             HHHHHHHTCGGGHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHH
T ss_pred             HHHHHHcccccHHHHHHHHHHHHHhhC--CchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccc
Confidence            34455555666 588999999998864  43333  2344444444332 22344444443321      1111 1110 


Q ss_pred             --H---HHHH----HHHHccCCHHHHHHHHHHHHhCCCCcc-HHHHHHHHHHHHHcCChhhHHHHHHHHH
Q 013323          114 --Y---NYLI----SVCGKCKNSDQAIRIFEEMKKYEVKPN-GQTYVCLLNACAAAGQLDPVYAIVRDMT  173 (445)
Q Consensus       114 --~---~~ll----~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~  173 (445)
                        .   ..|+    +.|...|+++.|+++-++-...  .|+ -.+|..|..+|...|+++.|+-.++.+.
T Consensus       331 ~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          331 RLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             cccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence              0   1133    3456789999999999998774  455 6799999999999999999999999873

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=87.35  E-value=5.2  Score=29.40  Aligned_cols=20  Identities=10%  Similarity=0.129  Sum_probs=9.7

Q ss_pred             HHHccCCHHHHHHHHHHHHh
Q 013323          120 VCGKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus       120 ~~~~~g~~~~a~~~~~~m~~  139 (445)
                      ++.+.|++++|.+.++.+.+
T Consensus        83 g~yklg~Y~~A~~~~~~lL~  102 (126)
T 1nzn_A           83 GNYRLKEYEKALKYVRGLLQ  102 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHH
Confidence            44445555555555544443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=87.12  E-value=4.6  Score=40.09  Aligned_cols=54  Identities=7%  Similarity=-0.006  Sum_probs=45.3

Q ss_pred             HHHHHhcccHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChhhHHHHHHHHH
Q 013323          264 FHACAELKDVQAMETLLEMLKKDRKSPD-VYIVMQNIRCYLHSGDIDNGHKVFEDYI  319 (445)
Q Consensus       264 i~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~  319 (445)
                      ..-|...|+++.|..+-+....  ..|+ -.+|..|..+|...|+++.|+-.++.+.
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~--~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTE--LALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHhccCcHHHHHHHHHHHHh--cCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            4446678999999999888765  5675 5599999999999999999999999874

>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=86.66  E-value=6.4  Score=27.52  Aligned_cols=44  Identities=16%  Similarity=0.290  Sum_probs=20.9

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 013323           95 TFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMK  138 (445)
Q Consensus        95 a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  138 (445)
                      ..+-++.+....+.|++.+..+.+++|-|.+++..|.++|+-.+
T Consensus        29 ~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK   72 (109)
T 1v54_E           29 LRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   72 (109)
T ss_dssp             HHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            33444444444444555555555555555555555555544444

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=83.91  E-value=27  Score=32.28  Aligned_cols=61  Identities=8%  Similarity=0.099  Sum_probs=46.8

Q ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHhC--CCCCC---HHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 013323          260 YHVAFHACAELKDVQAMETLLEMLKKD--RKSPD---VYIVMQNIRCYLHSGDIDNGHKVFEDYIC  320 (445)
Q Consensus       260 ~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~  320 (445)
                      ...+...+-..|++.+|..++..+...  |..+.   ...|...++.|...+++..|..++..+..
T Consensus       140 ~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~  205 (445)
T 4b4t_P          140 TKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILK  205 (445)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            345677788889999999999988643  32222   34677788999999999999999998754

>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=83.53  E-value=12  Score=27.84  Aligned_cols=59  Identities=17%  Similarity=0.273  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHH
Q 013323          129 QAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLI  188 (445)
Q Consensus       129 ~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  188 (445)
                      +..+-++.+...++.|++....+.+++|-|.+++..|..+|+-.+.+- .+...+|..++
T Consensus        71 ElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~l  129 (152)
T 2y69_E           71 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI  129 (152)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHH
Confidence            445555555566677777777777777777777777777777766542 22233455554

>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=82.91  E-value=8.4  Score=29.35  Aligned_cols=113  Identities=12%  Similarity=0.022  Sum_probs=74.9

Q ss_pred             CHHHHHHHHHHHhcCCCh------hHHHHHHHHHHHCCCCCCHH-HHHHHHH------HHHccCCHHHHHHHHHHHHhCC
Q 013323           75 TRDLFHSLIVGTMKGSRL------QDTFFFRDQMKANGFLPDVA-VYNYLIS------VCGKCKNSDQAIRIFEEMKKYE  141 (445)
Q Consensus        75 ~~~~~~~ll~~~~~~~~~------~~a~~~~~~m~~~g~~p~~~-~~~~ll~------~~~~~g~~~~a~~~~~~m~~~g  141 (445)
                      |..+|-..+...-+.|+.      +...++|+.... .++|+.. .|..-|.      .+...+++++|.++|+.+.+..
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia-~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE-ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH-HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH-cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            566777777777766777      777788887665 3455421 1111111      1123479999999999997643


Q ss_pred             CCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 013323          142 VKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITA  190 (445)
Q Consensus       142 ~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~  190 (445)
                      -+- ...|-..-.--.+.|++.+|.+++......+-+| .....+.|.-
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~-~~~le~a~~n  137 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP-LEMLEIALRN  137 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC-HHHHHHHHHH
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc-HHHHHHHHHh
Confidence            233 6777777777889999999999999999877553 4444444443

---

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	445
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.69
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.52
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.23
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.1
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.03
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.82
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.69
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.63
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.5
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.43
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.43
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.13
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.11
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	97.95
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	97.92
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.91
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.82
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.81
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.74
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.72
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	97.68
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.66
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.64
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.6
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.57
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.56
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.52
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.5
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.4
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.29
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.12
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.84
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	96.77
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	96.72
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	96.69
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	96.61
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	96.51
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.43
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.24
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	96.2
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	96.15
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	96.14
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.0
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	95.91
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	95.85
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	95.7
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	95.5
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	95.29
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	95.05
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.74
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	94.11
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	93.44
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	92.78
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	92.71
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	92.12
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	90.37
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	90.1
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	88.21
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	87.56
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	80.72

>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=99.69  E-value=2.1e-13  Score=124.01  Aligned_cols=309  Identities=12%  Similarity=-0.010  Sum_probs=196.9

Q ss_pred             HHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHH
Q 013323           50 SLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQ  129 (445)
Q Consensus        50 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~  129 (445)
                      .+.+.|++++|.+.|+++.+.. +-+...+..+-..+.+.|++++|...|+...+.. +-+..+|..+..+|.+.|++++
T Consensus         8 ~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~   85 (388)
T d1w3ba_           8 REYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccccc
Confidence            4456677777777776665542 1235556666666666777777777777666543 1235566666667777777777


Q ss_pred             HHHHHHHHHhCCCC------------------------------------------------------------------
Q 013323          130 AIRIFEEMKKYEVK------------------------------------------------------------------  143 (445)
Q Consensus       130 a~~~~~~m~~~g~~------------------------------------------------------------------  143 (445)
                      |...+.........                                                                  
T Consensus        86 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (388)
T d1w3ba_          86 AIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ  165 (388)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccC
Confidence            76666655432211                                                                  


Q ss_pred             c-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccc
Q 013323          144 P-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSG  222 (445)
Q Consensus       144 p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  222 (445)
                      | +...+..+...+...|++++|...++...+.. +-+...+..+-..+...|+.  +.|...++......         
T Consensus       166 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~--~~A~~~~~~~~~~~---------  233 (388)
T d1w3ba_         166 PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIF--DRAVAAYLRALSLS---------  233 (388)
T ss_dssp             TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCT--THHHHHHHHHHHHC---------
T ss_pred             cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccH--HHHHHHHHHhHHHh---------
Confidence            1 22334444455555566666666666555432 11344555555555555554  55555555544321         


Q ss_pred             cccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCC-CHHHHHHHHHH
Q 013323          223 NNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSP-DVYIVMQNIRC  301 (445)
Q Consensus       223 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~  301 (445)
                                                     +.+...+..+-..+.+.|++++|...++...+.  .| +..++..+...
T Consensus       234 -------------------------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~  280 (388)
T d1w3ba_         234 -------------------------------PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANA  280 (388)
T ss_dssp             -------------------------------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHH
T ss_pred             -------------------------------hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence                                           345556777788888889999999999887763  34 45678888888


Q ss_pred             HHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCC-cchhhHHHHHhhccc
Q 013323          302 YLHSGDIDNGHKVFEDYICSEKFPPAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLS-PRMGSDLLLVAAGEK  379 (445)
Q Consensus       302 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~  379 (445)
                      +...|++++|.+.|+..... .+.+...+..+..    .+...|. ++|.+.|++..+..  |+ +.++..+-..+.  +
T Consensus       281 ~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~----~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~--~  351 (388)
T d1w3ba_         281 LKEKGSVAEAEDCYNTALRL-CPTHADSLNNLAN----IKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQ--Q  351 (388)
T ss_dssp             HHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHH----HHHTTTCHHHHHHHHHHHTTSC--TTCHHHHHHHHHHHH--T
T ss_pred             HHHcCCHHHHHHHHHhhhcc-CCccchhhhHHHH----HHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHH--H
Confidence            99999999999999887765 2345566666655    4566777 88999998887643  44 334555555555  8


Q ss_pred             CCChhhHHHHHHHHHHCCCCCC-HHHHHHHHhhhhccC
Q 013323          380 SGGYTTANYIWDLMQARKITPS-LPAVEAYYNGLKDRE  416 (445)
Q Consensus       380 ~g~~~~A~~~~~~m~~~~~~p~-~~~~~~l~~~~~~~~  416 (445)
                      .|++++|...|++..+  +.|+ ...|..+...+.+.|
T Consensus       352 ~g~~~~A~~~~~~al~--l~P~~~~a~~~lg~~~~~~~  387 (388)
T d1w3ba_         352 QGKLQEALMHYKEAIR--ISPTFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             TTCCHHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTC
T ss_pred             cCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcC
Confidence            9999999999988775  4464 556777777776655

>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=99.52  E-value=3.3e-11  Score=109.13  Aligned_cols=287  Identities=13%  Similarity=-0.011  Sum_probs=222.2

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCC-----------
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFL-----------  108 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~-----------  108 (445)
                      +...+..+-..+.+.|++++|...|+...+.. +-+..+|..+...+.+.|++++|...+....+....           
T Consensus        32 ~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  110 (388)
T d1w3ba_          32 NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAA  110 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcccccccccccccccccccccccccccccc
Confidence            57788888899999999999999999987753 225678888889999999999999888876543210           


Q ss_pred             --------------------------------------------------------CCHHHHHHHHHHHHccCCHHHHHH
Q 013323          109 --------------------------------------------------------PDVAVYNYLISVCGKCKNSDQAIR  132 (445)
Q Consensus       109 --------------------------------------------------------p~~~~~~~ll~~~~~~g~~~~a~~  132 (445)
                                                                              -+...+..+...+...|++++|..
T Consensus       111 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  190 (388)
T d1w3ba_         111 LVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIH  190 (388)
T ss_dssp             HHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCcchhHHHHhhcccccccCcHHHHHH
Confidence                                                                    123455666677788899999999


Q ss_pred             HHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHh
Q 013323          133 IFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQS  212 (445)
Q Consensus       133 ~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~  212 (445)
                      .+++..+.. +-+...|..+...+...|++++|...++.....+ ..+...+..+-..+.+.|+.  +.|...++...+.
T Consensus       191 ~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~--~~A~~~~~~al~~  266 (388)
T d1w3ba_         191 HFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLI--DLAIDTYRRAIEL  266 (388)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHT
T ss_pred             HHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCH--HHHHHHHHHHHHh
Confidence            999887643 2246788999999999999999999999998865 34567777777888888866  8898888876553


Q ss_pred             cCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCH
Q 013323          213 KGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDV  292 (445)
Q Consensus       213 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  292 (445)
                      .                                        +.+..+|..+...+...|++++|...++..... .+.+.
T Consensus       267 ~----------------------------------------p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~  305 (388)
T d1w3ba_         267 Q----------------------------------------PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHA  305 (388)
T ss_dssp             C----------------------------------------SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCH
T ss_pred             C----------------------------------------CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccc
Confidence            2                                        445677888999999999999999999987764 34577


