Citrus Sinensis ID: 013497

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440--
Protein Sequence
MSNTTSTNPSKPNKKRKTNPNPETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNKRLRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKWKERHQT
Secondary Structure (PSIPRED)
cccccccccccHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHccccccccccccccHHHHHHcccccccccccccccccEEEEccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEEcHHHHHHHcccccccccHHHHHHHHHHHHHHccccccEEEEcccccccccccHHHHHHHHHHHHcccEEccccccccHHHHHHHHHHcccEEEEccccccccccccccccHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccccccccHHHHHHccccHHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccccEcHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHccHHccccccHHHHHHHHHHcccccccccccccccEEEEEEEEcccccccccccEEEEEcccHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccEEEEccHHHEEccccccccccHHHHHHHHHHHHHHcccccEEEEEEccHcccccccHHHHHHHHHHHHcccEEEccccccccHHHHHHHHHcccEEEccHHHHHHHHHHccccHHHHHHHcccc
Coil and Loop (DISEMBL)
msnttstnpskpnkkrktnpnpetnFLINLqsctkskdlTTAISLYESAHSQNLRLSLHHFNALLYLcsdsatdpsskdsalrHGFRVFDQMlsnnvipneasVTSVARLAASKNDGDYAFVLIKRMNnefnvvprlrtydpalfCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWfsgqkvngvscdlglVKNAVLkngggwhglgwigqgkwvvkrgsvdesgkccscgdqlacvdiddAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDganiglyqqnfteggfsvpQLDAVVKKLYErsgnkwplvILHNKrlrslwenpshrnlveeWNEKGVLymtphgsnddWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKWKERHQT
Flexible Loop (DISEMBL)
msnttstnpskpnkkrktnpnpetNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKlrstvrcvnEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGggwhglgwigqGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYErsgnkwplvilhnkrlrslwenpshrnLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELlgsnfflkwkerhqt
Low Complexity Region (SEG)
MSNTTstnpskpnkkrktnpnpETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNgggwhglgwigqgKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNKRLRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKWKERHQT
Disordered region (IsUnstruct)
*************************FLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCS*************RHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNKRLRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKWK*****
Disordered Region (DISOPRED)
************************NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILH***************LVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKWKERHQ*
Disordered Region (DISEMBL)
*******************PNPETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDS********SALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNKRLRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKWKERHQT
Disordered Region (DISPRO)
*******************PNPETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNKRLRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKWKER***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSNTTSTNPSKPNKKRKTNPNPETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNKRLRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKWKERHQT
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	442	2.2.26 [Sep-21-2011]
Q680B9	528	Proteinaceous RNase P 2 O	yes	no	0.979	0.820	0.631	1e-159
F4JKB6	576	Proteinaceous RNase P 3 O	no	no	0.950	0.729	0.622	1e-159
Q66GI4	572	Proteinaceous RNase P 1,	no	no	0.979	0.756	0.473	1e-105
O15091	583	Mitochondrial ribonucleas	yes	no	0.409	0.310	0.225	6e-07
Q9LR67	660	Pentatricopeptide repeat-	no	no	0.375	0.251	0.214	5e-06
B5DF07	587	Mitochondrial ribonucleas	yes	no	0.409	0.308	0.21	8e-05
Q9LSQ2	659	Putative pentatricopeptid	no	no	0.237	0.159	0.283	0.0002

>sp|Q680B9|PRRP2_ARATH Proteinaceous RNase P 2 OS=Arabidopsis thaliana GN=PRORP2 PE=1 SV=1

 Score =  561 bits (1447), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 283/448 (63%), Positives = 349/448 (77%), Gaps = 15/448 (3%)

Query: 10  SKPNKKRKTNPNPETNFLINLQSCTKSKDLTTAISLYESA-HSQNLRLSLHHFNALLYLC 68
           S+PNKK+K + NPETN L NL SC+KSKDL+ A++LY++A  S  +RLS  HF  LLYLC
Sbjct: 17  SRPNKKKKVSRNPETNLLFNLNSCSKSKDLSAALALYDAAITSSEVRLSQQHFQTLLYLC 76