Q ss_pred             HHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCC-CHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHhCCCCCC-cchhh
Q 013323          293 YIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFP-PAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNSRNIFLS-PRMGS  369 (445)
Q Consensus       293 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~~~~~p~-~~~~~  369 (445)
                      ..+..+...+...|++++|.+.|++..+.  .| +...+..+-.    .|.+.|. ++|.+.|++..+..  |+ +..|.
T Consensus       306 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~----~~~~~g~~~~A~~~~~~al~l~--P~~~~a~~  377 (388)
T d1w3ba_         306 DSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLAS----VLQQQGKLQEALMHYKEAIRIS--PTFADAYS  377 (388)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHH----HHHTTTCCHHHHHHHHHHHTTC--TTCHHHHH
T ss_pred             hhhhHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHH----HHHHcCCHHHHHHHHHHHHHhC--CCCHHHHH
Confidence            78888999999999999999999998765  34 3455555555    5678888 99999999988753  54 44566


Q ss_pred             HHHHHhhcccCCC
Q 013323          370 DLLLVAAGEKSGG  382 (445)
Q Consensus       370 ~ll~~~~~~~~g~  382 (445)
                      .+-.++.  +.||
T Consensus       378 ~lg~~~~--~~~D  388 (388)
T d1w3ba_         378 NMGNTLK--EMQD  388 (388)
T ss_dssp             HHHHHHH--HTCC
T ss_pred             HHHHHHH--HcCC
Confidence            6655554  4443

>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=99.23  E-value=2.7e-09  Score=94.11  Aligned_cols=225  Identities=8%  Similarity=-0.042  Sum_probs=133.6

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 013323           48 VTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNS  127 (445)
Q Consensus        48 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  127 (445)
                      -..+.+.|++++|...|+...+.. +-+..+|..+-.++...|++++|...|+...+.. +-+...|..+...|...|++
T Consensus        26 g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~  103 (323)
T d1fcha_          26 GLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQ  103 (323)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccccc
Confidence            345678899999999999988764 2257788888899999999999999999988754 23577888888999999999


Q ss_pred             HHHHHHHHHHHhCCCCccHHH----------------HHHHHHHHHHcCChhhHHHHHHHHHHcC-CCCCHHHHHHHHHH
Q 013323          128 DQAIRIFEEMKKYEVKPNGQT----------------YVCLLNACAAAGQLDPVYAIVRDMTAAG-AGLDKFCYAGLITA  190 (445)
Q Consensus       128 ~~a~~~~~~m~~~g~~p~~~~----------------y~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~li~~  190 (445)
                      ++|.+.++......  |+...                +...+..+...+.+.++...|.+..+.. -.++..++..+-..
T Consensus       104 ~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~  181 (323)
T d1fcha_         104 RQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVL  181 (323)
T ss_dssp             HHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHH
T ss_pred             cccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHH
Confidence            99999999887642  22111                1111222233344455555555544321 12234444444444


Q ss_pred             HHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhc
Q 013323          191 HTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAEL  270 (445)
Q Consensus       191 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~  270 (445)
                      +...|+.  +.|...++......                                        +.+...|..+-..+.+.
T Consensus       182 ~~~~~~~--~~A~~~~~~al~~~----------------------------------------p~~~~~~~~lg~~~~~~  219 (323)
T d1fcha_         182 FNLSGEY--DKAVDCFTAALSVR----------------------------------------PNDYLLWNKLGATLANG  219 (323)
T ss_dssp             HHHTTCH--HHHHHHHHHHHHHC----------------------------------------TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHH--hhhhcccccccccc----------------------------------------cccccchhhhhhccccc
Confidence            4444433  55555554433221                                        22334455555555555


Q ss_pred             ccHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhhHHHHHHHHHh
Q 013323          271 KDVQAMETLLEMLKKDRKSP-DVYIVMQNIRCYLHSGDIDNGHKVFEDYIC  320 (445)
Q Consensus       271 g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  320 (445)
                      |++++|.+.++...+.  .| +...|..+-.+|.+.|++++|.+.|++..+
T Consensus       220 g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         220 NQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             TCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ccchhHHHHHHHHHHH--hhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            5555555555554432  23 333455555555555555555555555443

>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=99.10  E-value=1.8e-08  Score=88.74  Aligned_cols=223  Identities=8%  Similarity=-0.028  Sum_probs=148.2

Q ss_pred             HHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChh
Q 013323           84 VGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLD  163 (445)
Q Consensus        84 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~  163 (445)
                      ..+.+.|++++|...|+...+.. +-+..+|..+..++...|++++|...|++..+.. +-+...|..+...+...|+++
T Consensus        27 ~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~  104 (323)
T d1fcha_          27 LRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQR  104 (323)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccccc
Confidence            34678999999999999999865 2357899999999999999999999999987643 225778888999999999999


Q ss_pred             hHHHHHHHHHHcCCCCCHHHHHHHH----------------HHHHccCCCchHHHHHHHHHHHHhcCCccccccccccch
Q 013323          164 PVYAIVRDMTAAGAGLDKFCYAGLI----------------TAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAEN  227 (445)
Q Consensus       164 ~a~~~~~~m~~~g~~p~~~~~~~li----------------~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  227 (445)
                      +|.+.++......  |+........                ..+...+  ....+...+.......              
T Consensus       105 ~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~a~~~~~~al~~~--------------  166 (323)
T d1fcha_         105 QACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDS--LFLEVKELFLAAVRLD--------------  166 (323)
T ss_dssp             HHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHH--HHHHHHHHHHHHHHHS--------------
T ss_pred             ccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhh--HHHHHHHHHHHHHHHh--------------
Confidence            9999999987642  2211100000                0000000  0011222222111110              


Q ss_pred             hhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcC
Q 013323          228 EMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSP-DVYIVMQNIRCYLHSG  306 (445)
Q Consensus       228 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g  306 (445)
                                             . ...+..++..+-..+...|++++|...++.....  .| +...|..+-..|...|
T Consensus       167 -----------------------p-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g  220 (323)
T d1fcha_         167 -----------------------P-TSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGN  220 (323)
T ss_dssp             -----------------------T-TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTT
T ss_pred             -----------------------h-cccccccchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccc
Confidence                                   0 0234456666777777888888888888876653  23 4566777777888888


Q ss_pred             ChhhHHHHHHHHHhCCCCC-CHHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHh
Q 013323          307 DIDNGHKVFEDYICSEKFP-PAELYATLVEGAMFGYTPKGM-QLAQDTLVNMNS  358 (445)
Q Consensus       307 ~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~  358 (445)
                      ++++|.+.|+...+.  .| +...|..+-.    .|.+.|. ++|.+.|++..+
T Consensus       221 ~~~~A~~~~~~al~~--~p~~~~a~~~lg~----~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         221 QSEEAVAAYRRALEL--QPGYIRSRYNLGI----SCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             CHHHHHHHHHHHHHH--CTTCHHHHHHHHH----HHHHHTCHHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHH--hhccHHHHHHHHH----HHHHCCCHHHHHHHHHHHHH
Confidence            888888888877664  22 3444554544    4667777 888888877665

>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=99.03  E-value=1.1e-07  Score=83.06  Aligned_cols=221  Identities=11%  Similarity=0.038  Sum_probs=159.0

Q ss_pred             HhHHHHHHHHHHHCCCCCCHHHHHHHHHHHh--------------cCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013323           57 FFLLRDVYDDMMLDGVQPTRDLFHSLIVGTM--------------KGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCG  122 (445)
Q Consensus        57 ~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~--------------~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  122 (445)
                      .+.+..+|++.... ++-+...|...+.-+-              ..+..++|..+|+...+...+.+...|........
T Consensus        32 ~~Rv~~vyerAl~~-~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~  110 (308)
T d2onda1          32 TKRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            34566677776653 1234455554444332              22345788889998887655556778888999999


Q ss_pred             ccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHH-HHHccCCCchHH
Q 013323          123 KCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLIT-AHTNKIPRADDT  201 (445)
Q Consensus       123 ~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~-~~~~~~~~~~~~  201 (445)
                      +.|+++.|..+|+.+...........|...+..+.+.|+.++|.++|+...+.+.. +...|..... -+...|  +.+.
T Consensus       111 ~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~~-~~~~~~~~a~~e~~~~~--~~~~  187 (308)
T d2onda1         111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDART-RHHVYVTAALMEYYCSK--DKSV  187 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTC-CTHHHHHHHHHHHHTSC--CHHH
T ss_pred             hcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcc--CHHH
Confidence            99999999999999987543333557899999999999999999999999876532 2222322221 222233  3388


Q ss_pred             HHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHH
Q 013323          202 ATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLE  281 (445)
Q Consensus       202 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  281 (445)
                      +.++++......                                        +.+...|...+..+.+.|+++.|..+|+
T Consensus       188 a~~i~e~~l~~~----------------------------------------p~~~~~w~~y~~~~~~~g~~~~aR~~fe  227 (308)
T d2onda1         188 AFKIFELGLKKY----------------------------------------GDIPEYVLAYIDYLSHLNEDNNTRVLFE  227 (308)
T ss_dssp             HHHHHHHHHHHH----------------------------------------TTCHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhh----------------------------------------hhhHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            999998877542                                        5566788899999999999999999999


Q ss_pred             HHHhC-CCCCC--HHHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          282 MLKKD-RKSPD--VYIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       282 ~m~~~-~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      ..... +..|+  ...|...+.--...|+.+.+..+++++.+.
T Consensus       228 ~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         228 RVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            87664 34553  457888888888899999999999988664

>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=98.82  E-value=1e-06  Score=76.63  Aligned_cols=190  Identities=8%  Similarity=0.012  Sum_probs=145.7

Q ss_pred             cHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 013323           56 RFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFE  135 (445)
Q Consensus        56 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  135 (445)
                      ..++|..+|++..+...+.+...|........+.|+.+.|..+|+.+.+........+|...+..+.+.|+++.|.++|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            45788899998876544456667888888899999999999999999876533345689999999999999999999999


Q ss_pred             HHHhCCCCccHHHHHHHHHH-HHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcC
Q 013323          136 EMKKYEVKPNGQTYVCLLNA-CAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKG  214 (445)
Q Consensus       136 ~m~~~g~~p~~~~y~~li~~-~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~  214 (445)
                      ...+.+. .+...|-..... +...|+.+.|..+|+.+.+. .+.+...+...++.+.+.|+.  +.|+.+|+.......
T Consensus       159 ~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~--~~aR~~fe~ai~~~~  234 (308)
T d2onda1         159 KAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNED--NNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCH--HHHHHHHHHHHHSSS
T ss_pred             HHHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCCh--HHHHHHHHHHHHhCC
Confidence            9987643 233344333332 34468999999999999886 344678899999999998866  899999998765432


Q ss_pred             CccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHh
Q 013323          215 WSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKK  285 (445)
Q Consensus       215 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  285 (445)
                      .++                                    ......|...+.--...|+.+.+..+++.+.+
T Consensus       235 ~~~------------------------------------~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         235 LPP------------------------------------EKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             SCG------------------------------------GGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             CCh------------------------------------HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            111                                    11234688888888889999999999997765

>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=98.69  E-value=7.6e-06  Score=71.11  Aligned_cols=150  Identities=9%  Similarity=0.026  Sum_probs=119.4

Q ss_pred             hhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhcCC-ChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013323           41 ASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPT-RDLFHSLIVGTMKGS-RLQDTFFFRDQMKANGFLPDVAVYNYLI  118 (445)
Q Consensus        41 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~g~~p~~~~~~~ll  118 (445)
                      ...|+.+-..+.+.+.+++|+++++...+.+  |+ ...|+..-.++...| ++++|...++...+.. +-+..+|+.+-
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln--P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~  119 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN--AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRR  119 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHh
Confidence            4556667677788899999999999998854  54 456777777777765 5899999999998764 24588999999


Q ss_pred             HHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC
Q 013323          119 SVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKI  195 (445)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~  195 (445)
                      ..+.+.|++++|+..++.+.+.. +-+...|..+...+.+.|++++|++.++...+... -+...|+..-..+.+.+
T Consensus       120 ~~~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p-~n~~a~~~r~~~l~~~~  194 (315)
T d2h6fa1         120 VLVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTT  194 (315)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTT
T ss_pred             HHHHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCC-ccHHHHHHHHHHHHHcc
Confidence            99999999999999999998754 23688999999999999999999999999998642 25666665554444444