Query: 69  SDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMN 128
           S S TD S +  A+  GF +FD+M+S+ + PNEASVTSVARLAA+K +GDYAF ++K   
Sbjct: 77  SASITDISLQYLAIDRGFEIFDRMVSSGISPNEASVTSVARLAAAKGNGDYAFKVVKEFV 136

Query: 129 NEFNV-VPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGR 187
           +   V +PRLRTY PAL CFCE LEAEK YEVEEHM   G++LE+ EI+ALLKVSA TGR
Sbjct: 137 SVGGVSIPRLRTYAPALLCFCEKLEAEKGYEVEEHMEAAGIALEEAEISALLKVSAATGR 196

Query: 188 VEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKV-----NGVSCDLGLVKNAVLKNGGG 242
             KVY+YL KLR  V CV+EET KIIE+WF G+K      NG+  D+G+++ AVL NGGG
Sbjct: 197 ENKVYRYLHKLREYVGCVSEETLKIIEEWFCGEKAGEVGDNGIGSDVGMLREAVLNNGGG 256

Query: 243 WHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKA 302
           WHG GW+G+GKW VK+G+V  +G+C SC +QLACVD ++ ET++F  S+ ALAM+R+ K 
Sbjct: 257 WHGHGWVGEGKWTVKKGNVSSTGRCLSCSEQLACVDTNEVETQKFVDSLVALAMDRKTKM 316

Query: 303 N-------FSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSG 355
           N       FSEFQDWLEK+ +YEAIVDGANIGLYQQNF +G FS+ QL++V+K+LY  SG
Sbjct: 317 NSCETNVVFSEFQDWLEKHGDYEAIVDGANIGLYQQNFVDGSFSLSQLESVMKELYRESG 376

Query: 356 N-KWPLVILHNKRLRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLL 414
           N KWPL++LH +R+++L ENP+HRNLVEEW   GVLY TP GSNDDWYWLYAA KL+CLL
Sbjct: 377 NNKWPLILLHKRRVKTLLENPTHRNLVEEWISNGVLYATPPGSNDDWYWLYAAAKLKCLL 436

Query: 415 VTNDEMRDHIFELLGSNFFLKWKERHQT 442
           VTNDEMRDHIFELLGS FF KWKERHQ 
Sbjct: 437 VTNDEMRDHIFELLGSTFFQKWKERHQV 464

Endonuclease RNase P responsible for the 5' maturation of tRNA precursors. Also involved in the maturation of mRNA and small nucleolar RNA (snoRNA).
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: 2EC: 6EC: .EC: 5

>sp|F4JKB6|PRRP3_ARATH Proteinaceous RNase P 3 OS=Arabidopsis thaliana GN=PRORP3 PE=1 SV=1

 Score =  561 bits (1446), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 271/435 (62%), Positives = 338/435 (77%), Gaps = 15/435 (3%)

Query: 23  ETNFLINLQSCTKSKDLTTAISLYESA-HSQNLRLSLHHFNALLYLCSDSATDPSSKDSA 81
           E + LINL SC+K KDL+ A++LY++A  S ++RL+  HF +LLYLCS   +DPS +  A
Sbjct: 89  EKSLLINLHSCSKRKDLSAALALYDAAITSSDIRLNQQHFQSLLYLCSAFISDPSLQTVA 148

Query: 82  LRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNV-VPRLRTY 140
           +  GF++FD+M+S+ + PNE+SVT+VARLAA+K DGDYAF L+K +     V VPRLRTY
Sbjct: 149 IDRGFQIFDRMVSSGISPNESSVTAVARLAAAKGDGDYAFKLVKDLVAVGGVSVPRLRTY 208

Query: 141 DPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRS 200
            PAL CFC+ LEAEK YEVE+HM   G+ LE+ EI+ALLKVSA TGR  KVY+YLQKLR 
Sbjct: 209 APALLCFCDTLEAEKGYEVEDHMDASGIVLEEAEISALLKVSAATGRENKVYRYLQKLRE 268

Query: 201 TVRCVNEETGKIIEDWFSGQKV-----NGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWV 255
            V CV+EET K IE+WF G K      NG+  D+ L++ AVLKNGGGWHGLGW+G+GKW+
Sbjct: 269 CVGCVSEETSKAIEEWFYGVKASEVSDNGIGSDIELLRAAVLKNGGGWHGLGWVGEGKWI 328

Query: 256 VKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVK-------ANFSEFQ 308
           VK+G+V  +GKC SC + LACVD ++ ETE F  S+  LAMER+ K       A+FSEFQ
Sbjct: 329 VKKGNVSSAGKCLSCDEHLACVDTNEVETEDFVNSLVTLAMERKAKMNSCEPMADFSEFQ 388

Query: 309 DWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNK-WPLVILHNKR 367
           +WLEK+ +YEAI+DGANIGLYQQNF +GGFS+PQL+AVVK+LY +SG+K  PL++LH KR
Sbjct: 389 EWLEKHGDYEAILDGANIGLYQQNFADGGFSLPQLEAVVKELYNKSGSKKQPLILLHKKR 448

Query: 368 LRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFEL 427
           + +L ENP+HRNLVEEW    VLY TP GSNDDWYWLYAA KL+CLLVTNDEMRDHIFEL
Sbjct: 449 VNALLENPNHRNLVEEWINNNVLYATPPGSNDDWYWLYAAAKLKCLLVTNDEMRDHIFEL 508

Query: 428 LGSNFFLKWKERHQT 442
           L ++FF KWKERHQ 
Sbjct: 509 LSNSFFQKWKERHQV 523

Endonuclease RNase P responsible for the 5' maturation of tRNA precursors. Also involved in the maturation of mRNA and small nucleolar RNA (snoRNA).

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 1

EC: .

EC: 2

EC: 6

EC: .

EC: 5

>sp|Q66GI4|PRRP1_ARATH Proteinaceous RNase P 1, chloroplastic/mitochondrial OS=Arabidopsis thaliana GN=PRORP1 PE=1 SV=1

 Score =  381 bits (979), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 211/446 (47%), Positives = 296/446 (66%), Gaps = 13/446 (2%)

Query: 4   TTSTNPSKPNKKRKTNPNPETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNA 63
           + S N S+  KK+    +PE      L  C+K  D+  A+ LY+ A    ++LS +H+N 
Sbjct: 78  SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNV 137

Query: 64  LLYLCS--DSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAF 121
           LLY+CS  ++AT+ SS +  L  GF +F QM+ + V+PNEA+ T+ ARLA +K+D + AF
Sbjct: 138 LLYVCSLAEAATE-SSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAF 196

Query: 122 VLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKV 181
            ++K+M   F + PRLR+Y PALF FC   +A+KAYEV+ HM    +  E+ E+AALLKV
Sbjct: 197 DMVKQMK-AFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKV 255

Query: 182 SAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSC---DLGLVKNAVLK 238
           S +T   +KVY+ LQ+LR  VR V++ T  +IE+WF  +          D+  +++AV+ 
Sbjct: 256 SMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEVATKTGVKKWDVKKIRDAVVS 315

Query: 239 NGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMER 298
            GGGWHG GW+G GKW VKR  +DE+G C  C ++L C+DI+  ETE FA S+  LA ER
Sbjct: 316 GGGGWHGQGWLGTGKWNVKRTEMDENGVCKCCKEKLVCIDINPVETETFAASLTRLACER 375

Query: 299 EVKANFSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNK- 357
           EVKANF++FQ+WLE++  ++A++DGAN+GL  Q      FS  QL+  V++  + S +K 
Sbjct: 376 EVKANFNQFQEWLERHGPFDAVIDGANMGLVNQR----SFSFFQLNNTVQRCQQISPSKR 431

Query: 358 WPLVILHNKRLRSLWEN-PSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVT 416
            PLVILH  R+       P +R L+E+W   G LY TP GSNDDWYWLYAAV  +CLLVT
Sbjct: 432 LPLVILHKSRVNGGPATYPKNRALLEKWKNAGALYATPPGSNDDWYWLYAAVSCKCLLVT 491

Query: 417 NDEMRDHIFELLGSNFFLKWKERHQT 442
           NDEMRDH+F+LLG++FF +WKE+HQ 
Sbjct: 492 NDEMRDHLFQLLGNSFFPRWKEKHQV 517

Arabidopsis thaliana (taxid: 3702)

>sp|O15091|MRRP3_HUMAN Mitochondrial ribonuclease P protein 3 OS=Homo sapiens GN=KIAA0391 PE=1 SV=2