>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=98.63  E-value=1.8e-05  Score=69.38  Aligned_cols=272  Identities=13%  Similarity=-0.058  Sum_probs=173.1

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHCCCCCC----HHHHHHHHHHHhcCCChhHHHHHHHHHHHC----CCCC-CHHHHHHHH
Q 013323           48 VTSLTSQRRFFLLRDVYDDMMLDGVQPT----RDLFHSLIVGTMKGSRLQDTFFFRDQMKAN----GFLP-DVAVYNYLI  118 (445)
Q Consensus        48 i~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~ll  118 (445)
                      -..+...|++++|.+++++..+..-..+    ...+..+-..+...|++++|...|++..+.    +-.+ ....+..+.
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~   98 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS   98 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            3556789999999999999876431111    235666777888999999999999987653    1111 234566777


Q ss_pred             HHHHccCCHHHHHHHHHHHHh----CCCC--c-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCC----CCCHHHHHHH
Q 013323          119 SVCGKCKNSDQAIRIFEEMKK----YEVK--P-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGA----GLDKFCYAGL  187 (445)
Q Consensus       119 ~~~~~~g~~~~a~~~~~~m~~----~g~~--p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~----~p~~~~~~~l  187 (445)
                      ..+...|++..+...+.....    .+..  + ....+..+-..+...|+++.+...+.......-    ......+...
T Consensus        99 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (366)
T d1hz4a_          99 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAML  178 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHH
Confidence            888899999999998887643    2211  1 123556677788899999999999988876422    2233444444


Q ss_pred             HHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHH
Q 013323          188 ITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHAC  267 (445)
Q Consensus       188 i~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~  267 (445)
                      ...+...+..  ..+...+........-..                                 .........+......+
T Consensus       179 ~~~~~~~~~~--~~a~~~~~~a~~~~~~~~---------------------------------~~~~~~~~~~~~~~~~~  223 (366)
T d1hz4a_         179 IQCSLARGDL--DNARSQLNRLENLLGNGK---------------------------------YHSDWISNANKVRVIYW  223 (366)
T ss_dssp             HHHHHHHTCH--HHHHHHHHHHHHHHTTSC---------------------------------CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhH--HHHHHHHHHHHHHHHHhc---------------------------------ccCchHHHHHHHHHHHH
Confidence            4445555543  445554444332210000                                 00011223456666778


Q ss_pred             HhcccHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCChhhHHHHHHHHHhC----CCCCCHH-HHHHHHHhHhh
Q 013323          268 AELKDVQAMETLLEMLKKDRKSP---DVYIVMQNIRCYLHSGDIDNGHKVFEDYICS----EKFPPAE-LYATLVEGAMF  339 (445)
Q Consensus       268 ~~~g~~~~a~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~~~-~~~~li~~~~~  339 (445)
                      ...|+.+.|...+....+.....   ....+..+...+...|++++|.+.++.....    +..|+.. .+..+-.    
T Consensus       224 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~----  299 (366)
T d1hz4a_         224 QMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQ----  299 (366)
T ss_dssp             HHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH----
T ss_pred             HhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHH----
Confidence            88899999999888765432221   2345666788899999999999999887643    3333322 2222222    


Q ss_pred             cCChhhH-HHHHHHHHHHHh
Q 013323          340 GYTPKGM-QLAQDTLVNMNS  358 (445)
Q Consensus       340 ~~~~~g~-~~a~~~~~~m~~  358 (445)
                      .|.+.|+ ++|.+.+++..+
T Consensus       300 ~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         300 LYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHH
Confidence            4677777 888888877654

>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=98.50  E-value=6.5e-05  Score=65.01  Aligned_cols=211  Identities=8%  Similarity=0.029  Sum_probs=153.3

Q ss_pred             HHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC-CHHHHHHHHHHHHhCCCCccHHHHHHHHHH
Q 013323           77 DLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCK-NSDQAIRIFEEMKKYEVKPNGQTYVCLLNA  155 (445)
Q Consensus        77 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g-~~~~a~~~~~~m~~~g~~p~~~~y~~li~~  155 (445)
                      ..|+.+-..+.+.+..++|+++++.+.+.+ +-+...|+..-.++...| ++++|+..++...+.. +-+..+|...-..
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~  121 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHH
Confidence            346666667788899999999999999865 235668888888888876 5899999999987753 2358899999999


Q ss_pred             HHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchh
Q 013323          156 CAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKE  235 (445)
Q Consensus       156 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  235 (445)
                      +.+.|++++|++.++.+.+.. +-+...|..+-..+.+.++.  +.+...++...+..                      
T Consensus       122 ~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~--~~Al~~~~~al~~~----------------------  176 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLW--DNELQYVDQLLKED----------------------  176 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCC--TTHHHHHHHHHHHC----------------------
T ss_pred             HHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhh--HHHHHHHHHHHHHC----------------------
Confidence            999999999999999999863 23688888888888888877  78888888876643                      


Q ss_pred             hhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcc------cHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCh
Q 013323          236 ELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELK------DVQAMETLLEMLKKDRKSP-DVYIVMQNIRCYLHSGDI  308 (445)
Q Consensus       236 ~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g------~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~  308 (445)
                                        +.+...|+.+-..+.+.+      .+++|...+....+.  .| +...|+.+...+. ....
T Consensus       177 ------------------p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~--~P~~~~~~~~l~~ll~-~~~~  235 (315)
T d2h6fa1         177 ------------------VRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQ-DRGL  235 (315)
T ss_dssp             ------------------TTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHT-TTCG
T ss_pred             ------------------CccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHh--CCCchHHHHHHHHHHH-hcCh
Confidence                              445566766555554444      367788877776653  34 5666766655544 4446


Q ss_pred             hhHHHHHHHHHhCCCC-CCHHHHHHHHH
Q 013323          309 DNGHKVFEDYICSEKF-PPAELYATLVE  335 (445)
Q Consensus       309 ~~a~~~~~~m~~~~~~-p~~~~~~~li~  335 (445)
                      +++.+.++...+.... .+...+..+..
T Consensus       236 ~~~~~~~~~~~~l~~~~~~~~~~~~l~~  263 (315)
T d2h6fa1         236 SKYPNLLNQLLDLQPSHSSPYLIAFLVD  263 (315)
T ss_dssp             GGCHHHHHHHHHHTTTCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCcCCHHHHHHHHH
Confidence            7788888777654222 23444555554

>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=98.43  E-value=3e-05  Score=64.92  Aligned_cols=119  Identities=12%  Similarity=-0.081  Sum_probs=88.8

Q ss_pred             cHhHHHHHHHHHHHCCC-CC--CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 013323           56 RFFLLRDVYDDMMLDGV-QP--TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIR  132 (445)
Q Consensus        56 ~~~~a~~~~~~m~~~g~-~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~  132 (445)
                      +.+.++.-+++.....- .+  ...+|..+-..+.+.|++++|...|+...+.. +-+..+|+.+-.+|.+.|++++|+.
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~   92 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYE   92 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhh
Confidence            44555555666654321 12  12245555667888999999999999988754 2357889999999999999999999


Q ss_pred             HHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcC
Q 013323          133 IFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAG  176 (445)
Q Consensus       133 ~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g  176 (445)
                      .|++..+... -+..+|..+...+...|++++|...|+...+..
T Consensus        93 ~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~  135 (259)
T d1xnfa_          93 AFDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD  135 (259)
T ss_dssp             HHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hhhHHHHHHh-hhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc
Confidence            9999887431 246678888888999999999999999888754

>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=98.43  E-value=8e-05  Score=65.01  Aligned_cols=296  Identities=9%  Similarity=-0.062  Sum_probs=186.3

Q ss_pred             HHHhcCCChhHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHHHhC----CCCc-cHHHHHHHHH
Q 013323           84 VGTMKGSRLQDTFFFRDQMKANGFLPD----VAVYNYLISVCGKCKNSDQAIRIFEEMKKY----EVKP-NGQTYVCLLN  154 (445)
Q Consensus        84 ~~~~~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~y~~li~  154 (445)
                      ..+...|++++|.+++++..+..-..+    ...++.+-.+|...|++++|...|++....    +..+ ...++..+..
T Consensus        20 ~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~   99 (366)
T d1hz4a_          20 QVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE   99 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHH
Confidence            456789999999999999887531111    346777888999999999999999987642    1111 2345667778


Q ss_pred             HHHHcCChhhHHHHHHHHHH----cCCCC--CH-HHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccch
Q 013323          155 ACAAAGQLDPVYAIVRDMTA----AGAGL--DK-FCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAEN  227 (445)
Q Consensus       155 ~~~~~g~~~~a~~~~~~m~~----~g~~p--~~-~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  227 (445)
                      .+...|++..+...+.....    .+..+  .. ..+..+-..+...|+.  +.+...++.........           
T Consensus       100 ~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~--~~a~~~~~~~~~~~~~~-----------  166 (366)
T d1hz4a_         100 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARL--DEAEASARSGIEVLSSY-----------  166 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHTTTS-----------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcch--hhhHHHHHHHHHHhhhh-----------
Confidence            88899999999999887654    22221  12 2334444556666655  77777777665432110           


Q ss_pred             hhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhC----CCCC--CHHHHHHHHHH
Q 013323          228 EMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKD----RKSP--DVYIVMQNIRC  301 (445)
Q Consensus       228 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p--~~~~~~~li~~  301 (445)
                                             +. ......+......+...++...+...+......    +..+  ....+..+...
T Consensus       167 -----------------------~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  222 (366)
T d1hz4a_         167 -----------------------QP-QQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIY  222 (366)
T ss_dssp             -----------------------CG-GGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHH
T ss_pred             -----------------------hh-hhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHH
Confidence                                   00 223344555666677788888887777654431    2222  12346666778


Q ss_pred             HHhcCChhhHHHHHHHHHhCCCCCC---HHHHHHHHHhHhhcCChhhH-HHHHHHHHHHHh----CCCCCCc-chhhHHH
Q 013323          302 YLHSGDIDNGHKVFEDYICSEKFPP---AELYATLVEGAMFGYTPKGM-QLAQDTLVNMNS----RNIFLSP-RMGSDLL  372 (445)
Q Consensus       302 ~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~~~~~g~-~~a~~~~~~m~~----~~~~p~~-~~~~~ll  372 (445)
                      +...|+++.|...+..........+   ...+..+-.    .+...|. +.|...+++...    .+..|+. ..+..+-
T Consensus       223 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~----~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  298 (366)
T d1hz4a_         223 WQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIAR----AQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLN  298 (366)
T ss_dssp             HHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHH----HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHH----HHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHH
Confidence            8899999999999987765532222   222333333    4666777 889888887653    2433332 2334444


Q ss_pred             HHhhcccCCChhhHHHHHHHHHH----CCCCC----CHHHHHHHHhhhhccCCCCCCC
Q 013323          373 LVAAGEKSGGYTTANYIWDLMQA----RKITP----SLPAVEAYYNGLKDREVPADDP  422 (445)
Q Consensus       373 ~~~~~~~~g~~~~A~~~~~~m~~----~~~~p----~~~~~~~l~~~~~~~~~~~~a~  422 (445)
                      ..+.  +.|++++|.+.+++-.+    .|...    ....+..++..+.+.+..+++.
T Consensus       299 ~~~~--~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e  354 (366)
T d1hz4a_         299 QLYW--QAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELE  354 (366)
T ss_dssp             HHHH--HHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHH
T ss_pred             HHHH--HCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHH
Confidence            4454  99999999999988653    23321    2234455566666666665543

>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=98.13  E-value=0.00042  Score=57.55  Aligned_cols=84  Identities=11%  Similarity=0.010  Sum_probs=52.7

Q ss_pred             ChhHHHHHHHHHHHCC-CCC--CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHH
Q 013323           91 RLQDTFFFRDQMKANG-FLP--DVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYA  167 (445)
Q Consensus        91 ~~~~a~~~~~~m~~~g-~~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~  167 (445)
                      +.+.++.-+++..... ..+  ...+|..+-.+|.+.|++++|...|++..+.. +-+..+|+.+-.++.+.|++++|..
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~   92 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYE   92 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhh
Confidence            4455556666665432 111  12355556667777777777777777776532 1245667777777777777777777


Q ss_pred             HHHHHHHc
Q 013323          168 IVRDMTAA  175 (445)
Q Consensus       168 ~~~~m~~~  175 (445)
                      .|++..+.
T Consensus        93 ~~~~al~~  100 (259)
T d1xnfa_          93 AFDSVLEL  100 (259)
T ss_dssp             HHHHHHHH
T ss_pred             hhhHHHHH
Confidence            77777664

>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=98.11  E-value=8.1e-05  Score=59.13  Aligned_cols=131  Identities=8%  Similarity=-0.064  Sum_probs=104.6

Q ss_pred             hHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013323           43 EYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCG  122 (445)
Q Consensus        43 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~  122 (445)
                      .|+- -..+...|+++.|++.|++.    ..|+..+|..+-.++...|++++|.+.|++..+.+ +-+...|+.+-.+|.
T Consensus         8 l~~~-g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~   81 (192)
T d1hh8a_           8 LWNE-GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYY   81 (192)
T ss_dssp             HHHH-HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHH-HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHH
Confidence            3444 34457889999999999864    35788888889999999999999999999999865 346789999999999


Q ss_pred             ccCCHHHHHHHHHHHHhCC------------C--Ccc-HHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCC
Q 013323          123 KCKNSDQAIRIFEEMKKYE------------V--KPN-GQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGL  179 (445)
Q Consensus       123 ~~g~~~~a~~~~~~m~~~g------------~--~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  179 (445)
                      +.|++++|++.|++.....            .  .++ ..++..+-.++.+.|++++|.+.|....+....|
T Consensus        82 ~~g~~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~  153 (192)
T d1hh8a_          82 QTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  153 (192)
T ss_dssp             HTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             hhccHHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            9999999999999876421            1  111 3556677788999999999999999887765444

>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=97.95  E-value=9.1e-05  Score=64.62  Aligned_cols=149  Identities=7%  Similarity=-0.012  Sum_probs=97.1

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHH-HHH---HHHHHhc-------CCChhHHHHHHHHHHHCCCCCCHH
Q 013323           44 YNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDL-FHS---LIVGTMK-------GSRLQDTFFFRDQMKANGFLPDVA  112 (445)
Q Consensus        44 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~-~~~---ll~~~~~-------~~~~~~a~~~~~~m~~~g~~p~~~  112 (445)
                      +..++...-.....++|+++++...+.  .|+..+ |+.   ++.....       .|.+++|+.+++...+.. +-+..
T Consensus        32 ~~~~~~~~~~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~  108 (334)
T d1dcea1          32 TQAVFQKRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYG  108 (334)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHH
Confidence            333433333334458999999988874  376543 432   2233332       345788888888888754 24667


Q ss_pred             HHHHHHHHHHccC--CHHHHHHHHHHHHhCCCCccHHHHHHHH-HHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHH
Q 013323          113 VYNYLISVCGKCK--NSDQAIRIFEEMKKYEVKPNGQTYVCLL-NACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLIT  189 (445)
Q Consensus       113 ~~~~ll~~~~~~g--~~~~a~~~~~~m~~~g~~p~~~~y~~li-~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  189 (445)
                      .|..+..++...+  ++++|...++...+.. +++...+...+ ..+...+.+++|+..++...+... -+...|..+-.
T Consensus       109 ~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p-~~~~a~~~l~~  186 (334)
T d1dcea1         109 TWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSC  186 (334)
T ss_dssp             HHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHH
T ss_pred             HHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCC-CCHHHHHHHHH
Confidence            7877777777665  4789999999987753 23455555444 566668899999999988877642 25666766666


Q ss_pred             HHHccCCC
Q 013323          190 AHTNKIPR  197 (445)
Q Consensus       190 ~~~~~~~~  197 (445)
                      .+.+.|+.
T Consensus       187 ~~~~~~~~  194 (334)
T d1dcea1         187 LLPQLHPQ  194 (334)
T ss_dssp             HHHHHSCC
T ss_pred             HHHHhcCH
Confidence            66666654

>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=97.92  E-value=3.4e-05  Score=67.49  Aligned_cols=227  Identities=7%  Similarity=-0.032  Sum_probs=149.2

Q ss_pred             hcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCC--ChhHHHHHHHHHHHCCCCCCHHHHHHH-HHHHHccCCHHH
Q 013323           53 SQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGS--RLQDTFFFRDQMKANGFLPDVAVYNYL-ISVCGKCKNSDQ  129 (445)
Q Consensus        53 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~g~~p~~~~~~~l-l~~~~~~g~~~~  129 (445)
                      ..|.+++|+.+++...+.. +-+...|..+..++...+  ++++|...++...+.. +++...+... -..+...+.+++
T Consensus        85 ~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~  162 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAE  162 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHH
Confidence            3455788999999987754 235666777666665554  5889999999998764 2456666544 467777899999


Q ss_pred             HHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHH
Q 013323          130 AIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELV  209 (445)
Q Consensus       130 a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~  209 (445)
                      |+..++....... -+...|+.+-..+.+.|++++|...++...+.  .|+.   ......+...++.  +.+...+...
T Consensus       163 Al~~~~~~i~~~p-~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~---~~~~~~~~~l~~~--~~a~~~~~~~  234 (334)
T d1dcea1         163 ELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKE---LELVQNAFFTDPN--DQSAWFYHRW  234 (334)
T ss_dssp             HHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHH---HHHHHHHHHHCSS--CSHHHHHHHH
T ss_pred             HHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHH---HHHHHHHHHhcch--hHHHHHHHHH
Confidence            9999998887653 36788999999999999998876655443332  1111   1122223333333  3333333333


Q ss_pred             HHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCC
Q 013323          210 EQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKS  289 (445)
Q Consensus       210 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  289 (445)
                      ....                                        +++...+..+...+...++.++|...+.+..+.  .
T Consensus       235 l~~~----------------------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~  272 (334)
T d1dcea1         235 LLGR----------------------------------------AEPLFRCELSVEKSTVLQSELESCKELQELEPE--N  272 (334)
T ss_dssp             HHSC----------------------------------------CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTT--C
T ss_pred             HHhC----------------------------------------cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhh--C
Confidence            2221                                        233334445566667778888888888776543  3


Q ss_pred             C-CHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCH-HHHHHH
Q 013323          290 P-DVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPA-ELYATL  333 (445)
Q Consensus       290 p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~l  333 (445)
                      | +..++..+...|...|+.++|.+.|+...+.  .|+. .-|..|
T Consensus       273 p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L  316 (334)
T d1dcea1         273 KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDL  316 (334)
T ss_dssp             HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHH
Confidence            4 4567788888899999999999999998775  4543 344444

>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=97.91  E-value=0.00036  Score=59.37  Aligned_cols=213  Identities=10%  Similarity=-0.073  Sum_probs=128.2

Q ss_pred             HHHHhcCCChhHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHh----CCC-CccHHHHHHH
Q 013323           83 IVGTMKGSRLQDTFFFRDQMKAN----GFLP-DVAVYNYLISVCGKCKNSDQAIRIFEEMKK----YEV-KPNGQTYVCL  152 (445)
Q Consensus        83 l~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~----~g~-~p~~~~y~~l  152 (445)
                      -..+...+++++|.+.|.+..+.    +-.+ -..+|+.+-.+|.+.|++++|.+.+++..+    .|- .....++..+
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  123 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHH
Confidence            34566778888888888876542    2112 235788888888888888888888876543    221 1123445556


Q ss_pred             HHHHHH-cCChhhHHHHHHHHHH----cCCCCC-HHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccc
Q 013323          153 LNACAA-AGQLDPVYAIVRDMTA----AGAGLD-KFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAE  226 (445)
Q Consensus       153 i~~~~~-~g~~~~a~~~~~~m~~----~g~~p~-~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  226 (445)
                      ...|-. .|++++|.+.|++..+    .+-.+. ..++..+...+...|+.  +.|...++............       
T Consensus       124 ~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y--~~A~~~~~~~~~~~~~~~~~-------  194 (290)
T d1qqea_         124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQY--IEASDIYSKLIKSSMGNRLS-------  194 (290)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHTTSSCTTT-------
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChH--HHHHHHHHHHHHhCccchhh-------
Confidence            666644 5888888888887653    222221 34466667777888866  88888888766542211100       


Q ss_pred             hhhcccchhhhcchhhhhHHhhhcCcccCc-hhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCC-CC---HHHHHHHHHH
Q 013323          227 NEMMGVSKEELYNLPTAEYVHRRGGFLSRL-LTVYHVAFHACAELKDVQAMETLLEMLKKDRKS-PD---VYIVMQNIRC  301 (445)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-p~---~~~~~~li~~  301 (445)
                                                 ... ...|...+..+...|+.+.|...++...+.... ++   ......++.+
T Consensus       195 ---------------------------~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a  247 (290)
T d1qqea_         195 ---------------------------QWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDA  247 (290)
T ss_dssp             ---------------------------GGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHH
T ss_pred             ---------------------------hhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHH
Confidence                                       111 122344555667789999999999987764311 12   2355667777


Q ss_pred             HHh--cCChhhHHHHHHHHHhCCCCCCHHHHHHHHH
Q 013323          302 YLH--SGDIDNGHKVFEDYICSEKFPPAELYATLVE  335 (445)
Q Consensus       302 ~~~--~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  335 (445)
                      +-.  .+.+++|...|+.+.+    .|......|.+
T Consensus       248 ~~~~d~e~~~eai~~y~~~~~----lD~~~~~~L~~  279 (290)
T d1qqea_         248 VNEGDSEQLSEHCKEFDNFMR----LDKWKITILNK  279 (290)
T ss_dssp             HHTTCTTTHHHHHHHHTTSSC----CCHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHhh----cCHHHHHHHHH
Confidence            665  3457788877765433    35544444443

>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=97.82  E-value=0.00019  Score=51.70  Aligned_cols=90  Identities=8%  Similarity=-0.017  Sum_probs=64.3

Q ss_pred             HHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChh
Q 013323           84 VGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLD  163 (445)
Q Consensus        84 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~  163 (445)
                      ..+.+.|++++|...|++..+.. +-+...|..+-.+|.+.|++++|+..++...+.+ +.+...|..+..++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHH
Confidence            34566777777777777777654 2456677777777777788888887777777654 245667777777777778888


Q ss_pred             hHHHHHHHHHHc
Q 013323          164 PVYAIVRDMTAA  175 (445)
Q Consensus       164 ~a~~~~~~m~~~  175 (445)
                      +|...|+...+.
T Consensus        89 ~A~~~~~~a~~~  100 (117)
T d1elwa_          89 EAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            888777777764

>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=97.81  E-value=0.00018  Score=57.28  Aligned_cols=98  Identities=9%  Similarity=-0.004  Sum_probs=68.4

Q ss_pred             CCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCc-cHHHHHHH
Q 013323           74 PTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKP-NGQTYVCL  152 (445)
Q Consensus        74 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~y~~l  152 (445)
                      |+...+...-..+.+.|++++|...|+...+.. +-+...|+.+-.+|.+.|++++|+..|+...+.  .| +..+|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHH
Confidence            555555555666777777777777777766654 345667777777777777777777777777653  34 35667777


Q ss_pred             HHHHHHcCChhhHHHHHHHHHH
Q 013323          153 LNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       153 i~~~~~~g~~~~a~~~~~~m~~  174 (445)
                      -.+|.+.|++++|+..|++..+
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            7777777777777777776654

>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=97.74  E-value=0.01  Score=50.76  Aligned_cols=233  Identities=10%  Similarity=0.069  Sum_probs=138.6

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYL  117 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  117 (445)
                      .||..--..+..-|-+.|.++.|..+|..+.      |   |..++..+.+.++++.|.++....      -+..+|..+
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~------d---~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~   75 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVS------N---FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEV   75 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTT------C---HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCC------C---HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHH
Confidence            3555555566777889999999999998662      2   777788888899999887776533      367789999


Q ss_pred             HHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCC
Q 013323          118 ISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPR  197 (445)
Q Consensus       118 l~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~  197 (445)
                      ...|.+......+     .+.......+......++..|-..|.+++...+++..... -.++...++.++..|++.+  
T Consensus        76 ~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~--  147 (336)
T d1b89a_          76 CFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK--  147 (336)
T ss_dssp             HHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC--
T ss_pred             HHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC--
Confidence            9999887766543     2333344456666788999999999999999999877543 2467778889999998864  