 Score = 55.8 bits (133), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 45/200 (22%), Positives = 82/200 (41%), Gaps = 19/200 (9%)

Query: 253 KWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAME------REVKANFSE 306
           +W  +  +V +SG+C  CG  +  + +   E E     +    ++      +        
Sbjct: 334 QWKGQFTTVRKSGQCSGCGKTIESIQLSPEEYECLKGKIMRDVIDGGDQYRKTTPQELKR 393

Query: 307 FQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNK 366
           F+++++    ++ ++DG N+        E       L  VV +L +R+     L   H  
Sbjct: 394 FENFIKSRPPFDVVIDGLNVAKMFPKVRESQL----LLNVVSQLAKRNLRLLVLGRKHML 449

Query: 367 RLRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKL--RCLLVTNDEMRDH- 423
           R  S W     R+ +EE  ++   +     S DD + LYA +     C  +T D MRDH 
Sbjct: 450 RRSSQWS----RDEMEEVQKQASCFFADDISEDDPFLLYATLHSGNHCRFITRDLMRDHK 505

Query: 424 --IFELLGSNFFLKWKERHQ 441
             + +      F KW++ HQ
Sbjct: 506 ACLPDAKTQRLFFKWQQGHQ 525

Functions in mitochondrial tRNA maturation. Part of mitochondrial ribonuclease P, an enzyme composed of MRPP1/RG9MTD1, MRPP2/HSD17B10 and MRPP3/KIAA0391, which cleaves tRNA molecules in their 5'-ends.

Homo sapiens (taxid: 9606)

>sp|Q9LR67|PPR9_ARATH Pentatricopeptide repeat-containing protein At1g03560, mitochondrial OS=Arabidopsis thaliana GN=At1g03560 PE=2 SV=1

 Score = 53.1 bits (126), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 38/177 (21%), Positives = 79/177 (44%), Gaps = 11/177 (6%)

Query: 23  ETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLY-LCSDSATDPSSKDSA 81
           +  ++  +Q+C    D  + ++LY+    + +++  H F+ ++  LC         K+  
Sbjct: 292 KITYMTMIQACYADSDFGSCVALYQEMDEKGIQVPPHAFSLVIGGLC---------KEGK 342

Query: 82  LRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYD 141
           L  G+ VF+ M+     PN A  T +    A     + A  L+ RM +E    P + TY 
Sbjct: 343 LNEGYTVFENMIRKGSKPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDE-GFKPDVVTYS 401

Query: 142 PALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKL 198
             +   C+N   E+A +        GL++     ++L+    + GRV++  +  +++
Sbjct: 402 VVVNGLCKNGRVEEALDYFHTCRFDGLAINSMFYSSLIDGLGKAGRVDEAERLFEEM 458

Arabidopsis thaliana (taxid: 3702)

>sp|B5DF07|MRRP3_RAT Mitochondrial ribonuclease P protein 3 OS=Rattus norvegicus GN=Mrpp3 PE=2 SV=1

 Score = 48.9 bits (115), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 42/200 (21%), Positives = 89/200 (44%), Gaps = 19/200 (9%)

Query: 253 KWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAME------REVKANFSE 306
           +W  +  ++ +SG+C SCG  +  + +   E E   +++    ++      +        
Sbjct: 334 QWKGQFTTIQKSGQCSSCGRAIESIHLSPEEYEFLKETIMRDVIDGGDQYKKTTPQELKR 393

Query: 307 FQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNK 366
           F+ +++    ++ ++DG N+    + F +G  S   L  +V +L +++     L   H  
Sbjct: 394 FERFVKSCPPFDIVIDGLNVA---KMFPKGRES-QNLLGIVSQLAQQNLQLLVLGRKHML 449

Query: 367 RLRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVK--LRCLLVTNDEMRDH- 423
           R  S W     ++ +E+  ++   +   + S DD + LYA +     C  +T D +RDH 
Sbjct: 450 RPSSQWR----KDEMEQVRKQAHCFFADNISEDDPFLLYATLNSGSHCKFITKDLLRDHK 505

Query: 424 --IFELLGSNFFLKWKERHQ 441
             + +      F KW++ HQ
Sbjct: 506 ACLPDARAQRLFFKWQQGHQ 525

Functions in mitochondrial tRNA maturation. Part of mitochondrial ribonuclease P, an enzyme composed of MRPP1/RG9MTD1, MRPP2/HSD17B10 and MRPP3/KIAA0391, which cleaves tRNA molecules in their 5'-ends.