Q ss_pred             chHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHH
Q 013323          198 ADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAME  277 (445)
Q Consensus       198 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~  277 (445)
                          ..++.+.+....+.                      ++.+.........       ..|.-++-.|.+.|.++.|.
T Consensus       148 ----~~kl~e~l~~~s~~----------------------y~~~k~~~~c~~~-------~l~~elv~Ly~~~~~~~~A~  194 (336)
T d1b89a_         148 ----PQKMREHLELFWSR----------------------VNIPKVLRAAEQA-------HLWAELVFLYDKYEEYDNAI  194 (336)
T ss_dssp             ----HHHHHHHHHHHSTT----------------------SCHHHHHHHHHTT-------TCHHHHHHHHHHTTCHHHHH
T ss_pred             ----hHHHHHHHHhcccc----------------------CCHHHHHHHHHHc-------CChHHHHHHHHhcCCHHHHH
Confidence                34566666542110                      1111111111111       12455666667777777665


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHH
Q 013323          278 TLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVE  335 (445)
Q Consensus       278 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  335 (445)
                      .+.-.     -.++..-....+..+.+.++.+...++.....+.    ++...+.|+.
T Consensus       195 ~~~i~-----~~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~----~p~~i~~lL~  243 (336)
T d1b89a_         195 ITMMN-----HPTDAWKEGQFKDIITKVANVELYYRAIQFYLEF----KPLLLNDLLM  243 (336)
T ss_dssp             HHHHH-----STTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH----CGGGHHHHHH
T ss_pred             HHHHH-----cchhhhhHHHHHHHHHccCChHHHHHHHHHHHHc----CHHHHHHHHH
Confidence            44322     1334444556677778888887777777666553    2333445554

>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=97.72  E-value=0.00015  Score=52.50  Aligned_cols=94  Identities=12%  Similarity=0.005  Sum_probs=54.3

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH---HHHHHHHHHHHhCCCCcc-HHHHHHHHHHH
Q 013323           81 SLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNS---DQAIRIFEEMKKYEVKPN-GQTYVCLLNAC  156 (445)
Q Consensus        81 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~---~~a~~~~~~m~~~g~~p~-~~~y~~li~~~  156 (445)
                      .+++.+...+++++|.+.|+...+.+ +.+..++..+-.++.+.++.   ++|..+|++....+..|+ ..+|..+-.+|
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            34555555666666666666666644 23455666666666554433   346666666655433233 23555666666


Q ss_pred             HHcCChhhHHHHHHHHHHc
Q 013323          157 AAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       157 ~~~g~~~~a~~~~~~m~~~  175 (445)
                      .+.|++++|.+.|++..+.
T Consensus        83 ~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHh
Confidence            6666666666666666663

>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=97.68  E-value=0.0021  Score=50.51  Aligned_cols=28  Identities=4%  Similarity=0.013  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          294 IVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       294 ~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      ++..+-.++.+.|++++|.+.|......
T Consensus       122 ~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_         122 VLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            3444556677778888887777766554

>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=97.66  E-value=0.00053  Score=49.18  Aligned_cols=94  Identities=13%  Similarity=-0.025  Sum_probs=81.4

Q ss_pred             HHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHH
Q 013323           49 TSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSD  128 (445)
Q Consensus        49 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~  128 (445)
                      ..+.+.|++++|+..|++..+.. +-+...|..+-.++...|++++|...++...+.+ +.+...|..+-.++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHH
Confidence            56778899999999999998764 3466778899999999999999999999999875 357889999999999999999


Q ss_pred             HHHHHHHHHHhCCCCccH
Q 013323          129 QAIRIFEEMKKYEVKPNG  146 (445)
Q Consensus       129 ~a~~~~~~m~~~g~~p~~  146 (445)
                      +|+..|+...+.  .|+.
T Consensus        89 ~A~~~~~~a~~~--~p~~  104 (117)
T d1elwa_          89 EAKRTYEEGLKH--EANN  104 (117)
T ss_dssp             HHHHHHHHHHTT--CTTC
T ss_pred             HHHHHHHHHHHh--CCCC
Confidence            999999999875  4543

>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=97.64  E-value=0.00068  Score=51.65  Aligned_cols=89  Identities=10%  Similarity=0.020  Sum_probs=49.5

Q ss_pred             HHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhh
Q 013323           85 GTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDP  164 (445)
Q Consensus        85 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~  164 (445)
                      .+.+.|++++|...|++..+.. +-+...|..+-.+|...|++++|...|+...+.. +-+..+|..+..++...|++++
T Consensus        19 ~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~~e   96 (159)
T d1a17a_          19 DYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRA   96 (159)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCHHH
Confidence            3445566666666666555543 2345555556666666666666666666555432 1234555556666666666666


Q ss_pred             HHHHHHHHHHc
Q 013323          165 VYAIVRDMTAA  175 (445)
Q Consensus       165 a~~~~~~m~~~  175 (445)
                      |...+++....
T Consensus        97 A~~~~~~a~~~  107 (159)
T d1a17a_          97 ALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHc
Confidence            66666665553

>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=97.60  E-value=0.0011  Score=50.53  Aligned_cols=92  Identities=7%  Similarity=-0.052  Sum_probs=80.0

Q ss_pred             HHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC
Q 013323           47 VVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKN  126 (445)
Q Consensus        47 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  126 (445)
                      .=..+.+.|++++|...|++..+.. +-+...|..+-..+...|++++|...|+...+.. +-+..+|..+..++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCC
Confidence            3356789999999999999998864 2367778888899999999999999999999865 3467899999999999999


Q ss_pred             HHHHHHHHHHHHhC
Q 013323          127 SDQAIRIFEEMKKY  140 (445)
Q Consensus       127 ~~~a~~~~~~m~~~  140 (445)
                      +++|...|++....
T Consensus        94 ~~eA~~~~~~a~~~  107 (159)
T d1a17a_          94 FRAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            99999999999875

>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=97.57  E-value=0.00062  Score=54.02  Aligned_cols=99  Identities=11%  Similarity=0.034  Sum_probs=84.4

Q ss_pred             CCChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCC-CHHHHHH
Q 013323           38 ANNASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLP-DVAVYNY  116 (445)
Q Consensus        38 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~  116 (445)
                      +|++..+-..=..+.+.|++++|+..|+...... +-+...|..+-.++.+.|++++|...|+...+..  | +..+|..
T Consensus         1 ~~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~--p~~~~a~~~   77 (201)
T d2c2la1           1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD--GQSVKAHFF   77 (201)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC--TTCHHHHHH
T ss_pred             ChhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC--CCcHHHHHH
Confidence            3666666666678899999999999999987754 3467778889999999999999999999998754  5 5778999


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHh
Q 013323          117 LISVCGKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus       117 ll~~~~~~g~~~~a~~~~~~m~~  139 (445)
                      +-.+|.+.|++++|+..|++..+
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            99999999999999999998764

>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=97.56  E-value=0.00058  Score=49.33  Aligned_cols=100  Identities=10%  Similarity=0.171  Sum_probs=79.5

Q ss_pred             HHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCC---hhHHHHHHHHHHHCCCCCC-HHHHHHHHHH
Q 013323           45 NTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSR---LQDTFFFRDQMKANGFLPD-VAVYNYLISV  120 (445)
Q Consensus        45 ~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~---~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~  120 (445)
                      ..++..+...+++++|.+.|+.....+ +.+..++..+-.++.+.++   +++|..+|+++.+.+..|+ ..+|..|-.+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            567888999999999999999998865 2466777777777776554   5579999999987653343 3477888999


Q ss_pred             HHccCCHHHHHHHHHHHHhCCCCccHH
Q 013323          121 CGKCKNSDQAIRIFEEMKKYEVKPNGQ  147 (445)
Q Consensus       121 ~~~~g~~~~a~~~~~~m~~~g~~p~~~  147 (445)
                      |.+.|++++|.+.|++..+.  .|+..
T Consensus        82 y~~~g~~~~A~~~~~~aL~~--~P~~~  106 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQT--EPQNN  106 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCH
T ss_pred             HHHHhhhHHHHHHHHHHHHh--CcCCH
Confidence            99999999999999999884  46543

>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=97.52  E-value=0.0018  Score=54.77  Aligned_cols=170  Identities=12%  Similarity=0.022  Sum_probs=105.2

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhC----CCCc-cHHHHHHHHHHHHHcCChhhHHHHHHHHHHc----CC-CCCHHHHH
Q 013323          116 YLISVCGKCKNSDQAIRIFEEMKKY----EVKP-NGQTYVCLLNACAAAGQLDPVYAIVRDMTAA----GA-GLDKFCYA  185 (445)
Q Consensus       116 ~ll~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~----g~-~p~~~~~~  185 (445)
                      -.-+.|-..+++++|.+.|.+..+.    +-.+ -..+|..+..+|.+.|++++|.+.++...+-    |. .....++.
T Consensus        42 ~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  121 (290)
T d1qqea_          42 QAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKF  121 (290)
T ss_dssp             HHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHH
Confidence            3456788899999999999887642    2222 2468899999999999999999999876542    21 11133344


Q ss_pred             HHHHHHHc-cCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHH
Q 013323          186 GLITAHTN-KIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAF  264 (445)
Q Consensus       186 ~li~~~~~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li  264 (445)
                      .+...+.. .|+.  +.|...++.......                                  ..+....-..+|..+.
T Consensus       122 ~l~~~~~~~~~~~--~~A~~~~~~A~~l~~----------------------------------~~~~~~~~~~~~~~la  165 (290)
T d1qqea_         122 ELGEILENDLHDY--AKAIDCYELAGEWYA----------------------------------QDQSVALSNKCFIKCA  165 (290)
T ss_dssp             HHHHHHHHTTCCH--HHHHHHHHHHHHHHH----------------------------------HTTCHHHHHHHHHHHH
T ss_pred             HHHHhHhhHHHHH--HHHHHHHHHHHHHHH----------------------------------hcCchhhhhhHHHHHH
Confidence            44444433 3544  777777765443100                                  0000011234567777


Q ss_pred             HHHHhcccHHHHHHHHHHHHhCCCC-----CCH-HHHHHHHHHHHhcCChhhHHHHHHHHHhC
Q 013323          265 HACAELKDVQAMETLLEMLKKDRKS-----PDV-YIVMQNIRCYLHSGDIDNGHKVFEDYICS  321 (445)
Q Consensus       265 ~~~~~~g~~~~a~~~~~~m~~~~~~-----p~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~  321 (445)
                      ..+...|++++|...++........     +.. ..+...+..+...|+++.|.+.|+...+.
T Consensus       166 ~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~  228 (290)
T d1qqea_         166 DLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE  228 (290)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC
T ss_pred             HHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            8888888888888888877654211     111 12333444566778888888888776654

>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=97.50  E-value=0.00032  Score=49.91  Aligned_cols=84  Identities=10%  Similarity=0.046  Sum_probs=38.2

Q ss_pred             HhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhH
Q 013323           86 TMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPV  165 (445)
Q Consensus        86 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a  165 (445)
                      +.+.|++++|...|++..+.. +-+..+|..+-.++.+.|++++|+..|+...+.. +-+...|..+...|...|++++|
T Consensus        26 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~~~A  103 (112)
T d1hxia_          26 MLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAA  103 (112)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCHHHH
Confidence            334444555555554444432 1134444444445555555555555554444321 11244444455555555555555


Q ss_pred             HHHHHH
Q 013323          166 YAIVRD  171 (445)
Q Consensus       166 ~~~~~~  171 (445)
                      .+.+++
T Consensus       104 ~~~l~~  109 (112)
T d1hxia_         104 LASLRA  109 (112)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            554443

>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=97.40  E-value=0.00057  Score=48.57  Aligned_cols=89  Identities=11%  Similarity=0.061  Sum_probs=77.4

Q ss_pred             HHHHHHhcCcHhHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 013323           47 VVTSLTSQRRFFLLRDVYDDMMLDGVQP-TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCK  125 (445)
Q Consensus        47 li~~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g  125 (445)
                      +-..+.+.|++++|...|++..+..  | +...|..+-.++.+.|++++|...|+...+.. +.+..+|..+-.+|...|
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccc--cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCC
Confidence            4456778999999999999998864  4 67789999999999999999999999998865 345889999999999999


Q ss_pred             CHHHHHHHHHHHH
Q 013323          126 NSDQAIRIFEEMK  138 (445)
Q Consensus       126 ~~~~a~~~~~~m~  138 (445)
                      ++++|.+.|++..
T Consensus        99 ~~~~A~~~l~~~l  111 (112)
T d1hxia_          99 NANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998753

>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=97.29  E-value=0.0025  Score=49.38  Aligned_cols=130  Identities=9%  Similarity=-0.006  Sum_probs=86.7

Q ss_pred             ChhhHHHHH---HHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHH
Q 013323           40 NASEYNTVV---TSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNY  116 (445)
Q Consensus        40 ~~~~~~~li---~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  116 (445)
                      |+..|-.+.   ......|++++|.+.|..-...  .|...        +.......-+...-..+..    .....+..
T Consensus         7 D~~~f~~~~~~g~~~~~~g~~e~A~~~~~~AL~l--~rG~~--------l~~~~~~~w~~~~r~~l~~----~~~~a~~~   72 (179)
T d2ff4a2           7 DLGRFVAEKTAGVHAAAAGRFEQASRHLSAALRE--WRGPV--------LDDLRDFQFVEPFATALVE----DKVLAHTA   72 (179)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCSST--------TGGGTTSTTHHHHHHHHHH----HHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--Ccccc--------cccCcchHHHHHHHHHHHH----HHHHHHHH
Confidence            344444444   4667778888888888777652  11100        0001111111111122221    12457788


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHH-----cCCCCCHHHH
Q 013323          117 LISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTA-----AGAGLDKFCY  184 (445)
Q Consensus       117 ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~  184 (445)
                      +...+.+.|++++|+..++...... +-+...|..++.++.+.|+.++|++.|+++.+     -|+.|+..+-
T Consensus        73 la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~  144 (179)
T d2ff4a2          73 KAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  144 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHH
Confidence            9999999999999999999998753 24788899999999999999999999999844     5999987653

>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=97.12  E-value=0.0041  Score=48.11  Aligned_cols=72  Identities=8%  Similarity=0.065  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH-----hCCCCccHHH
Q 013323           76 RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMK-----KYEVKPNGQT  148 (445)
Q Consensus        76 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~-----~~g~~p~~~~  148 (445)
                      ...+..+...+.+.|++++|...++.+.+.. +-+...|..++.+|.+.|+.++|++.|+++.     +.|+.|+..+
T Consensus        67 ~~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          67 VLAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            3467778888999999999999999999865 3578899999999999999999999999874     3589998765

>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=96.84  E-value=0.0057  Score=44.25  Aligned_cols=94  Identities=10%  Similarity=0.045  Sum_probs=65.8

Q ss_pred             HHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCC---CC--cc-HHHHHHHHH
Q 013323           81 SLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYE---VK--PN-GQTYVCLLN  154 (445)
Q Consensus        81 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g---~~--p~-~~~y~~li~  154 (445)
                      .+=..+.+.|++++|...|++..+.+ +.+..+|..+-.+|.+.|++++|+..+++..+..   ..  ++ ..+|..+-.
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            34455677788888888888887764 2457788888888888888888888888876421   00  11 235666667


Q ss_pred             HHHHcCChhhHHHHHHHHHHc
Q 013323          155 ACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       155 ~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      .+...+++++|...|+.....
T Consensus        88 ~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHhc
Confidence            777778888888888776553

>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=96.77  E-value=0.029  Score=41.75  Aligned_cols=65  Identities=18%  Similarity=0.086  Sum_probs=55.8

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcC
Q 013323          111 VAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAG  176 (445)
Q Consensus       111 ~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g  176 (445)
                      ..+|+.+-.+|.+.|++++|++.++...+.. +.+..+|..+..++...|++++|...|+...+..
T Consensus        67 ~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          67 ISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            3577888889999999999999999988753 3467899999999999999999999999988853

>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=96.72  E-value=0.02  Score=43.63  Aligned_cols=106  Identities=11%  Similarity=-0.048  Sum_probs=66.0

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 013323           48 VTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNS  127 (445)
Q Consensus        48 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  127 (445)
                      =..+.+.|++++|.+.|.+..+.-  |.            ..+..+.-......+       -..+|+.+-.+|.+.|++
T Consensus        20 G~~~~~~~~~~~Ai~~y~~al~~~--~~------------~~~~~~~~~~~~~~~-------~~~~~~nla~~y~k~~~~   78 (170)
T d1p5qa1          20 GTVYFKEGKYKQALLQYKKIVSWL--EY------------ESSFSNEEAQKAQAL-------RLASHLNLAMCHLKLQAF   78 (170)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHT--TT------------CCCCCSHHHHHHHHH-------HHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHh--hh------------ccccchHHHhhhchh-------HHHHHHHHHHHHHhhhhc
Confidence            346778899999999998776521  10            000001111111111       123566677777788888


Q ss_pred             HHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHc
Q 013323          128 DQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       128 ~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      ++|+..++...... +-+..+|..+..++...|++++|...|+...+.
T Consensus        79 ~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          79 SAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            88888887776643 225667777777788888888888888877764

>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=96.69  E-value=0.14  Score=43.32  Aligned_cols=264  Identities=13%  Similarity=0.053  Sum_probs=139.8

Q ss_pred             CCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHH
Q 013323           74 PTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLL  153 (445)
Q Consensus        74 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li  153 (445)
                      ||..--..+.+-|.+.|.++.|..+|..+..         |.-++..+.+.++++.|.+++....      +..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHH
Confidence            6666666777889999999999999986643         5668889999999999998887553      667899999


Q ss_pred             HHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhcCCccccccccccchhhcccc
Q 013323          154 NACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVS  233 (445)
Q Consensus       154 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  233 (445)
                      ..|.+.....-+     .+...+...+......++..|-..|..  +....+++.....                     
T Consensus        77 ~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~--e~Li~~Le~~~~~---------------------  128 (336)
T d1b89a_          77 FACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYF--EELITMLEAALGL---------------------  128 (336)
T ss_dssp             HHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCH--HHHHHHHHHHTTS---------------------
T ss_pred             HHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCCh--HHHHHHHHHHHcC---------------------
Confidence            999987665432     223334445666667788888777654  5444444433211                     


Q ss_pred             hhhhcchhhhhHHhhhcCcccCchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCC--------HHHHHHHHHHHHhc
Q 013323          234 KEELYNLPTAEYVHRRGGFLSRLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPD--------VYIVMQNIRCYLHS  305 (445)
Q Consensus       234 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--------~~~~~~li~~~~~~  305 (445)
                                         -..+...++-++..|++.+.- +..+.+.... ....+.        ...|.-++-.|.+.
T Consensus       129 -------------------~~~~~~~~~~L~~lyak~~~~-kl~e~l~~~s-~~y~~~k~~~~c~~~~l~~elv~Ly~~~  187 (336)
T d1b89a_         129 -------------------ERAHMGMFTELAILYSKFKPQ-KMREHLELFW-SRVNIPKVLRAAEQAHLWAELVFLYDKY  187 (336)
T ss_dssp             -------------------TTCCHHHHHHHHHHHHTTCHH-HHHHHHHHHS-TTSCHHHHHHHHHTTTCHHHHHHHHHHT
T ss_pred             -------------------CccchHHHHHHHHHHHHhChH-HHHHHHHhcc-ccCCHHHHHHHHHHcCChHHHHHHHHhc
Confidence                               144556788888899887642 3222332211 111111        11245566667777


Q ss_pred             CChhhHHHHHHHH-------------HhCCCCCCHHHHHHHHHhHhhcCChhhHHHHHHHHHHHHhCCCCCCcchhhHHH
Q 013323          306 GDIDNGHKVFEDY-------------ICSEKFPPAELYATLVEGAMFGYTPKGMQLAQDTLVNMNSRNIFLSPRMGSDLL  372 (445)
Q Consensus       306 g~~~~a~~~~~~m-------------~~~~~~p~~~~~~~li~~~~~~~~~~g~~~a~~~~~~m~~~~~~p~~~~~~~ll  372 (445)
                      |+++.|..+.-.-             ..+  ..|+..|-..+..    |.....+....++..+...      ..-..++
T Consensus       188 ~~~~~A~~~~i~~~~~~~~~~~f~e~~~k--~~N~e~~~~~i~~----yL~~~p~~i~~lL~~v~~~------~d~~r~V  255 (336)
T d1b89a_         188 EEYDNAIITMMNHPTDAWKEGQFKDIITK--VANVELYYRAIQF----YLEFKPLLLNDLLMVLSPR------LDHTRAV  255 (336)
T ss_dssp             TCHHHHHHHHHHSTTTTCCHHHHHHHHHH--CSSTHHHHHHHHH----HHHHCGGGHHHHHHHHGGG------CCHHHHH
T ss_pred             CCHHHHHHHHHHcchhhhhHHHHHHHHHc--cCChHHHHHHHHH----HHHcCHHHHHHHHHHhccC------CCHHHHH
Confidence            7776665433211             011  1122333333331    2111111112222221111      1113344


Q ss_pred             HHhhcccCCChhhHHHHHHHHHHCCCCCCHHHHHHHHhhhhccCCC
Q 013323          373 LVAAGEKSGGYTTANYIWDLMQARKITPSLPAVEAYYNGLKDREVP  418 (445)
Q Consensus       373 ~~~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~l~~~~~~~~~~  418 (445)
                      ....  +.+++......++...+.+.   ..+.++|.+.|.+.+..
T Consensus       256 ~~~~--k~~~l~li~p~Le~v~~~n~---~~vn~al~~lyie~~d~  296 (336)
T d1b89a_         256 NYFS--KVKQLPLVKPYLRSVQNHNN---KSVNESLNNLFITEEDY  296 (336)
T ss_dssp             HHHH--HTTCTTTTHHHHHHHHTTCC---HHHHHHHHHHHHHTTCH
T ss_pred             HHHH--hcCCcHHHHHHHHHHHHcCh---HHHHHHHHHHHhCcchh
Confidence            4444  67777777777777666553   46788888888776653

>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=96.61  E-value=0.021  Score=43.54  Aligned_cols=64  Identities=9%  Similarity=-0.105  Sum_probs=53.1

Q ss_pred             HHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCCchHHHHHHHHHHHHhc
Q 013323          147 QTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNKIPRADDTATKIIELVEQSK  213 (445)
Q Consensus       147 ~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~  213 (445)
                      .+|+.+..+|.+.|++++|+..++...+.. +-++..+..+-.++...|+.  +.|...|+...+..
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~--~~A~~~~~~al~l~  126 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDF--ELARADFQKVLQLY  126 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH--HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhH--HHHHHHHHHHHHhC
Confidence            467778899999999999999999998864 23688888888889999876  88999888877654

>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=96.51  E-value=0.055  Score=40.13  Aligned_cols=91  Identities=7%  Similarity=-0.156  Sum_probs=73.8

Q ss_pred             HHHHhcCcHhHHHHHHHHHHHCC----CCCC-----------HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHH
Q 013323           49 TSLTSQRRFFLLRDVYDDMMLDG----VQPT-----------RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAV  113 (445)
Q Consensus        49 ~~~~~~~~~~~a~~~~~~m~~~g----~~p~-----------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~  113 (445)
                      ..+.+.|++..|+..|.+..+.-    ..++           ..+|..+-.++.+.|++++|.+.++...+.+ +.+..+
T Consensus        25 ~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka  103 (153)
T d2fbna1          25 NEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKA  103 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhh
Confidence            56678899999999998877521    1112           2356667777889999999999999998865 347889


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhC
Q 013323          114 YNYLISVCGKCKNSDQAIRIFEEMKKY  140 (445)
Q Consensus       114 ~~~ll~~~~~~g~~~~a~~~~~~m~~~  140 (445)
                      |..+..++...|++++|...|+...+.
T Consensus       104 ~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1         104 LYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             hHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999999999999998874

>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=96.43  E-value=0.0035  Score=51.95  Aligned_cols=122  Identities=8%  Similarity=-0.046  Sum_probs=75.0

Q ss_pred             HHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCCHHH
Q 013323           51 LTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPD-VAVYNYLISVCGKCKNSDQ  129 (445)
Q Consensus        51 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~  129 (445)
                      ..+.|++++|+..+++-.+.. +-|...+..+...++..|++++|...|+...+..  |+ ...+..+-..+...+..++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~--P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF--PEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--GGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHhccccHH
Confidence            346788888888888887764 2366778888888888899999988888888753  54 3344444333322222222