Rattus norvegicus (taxid: 10116)

>sp|Q9LSQ2|PP239_ARATH Putative pentatricopeptide repeat-containing protein At3g16890, mitochondrial OS=Arabidopsis thaliana GN=PPR40 PE=3 SV=1

 Score = 47.4 bits (111), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 30/106 (28%), Positives = 52/106 (49%), Gaps = 1/106 (0%)

Query: 82  LRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYD 141
           ++  F  F +ML   + PNE +   + R   S  D D +  L  +M  E  + P L  Y+
Sbjct: 511 IKDAFDCFKEMLEWGIEPNEITYNILIRSCCSTGDTDRSVKLFAKMK-ENGLSPDLYAYN 569

Query: 142 PALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGR 187
             +  FC+  + +KA E+ + M  +GL  +    + L+K  +E+GR
Sbjct: 570 ATIQSFCKMRKVKKAEELLKTMLRIGLKPDNFTYSTLIKALSESGR 615

Required for the ubiqinol-cytochrome c oxidoreductase activity of mitochondrial Complex III.

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	442
224080794	557	predicted protein [Populus trichocarpa]	0.968	0.768	0.716	0.0
255576329	561	multidrug resistance pump, putative [Ric	0.993	0.782	0.684	1e-180
224103055	482	predicted protein [Populus trichocarpa]	0.957	0.877	0.708	1e-177
224132016	557	predicted protein [Populus trichocarpa]	0.968	0.768	0.713	1e-174
356543574	530	PREDICTED: pentatricopeptide repeat-cont	0.954	0.796	0.690	1e-173
356547141	550	PREDICTED: pentatricopeptide repeat-cont	0.975	0.783	0.691	1e-171
297799862	517	predicted protein [Arabidopsis lyrata su	0.984	0.841	0.628	1e-164
359486225	551	PREDICTED: pentatricopeptide repeat-cont	0.947	0.760	0.657	1e-162
79557286	528	proteinaceous RNase P 2 [Arabidopsis tha	0.979	0.820	0.631	1e-157
186512202	576	proteinaceous RNase P 3 [Arabidopsis tha	0.950	0.729	0.622	1e-157

>gi|224080794|ref|XP_002306233.1| predicted protein [Populus trichocarpa] gi|222849197|gb|EEE86744.1| predicted protein [Populus trichocarpa]

 Score =  640 bits (1652), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 308/430 (71%), Positives = 358/430 (83%), Gaps = 2/430 (0%)

Query: 14  KKRKTNPNPETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSAT 73
           KK K+N  PE+ F  NL   +KSKDL +AISLY++A SQN RL+ H+FN LLYLCS S  
Sbjct: 8   KKPKSNQTPESQFSYNLNFYSKSKDLHSAISLYDTAISQNTRLNQHNFNTLLYLCSISLN 67

Query: 74  DPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNV 133
           DPS+KD +L++GFRVFD M+SN + PNEAS+T+VARLAA+K DGDYAF L+K +   +N 
Sbjct: 68  DPSTKDLSLQYGFRVFDHMVSNGIKPNEASITAVARLAAAKGDGDYAFDLVKNIG-VYNE 126

Query: 134 VPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQ 193
           +PRLRTYDPALFC+CE LE +KAYEVEEHM  +G+ LE+ EIAALLKVS ET R E+VY+
Sbjct: 127 LPRLRTYDPALFCYCEKLEGDKAYEVEEHMRRIGVGLEEGEIAALLKVSVETRREERVYE 186

Query: 194 YLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGK 253
           YLQKLR  VRCV EET K+IE WF   + NGV  D+GLV+ AV +NGGGWHGLGWIG+ K
Sbjct: 187 YLQKLRKMVRCVREETAKVIEHWFEVFEGNGVELDVGLVREAVSRNGGGWHGLGWIGKEK 246

Query: 254 WVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEK 313
           WVV+RGSV+  GKCC CG+QL  VDIDD ETERFA+SVA LAMEREVKANFSEFQ+WLEK
Sbjct: 247 WVVRRGSVNAGGKCCCCGEQLVSVDIDDDETERFAESVAGLAMEREVKANFSEFQNWLEK 306