Q ss_pred             HHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHc
Q 013323          130 AIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       130 a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      +..-...-...+-.++...+......+.+.|+.++|.+.++++.+.
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            2111111001111223344445566677788888888888887764

>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=96.24  E-value=0.02  Score=41.16  Aligned_cols=92  Identities=9%  Similarity=-0.011  Sum_probs=73.4

Q ss_pred             HHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCC--CCC---C-HHHHHHHHHHH
Q 013323           48 VTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANG--FLP---D-VAVYNYLISVC  121 (445)
Q Consensus        48 i~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g--~~p---~-~~~~~~ll~~~  121 (445)
                      =..+.+.|++++|++.|.+..+.+ +.+...|..+-.++.+.|+++.|...++.+.+..  ...   . ..+|..+-..+
T Consensus        11 G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~~   89 (128)
T d1elra_          11 GNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSY   89 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHH
Confidence            356788999999999999998864 2367788889999999999999999999987632  101   1 24677777888


Q ss_pred             HccCCHHHHHHHHHHHHhC
Q 013323          122 GKCKNSDQAIRIFEEMKKY  140 (445)
Q Consensus       122 ~~~g~~~~a~~~~~~m~~~  140 (445)
                      ...+++++|+..|+.-...
T Consensus        90 ~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          90 FKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHhc
Confidence            8899999999999887653

>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=96.20  E-value=0.037  Score=41.91  Aligned_cols=78  Identities=13%  Similarity=0.029  Sum_probs=57.0

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHH
Q 013323          110 DVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLIT  189 (445)
Q Consensus       110 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~  189 (445)
                      ....|+.+-.++.+.|++++|+..+++..+.. +.+...|..+-.++.+.|++++|...|+...+.. +.+......+-.
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~-p~n~~~~~~l~~  153 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            45567777788888889999998888888754 2357788888888888899999988888888753 123444444433

>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=96.15  E-value=0.032  Score=42.29  Aligned_cols=68  Identities=9%  Similarity=0.018  Sum_probs=53.1

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHH
Q 013323          112 AVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKF  182 (445)
Q Consensus       112 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  182 (445)
                      .+|+.+-.+|.+.|++++|+..++...... +.+..+|.....++...|++++|...|+...+.  .|+..
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~  132 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNK  132 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCH
Confidence            456667778888999999999998887653 346778888888999999999999999988874  35443

>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=96.14  E-value=0.069  Score=40.32  Aligned_cols=108  Identities=12%  Similarity=0.058  Sum_probs=79.9

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHHC--------------CCCC-CHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCC
Q 013323           44 YNTVVTSLTSQRRFFLLRDVYDDMMLD--------------GVQP-TRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFL  108 (445)
Q Consensus        44 ~~~li~~~~~~~~~~~a~~~~~~m~~~--------------g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~  108 (445)
                      +...-..+.+.|+++.|++.|.+..+.              .+.| +...|..+-.++.+.|++++|...++...+.. +
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p  108 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-P  108 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-T
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-h
Confidence            444556778889999999999876531              1122 23345666677888999999999999999865 3


Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCc-cHHHHHHHHH
Q 013323          109 PDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKP-NGQTYVCLLN  154 (445)
Q Consensus       109 p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~y~~li~  154 (445)
                      .+...|..+-.++.+.|++++|+..|+...+.  .| +...+..+..
T Consensus       109 ~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n~~~~~~l~~  153 (169)
T d1ihga1         109 SNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLK  153 (169)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             hhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            46788999999999999999999999998874  34 3444444433

>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=96.00  E-value=0.025  Score=41.70  Aligned_cols=116  Identities=9%  Similarity=0.022  Sum_probs=63.1

Q ss_pred             HHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----------CCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013323           51 LTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMK----------GSRLQDTFFFRDQMKANGFLPDVAVYNYLISV  120 (445)
Q Consensus        51 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----------~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  120 (445)
                      |-+.+.+++|.+.|+...+.. +-|...+..+-.++..          .+.+++|...|+...+.+ +.+..+|..+-.+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHH
Confidence            345667888888888877653 2244455544444442          234566777777776643 2345666666666


Q ss_pred             HHccCC-----------HHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcC
Q 013323          121 CGKCKN-----------SDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAG  176 (445)
Q Consensus       121 ~~~~g~-----------~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g  176 (445)
                      |...|+           +++|.+.|+...+  +.|+...|..-+..+      .++.+++.+..+.|
T Consensus        85 y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~------~ka~~~~~e~~k~~  143 (145)
T d1zu2a1          85 YTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT------AKAPQLHAEAYKQG  143 (145)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH------HTHHHHHHHHHHSS
T ss_pred             HHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH------HHHHHHHHHHHHHh
Confidence            655432           3555555555554  245544444444333      34445555544443

>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=95.91  E-value=0.22  Score=37.36  Aligned_cols=107  Identities=9%  Similarity=-0.024  Sum_probs=78.8

Q ss_pred             HHHHHHHHHhcCcHhHHHHHHHHHHH---CCCCCCH-----------HHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCC
Q 013323           44 YNTVVTSLTSQRRFFLLRDVYDDMML---DGVQPTR-----------DLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLP  109 (445)
Q Consensus        44 ~~~li~~~~~~~~~~~a~~~~~~m~~---~g~~p~~-----------~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p  109 (445)
                      +.-.-..+.+.|+++.|...|.....   ....++.           ..|..+-.++.+.|++++|...++...+.. +.
T Consensus        18 ~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~   96 (168)
T d1kt1a1          18 VKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SA   96 (168)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-cc
Confidence            44445667889999999999977654   1111111           234445566788999999999999999865 45


Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcc-HHHHHHHH
Q 013323          110 DVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPN-GQTYVCLL  153 (445)
Q Consensus       110 ~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~y~~li  153 (445)
                      +..+|..+..++...|++++|...|+.....  .|+ ......+-
T Consensus        97 ~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~~~~~l~  139 (168)
T d1kt1a1          97 NEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQIF  139 (168)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            7889999999999999999999999999875  344 44444433

>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=95.85  E-value=0.34  Score=39.17  Aligned_cols=21  Identities=5%  Similarity=-0.020  Sum_probs=9.9

Q ss_pred             HhcCCChhHHHHHHHHHHHCC
Q 013323           86 TMKGSRLQDTFFFRDQMKANG  106 (445)
Q Consensus        86 ~~~~~~~~~a~~~~~~m~~~g  106 (445)
                      +.+.++.++|.+.|+...+.|
T Consensus        12 ~~~~~d~~~A~~~~~kAa~~g   32 (265)
T d1ouva_          12 SYKEKDFTQAKKYFEKACDLK   32 (265)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHCCCHHHHHHHHHHHHHCC
Confidence            334445555555555544443

>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=95.70  E-value=0.39  Score=38.79  Aligned_cols=227  Identities=7%  Similarity=-0.053  Sum_probs=130.6

Q ss_pred             ChhhHHHHHHHHHhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhc----CCChhHHHHHHHHHHHCCCCCCHHHHH
Q 013323           40 NASEYNTVVTSLTSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMK----GSRLQDTFFFRDQMKANGFLPDVAVYN  115 (445)
Q Consensus        40 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~  115 (445)
                      |+..+..|=..+.+.+++++|++.|++-.+.|   |...+-.|-..+..    ..+...|...++...+.+.   .....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhh
Confidence            34455566566778899999999999998877   44444444444443    6789999999999888763   33334


Q ss_pred             HHHHHHHc----cCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHH----cCChhhHHHHHHHHHHcCCCCCHHHHHHH
Q 013323          116 YLISVCGK----CKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAA----AGQLDPVYAIVRDMTAAGAGLDKFCYAGL  187 (445)
Q Consensus       116 ~ll~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~l  187 (445)
                      .|...+..    ..+.+.|...++...+.|..   .....+...+..    ......+...+......+   +...+..+
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~L  148 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  148 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhccc---ccchhhhh
Confidence            44444332    46778899999988876642   222223233332    334455666666655543   55556556


Q ss_pred             HHHHHccC--CCchHHHHHHHHHHHHhcCCccccccccccchhhcccchhhhcchhhhhHHhhhcCcccCchhHHHHHHH
Q 013323          188 ITAHTNKI--PRADDTATKIIELVEQSKGWSSVETSGNNAENEMMGVSKEELYNLPTAEYVHRRGGFLSRLLTVYHVAFH  265 (445)
Q Consensus       188 i~~~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~li~  265 (445)
                      -..+....  ..+...+...++...+.                                          .+......+-.
T Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~~a~~~------------------------------------------g~~~A~~~lg~  186 (265)
T d1ouva_         149 GSLYDAGRGTPKDLKKALASYDKACDL------------------------------------------KDSPGCFNAGN  186 (265)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHT------------------------------------------TCHHHHHHHHH
T ss_pred             hhhhccCCCcccccccchhhhhccccc------------------------------------------cccccccchhh
Confidence            55555421  22233344444433321                                          12222222222


Q ss_pred             HHHh----cccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhhHHHHHHHHHhCCC
Q 013323          266 ACAE----LKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLH----SGDIDNGHKVFEDYICSEK  323 (445)
Q Consensus       266 ~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~  323 (445)
                      .+..    ..+.+.|...|....+.|   +...+..|-..|.+    ..+.++|.++|+.....|.
T Consensus       187 ~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         187 MYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             hcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            2222    357888888888777765   23344445555543    2367788888887766653

>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=95.50  E-value=0.14  Score=37.96  Aligned_cols=89  Identities=10%  Similarity=0.061  Sum_probs=60.4

Q ss_pred             HHhcCCChhHHHHHHHHHHHC--CCCC----------CHHHHHHHHHHHHccCCHHHHHHHHHHHHhC-----CCCcc--
Q 013323           85 GTMKGSRLQDTFFFRDQMKAN--GFLP----------DVAVYNYLISVCGKCKNSDQAIRIFEEMKKY-----EVKPN--  145 (445)
Q Consensus        85 ~~~~~~~~~~a~~~~~~m~~~--g~~p----------~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-----g~~p~--  145 (445)
                      ...+.|++++|.+.|++..+.  .. |          ...+|+.+-.+|.+.|++++|...+++....     ...++  
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~-~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~   96 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTM-PPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEG   96 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTS-CTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhh-hhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccccccccccc
Confidence            344556777777777766542  11 1          1457888888888999998888888776531     11222  


Q ss_pred             ---HHHHHHHHHHHHHcCChhhHHHHHHHHHH
Q 013323          146 ---GQTYVCLLNACAAAGQLDPVYAIVRDMTA  174 (445)
Q Consensus       146 ---~~~y~~li~~~~~~g~~~~a~~~~~~m~~  174 (445)
                         ...|+.+-.+|...|++++|...|++..+
T Consensus        97 ~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          97 KLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence               22466677888899999999999988654

>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=95.29  E-value=0.2  Score=36.96  Aligned_cols=99  Identities=8%  Similarity=-0.003  Sum_probs=73.2

Q ss_pred             hhhHHHH--HHHHHhcCcHhHHHHHHHHHHHCC-CCCC----------HHHHHHHHHHHhcCCChhHHHHHHHHHHHC--
Q 013323           41 ASEYNTV--VTSLTSQRRFFLLRDVYDDMMLDG-VQPT----------RDLFHSLIVGTMKGSRLQDTFFFRDQMKAN--  105 (445)
Q Consensus        41 ~~~~~~l--i~~~~~~~~~~~a~~~~~~m~~~g-~~p~----------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--  105 (445)
                      ..+|..+  -..+.+.|++++|++.|++-.+.. -.|+          ...|+.+-.++.+.|++++|...+++..+.  
T Consensus         7 a~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~   86 (156)
T d2hr2a1           7 VGAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFN   86 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccc
Confidence            3466666  445667799999999999987621 1122          356888888999999999999999987642  


Q ss_pred             ---CCCCC-----HHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 013323          106 ---GFLPD-----VAVYNYLISVCGKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus       106 ---g~~p~-----~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  139 (445)
                         ...++     ..+|+.+-.+|...|++++|...|++..+
T Consensus        87 ~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          87 RRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence               12222     23567788999999999999999998653

>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=95.05  E-value=0.017  Score=47.65  Aligned_cols=120  Identities=10%  Similarity=-0.022  Sum_probs=76.0