Query: 314 NANYEAIVDGANIGLYQQNFTEGGFSVP-QLDAVVKKLYERSGNKWPLVILHNKRLRSLW 372
           +ANYEAI+DGANIGLYQQNF EGGFS+  QLDAV+K LY +SG K PLVILHNKRLR+L 
Sbjct: 307 HANYEAIMDGANIGLYQQNFAEGGFSISQQLDAVIKDLYNQSGKKGPLVILHNKRLRALL 366

Query: 373 ENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNF 432
           +NPS R L++EW EK VLY TPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGS+F
Sbjct: 367 QNPSTRELIQEWIEKDVLYTTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSDF 426

Query: 433 FLKWKERHQT 442
           F+KWKERHQ 
Sbjct: 427 FVKWKERHQV 436

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255576329|ref|XP_002529057.1| multidrug resistance pump, putative [Ricinus communis] gi|223531469|gb|EEF33301.1| multidrug resistance pump, putative [Ricinus communis]

 Score =  637 bits (1644), Expect = e-180,   Method: Compositional matrix adjust.
 Identities = 302/441 (68%), Positives = 360/441 (81%), Gaps = 2/441 (0%)

Query: 2   SNTTSTNPSKPNKKRKTNPNPETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHF 61
           + TT+T P    K  K N  PE+ F  NL   +KSKDL +AISLY++A S   +L+ HH+
Sbjct: 3   TGTTTTAPVGKKKPNKKNQTPESQFNYNLNFYSKSKDLNSAISLYKTAISNKTQLNQHHY 62

Query: 62  NALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAF 121
           N LLYLCS S  DPS K+ AL++GF +F+ M++  +  NEAS+T++ARLAA+K DGDYAF
Sbjct: 63  NTLLYLCSISLNDPSEKELALQNGFDIFEHMVATGIKRNEASITAIARLAAAKGDGDYAF 122

Query: 122 VLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKV 181
            LIK M  + N +PRLRTYDP LFCFCE LEA KAYEVE+H+  MG++LE+ EIAALLKV
Sbjct: 123 NLIKNMLVD-NQLPRLRTYDPVLFCFCEKLEAFKAYEVEDHIVSMGMNLEELEIAALLKV 181

Query: 182 SAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGG 241
           S ET   E+VY YLQKLR TVRCV EET KI+EDWF   +VNG   D+GLV+ AV+KNGG
Sbjct: 182 SVETKNKERVYGYLQKLRKTVRCVKEETAKIVEDWFKDFEVNGKELDVGLVRKAVVKNGG 241

Query: 242 GWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVK 301
           GWHGLGWI +GKW VKRG++D  G+CC CG+ LACVDIDD ETERFA S+A LAMEREVK
Sbjct: 242 GWHGLGWIEKGKWGVKRGNMDMDGRCCCCGESLACVDIDDLETERFAGSLAGLAMEREVK 301

Query: 302 ANFSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLV 361
           ANFSEFQDWL+KNA+Y+AIVDGAN+GLYQQNF EGGFS+ QLDAVVK+LY+RSG KWPL+
Sbjct: 302 ANFSEFQDWLDKNADYDAIVDGANVGLYQQNFAEGGFSISQLDAVVKELYDRSG-KWPLI 360

Query: 362 ILHNKRLRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMR 421
           +LHNKR+R++ ENPS RNL++EW EK +LY TPHGSNDDWYWLYAAVKL+CLLVTNDEMR
Sbjct: 361 VLHNKRVRAILENPSQRNLIQEWTEKDILYTTPHGSNDDWYWLYAAVKLKCLLVTNDEMR 420

Query: 422 DHIFELLGSNFFLKWKERHQT 442
           DHIFELLGS+FFLKWKERHQ 
Sbjct: 421 DHIFELLGSSFFLKWKERHQV 441

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224103055|ref|XP_002312906.1| predicted protein [Populus trichocarpa] gi|222849314|gb|EEE86861.1| predicted protein [Populus trichocarpa]

 Score =  626 bits (1615), Expect = e-177,   Method: Compositional matrix adjust.
 Identities = 301/425 (70%), Positives = 351/425 (82%), Gaps = 2/425 (0%)