Q ss_pred             HhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHH-HHHHHHHHHHHcCChhh
Q 013323           86 TMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQ-TYVCLLNACAAAGQLDP  164 (445)
Q Consensus        86 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~y~~li~~~~~~g~~~~  164 (445)
                      ..+.|++++|...+++..+.. +-|...+..+...++..|++++|...|+...+.  .|+.. .+..+...+...+..++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHH
Confidence            456799999999999999876 357899999999999999999999999999874  45533 33333333222222221


Q ss_pred             HHHHHHHHHHcCC--CCC-HHHHHHHHHHHHccCCCchHHHHHHHHHHHHhc
Q 013323          165 VYAIVRDMTAAGA--GLD-KFCYAGLITAHTNKIPRADDTATKIIELVEQSK  213 (445)
Q Consensus       165 a~~~~~~m~~~g~--~p~-~~~~~~li~~~~~~~~~~~~~a~~~~~~~~~~~  213 (445)
                      +..   ......+  .|+ ...+......+...|+.  +.|...++......
T Consensus        83 a~~---~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~--~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          83 FAQ---GAATAKVLGENEELTKSLVSFNLSMVSQDY--EQVSELALQIEELR  129 (264)
T ss_dssp             HTT---SCCCEECCCSCHHHHHHHHHHHHHHHHTCH--HHHHHHHHHHHHHC
T ss_pred             HHH---HhhhhhcccCchHHHHHHHHHHHHHhCCCH--HHHHHHHHHHHhcC
Confidence            111   1111111  122 22233333445566655  88999888877654

>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=94.74  E-value=0.4  Score=33.37  Aligned_cols=123  Identities=11%  Similarity=0.055  Sum_probs=79.4

Q ss_pred             HhcCcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHC-CC----------------CCCHHHH
Q 013323           52 TSQRRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKAN-GF----------------LPDVAVY  114 (445)
Q Consensus        52 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-g~----------------~p~~~~~  114 (445)
                      .-.|.+++..++..+..+.   .+..-||-+|--....-+-+...++++.+-+. .+                ..+...+
T Consensus        13 ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~Nlk~vv~C~~~~n~~se~v   89 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEHV   89 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHHH
T ss_pred             HHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCchhhhcHHHHHHHHHHhcchHHHH
Confidence            3456666666666666553   24444555554444444444444444433211 00                1234556


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCC
Q 013323          115 NYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAG  178 (445)
Q Consensus       115 ~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~  178 (445)
                      +..++...+.|+-+.-.++++.+.+.+ +|++...-.+-.+|.+.|...++-+++.+..+.|++
T Consensus        90 dlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          90 NKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            777888888888888888888876644 577788888889999999999999999999888864

>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=94.11  E-value=0.13  Score=37.53  Aligned_cols=102  Identities=13%  Similarity=0.036  Sum_probs=73.3

Q ss_pred             hcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc----------CCHHHHHHHHHHHHhCCCCccHHHHHHHHHHH
Q 013323           87 MKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKC----------KNSDQAIRIFEEMKKYEVKPNGQTYVCLLNAC  156 (445)
Q Consensus        87 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~----------g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~  156 (445)
                      -+.+.+++|...|+...+.. +-+..++..+-.++...          +.+++|...|++..+.. +-+..+|..+-.+|
T Consensus         8 ~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y   85 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   85 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHH
Confidence            34567899999999998865 34677777777777644          44578999999888743 23567888888888


Q ss_pred             HHcCC-----------hhhHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 013323          157 AAAGQ-----------LDPVYAIVRDMTAAGAGLDKFCYAGLITAHT  192 (445)
Q Consensus       157 ~~~g~-----------~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  192 (445)
                      ...|+           +++|.+.|+...+.  .|+..+|..-+..+.
T Consensus        86 ~~~g~~~~~~~~~~~~~~~A~~~~~kal~l--~P~~~~~~~~L~~~~  130 (145)
T d1zu2a1          86 TSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEMTA  130 (145)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHcccchhhHHHHHHhHHHhhhhhhccccc--CCCHHHHHHHHHHHH
Confidence            76543           57788888877764  588777776665553

>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=93.44  E-value=0.27  Score=32.60  Aligned_cols=28  Identities=18%  Similarity=0.277  Sum_probs=14.0

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 013323          112 AVYNYLISVCGKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus       112 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~  139 (445)
                      .+++.|-.++.+.|++++|...+++..+
T Consensus        47 ~~l~~Lg~~~~~~g~~~~A~~~y~~aL~   74 (95)
T d1tjca_          47 SVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHhcCChHHHHHHHHHHHH
Confidence            3444455555555555555555555444

>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=92.78  E-value=0.53  Score=31.08  Aligned_cols=64  Identities=13%  Similarity=-0.029  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHhC-----CCCcc-HHHHHHHHHHHHHcCChhhHHHHHHHHHHc
Q 013323          112 AVYNYLISVCGKCKNSDQAIRIFEEMKKY-----EVKPN-GQTYVCLLNACAAAGQLDPVYAIVRDMTAA  175 (445)
Q Consensus       112 ~~~~~ll~~~~~~g~~~~a~~~~~~m~~~-----g~~p~-~~~y~~li~~~~~~g~~~~a~~~~~~m~~~  175 (445)
                      ..+-.+-..+.+.|++++|...|++..+.     ...++ ..+++.+-.++.+.|++++|...+++..+.
T Consensus         6 ddc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           6 EDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            33445677788999999999999876542     11222 568999999999999999999999999885

>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=92.71  E-value=0.78  Score=30.13  Aligned_cols=69  Identities=14%  Similarity=0.176  Sum_probs=55.5

Q ss_pred             HHHhcc-cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCCCCHHHHHHHHH
Q 013323          266 ACAELK-DVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKFPPAELYATLVE  335 (445)
Q Consensus       266 ~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~  335 (445)
                      .+-+.. +.-++.+-++.+....+.|+.....+-+.+|.+.+++..|.++|+.++.+ +.++...|..+++
T Consensus        14 ~F~~~~iD~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilq   83 (105)
T d1v54e_          14 YFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   83 (105)
T ss_dssp             HHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HhcCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHH
Confidence            344444 56677778888888889999999999999999999999999999998876 3334668888776

>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=92.12  E-value=1.2  Score=30.85  Aligned_cols=69  Identities=10%  Similarity=0.038  Sum_probs=56.9

Q ss_pred             CchhHHHHHHHHHHhcccHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhhHHHHHHHHHhCCCC
Q 013323          255 RLLTVYHVAFHACAELKDVQAMETLLEMLKKDRKSPDVYIVMQNIRCYLHSGDIDNGHKVFEDYICSEKF  324 (445)
Q Consensus       255 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  324 (445)
                      .+...+...++.....|+-+...++++.+.+.+ .|+....-.+-.+|-+.|...++-+++.+.-+.|++
T Consensus        84 ~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          84 TLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            344567888999999999999999999977644 677777788899999999999999999998888764

>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=90.37  E-value=0.99  Score=40.45  Aligned_cols=96  Identities=13%  Similarity=-0.045  Sum_probs=48.8

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHH
Q 013323          109 PDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNACAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLI  188 (445)
Q Consensus       109 p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li  188 (445)
                      ++...++.+-..+.+.|+.++|...++......   ...++..+-..+...|++++|...|++..+.. +-+...|+.+-
T Consensus       118 ~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg  193 (497)
T d1ya0a1         118 PCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLA  193 (497)
T ss_dssp             -------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHH
T ss_pred             hhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHH
Confidence            345667777778888888888888777655311   13467778888888999999999999988763 22457788888


Q ss_pred             HHHHccCCCchHHHHHHHHHHH
Q 013323          189 TAHTNKIPRADDTATKIIELVE  210 (445)
Q Consensus       189 ~~~~~~~~~~~~~a~~~~~~~~  210 (445)
                      ..+...|+.  ..|...|.+-.
T Consensus       194 ~~~~~~~~~--~~A~~~y~ral  213 (497)
T d1ya0a1         194 ILASSKGDH--LTTIFYYCRSI  213 (497)
T ss_dssp             HHHHHTTCH--HHHHHHHHHHH
T ss_pred             HHHHHcCCH--HHHHHHHHHHH
Confidence            888777754  55555555433

>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=90.10  E-value=0.36  Score=43.52  Aligned_cols=114  Identities=13%  Similarity=-0.053  Sum_probs=70.3

Q ss_pred             HHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhCCCCccHHHHHHHHHH
Q 013323           76 RDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMKKYEVKPNGQTYVCLLNA  155 (445)
Q Consensus        76 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~y~~li~~  155 (445)
                      ...+..+-..+.+.|+.+.|...++...+..   ...++..+-..+...|++++|...|++..+.. +-+..+|+.+-..
T Consensus       120 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~  195 (497)
T d1ya0a1         120 RVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAIL  195 (497)
T ss_dssp             -----------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHH
T ss_pred             HHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHH
Confidence            3345555556667777777777666655421   13467778888899999999999999988743 2346799999999


Q ss_pred             HHHcCChhhHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 013323          156 CAAAGQLDPVYAIVRDMTAAGAGLDKFCYAGLITAHTNK  194 (445)
Q Consensus       156 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  194 (445)
                      +...|+..+|...|.+..... +|-...+..+...+.+.
T Consensus       196 ~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         196 ASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKA  233 (497)
T ss_dssp             HHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHh
Confidence            999999999999999888754 46778888887777554

>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=88.21  E-value=2.3  Score=27.84  Aligned_cols=45  Identities=16%  Similarity=0.304  Sum_probs=22.2

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 013323           94 DTFFFRDQMKANGFLPDVAVYNYLISVCGKCKNSDQAIRIFEEMK  138 (445)
Q Consensus        94 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~m~  138 (445)
                      ++.+-++.+....+.|++.+..+.+++|-|.+++..|.++|+..+
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK   68 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   68 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            333444444444445555555555555555555555555555444

>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=87.56  E-value=3.3  Score=28.91  Aligned_cols=112  Identities=10%  Similarity=-0.071  Sum_probs=69.4

Q ss_pred             CcHhHHHHHHHHHHHCCCCCCHHHHHHHHHHHhcCCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHH
Q 013323           55 RRFFLLRDVYDDMMLDGVQPTRDLFHSLIVGTMKGSRLQDTFFFRDQMKANGFLPDVAVYNYLISVCGK----CKNSDQA  130 (445)
Q Consensus        55 ~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~g~~~~a  130 (445)
                      .++++|++.|++--+.|..   ..+..|  +.....+.++|.++++...+.|.   ...+..|-..|..    ..+.++|
T Consensus         7 kd~~~A~~~~~kaa~~g~~---~a~~~l--~~~~~~~~~~a~~~~~~aa~~g~---~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNEM---FGCLSL--VSNSQINKQKLFQYLSKACELNS---GNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTCT---THHHHH--HTCTTSCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHHCCCh---hhhhhh--ccccccCHHHHHHHHhhhhcccc---hhhhhhHHHhhhhccccchhhHHH
Confidence            4677888888887777632   222222  22345677888888888887763   3444444444443    4567888


Q ss_pred             HHHHHHHHhCCCCccHHHHHHHHHHHHH----cCChhhHHHHHHHHHHcCC
Q 013323          131 IRIFEEMKKYEVKPNGQTYVCLLNACAA----AGQLDPVYAIVRDMTAAGA  177 (445)
Q Consensus       131 ~~~~~~m~~~g~~p~~~~y~~li~~~~~----~g~~~~a~~~~~~m~~~g~  177 (445)
                      .++|++-.+.|.   +.....|-..|..    ..+.++|...|+...+.|.
T Consensus        79 ~~~~~~aa~~g~---~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          79 AQYYSKACGLND---QDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTTC---HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhhhccCc---chHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            888888887663   3334444444444    3467778888877777663

>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=80.72  E-value=0.89  Score=31.64  Aligned_cols=48  Identities=13%  Similarity=0.041  Sum_probs=24.9

Q ss_pred             ChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHHHh
Q 013323           91 RLQDTFFFRDQMKANGFLPD-VAVYNYLISVCGKCKNSDQAIRIFEEMKK  139 (445)
Q Consensus        91 ~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~m~~  139 (445)
                      +++++..+|++..+.+ +.+ ...+-.|--+|.+.|++++|.+.++...+
T Consensus        53 d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          53 DERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            4455666666655432 112 23444444455566666666666666554