Query: 19  NPNPETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSK 78
           N  PE+ F  NL   +KSKDL +AISLY++A SQ+ RL+ H FN LLYLCS S  DPS++
Sbjct: 10  NQTPESQFNYNLNFYSKSKDLHSAISLYDTAISQDTRLNQHGFNTLLYLCSVSLNDPSTE 69

Query: 79  DSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLR 138
           + ALR GFR+FD M+SN + PNEAS+T+VARLAA+K DGDYAF L+K +   +N +PRLR
Sbjct: 70  ELALRCGFRIFDHMVSNGIKPNEASITAVARLAAAKGDGDYAFDLVKNVG-AYNELPRLR 128

Query: 139 TYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKL 198
           TYDPALFCFCE LEA KAYEVEEHMG MG+ LE+ EIAALLKVS E+   ++VY YLQKL
Sbjct: 129 TYDPALFCFCEKLEAHKAYEVEEHMGSMGVGLEEGEIAALLKVSVESRNEKRVYGYLQKL 188

Query: 199 RSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKR 258
           R  VRCV  ET K+IE WF+  + +GV  D+ LV+ AV +NGGGWHGLGWIG+GKWV+KR
Sbjct: 189 RKMVRCVRGETAKVIEHWFAVFEGSGVELDVDLVREAVSRNGGGWHGLGWIGKGKWVLKR 248

Query: 259 GSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYE 318
           GSVD  GKCC CG+QL  VDIDD ETERFA+SVA LAM+REVKANFSEFQ+WLE++ANYE
Sbjct: 249 GSVDVGGKCCCCGEQLVSVDIDDDETERFAESVAGLAMQREVKANFSEFQNWLEEHANYE 308

Query: 319 AIVDGANIGLYQQNFTEGGFSVP-QLDAVVKKLYERSGNKWPLVILHNKRLRSLWENPSH 377
           AIVDGANIGLYQQNF EGGFS+  QLDAVVK LY +SG KWPL+I+HNKRLR+L +NPS 
Sbjct: 309 AIVDGANIGLYQQNFAEGGFSISQQLDAVVKDLYNQSGKKWPLIIMHNKRLRALLQNPST 368

Query: 378 RNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKWK 437
           R L++EW EK VLY TP GSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGS+FF+KWK
Sbjct: 369 RELIQEWIEKDVLYTTPQGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSDFFIKWK 428

Query: 438 ERHQT 442
           ERHQ 
Sbjct: 429 ERHQV 433

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224132016|ref|XP_002328164.1| predicted protein [Populus trichocarpa] gi|222837679|gb|EEE76044.1| predicted protein [Populus trichocarpa]

 Score =  619 bits (1595), Expect = e-174,   Method: Compositional matrix adjust.
 Identities = 307/430 (71%), Positives = 355/430 (82%), Gaps = 2/430 (0%)

Query: 14  KKRKTNPNPETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSAT 73
           KK K+N  PE+ F  NL   +KSKDL +AISLY++A SQN RL+ H+FN LLYLCS S  
Sbjct: 8   KKPKSNQTPESQFSYNLNFYSKSKDLHSAISLYDTAISQNTRLNQHNFNTLLYLCSISLN 67

Query: 74  DPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNV 133
           DPS+KD +L++GFRVFD M+SN + PNEAS+T+VARLAA+K DGDYAF L+K +   +N 
Sbjct: 68  DPSTKDLSLQYGFRVFDHMVSNGIKPNEASITAVARLAAAKGDGDYAFDLVKNIG-VYNE 126

Query: 134 VPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQ 193
           +PRLRTYDPALFC+CE LE +KAYEVEEHM  +G+ LE+ EIAALLKVS ET R E+VY 
Sbjct: 127 LPRLRTYDPALFCYCEKLEGDKAYEVEEHMRRIGVGLEEGEIAALLKVSVETRREERVYG 186

Query: 194 YLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGK 253
           YLQKLR  VRCV EET K+IE WF   + NGV  D+GLV+ AV +NGGGWHGLGWIG+ K
Sbjct: 187 YLQKLRKMVRCVREETAKVIEHWFEVFEGNGVELDVGLVREAVSRNGGGWHGLGWIGKEK 246

Query: 254 WVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEK 313
           WVV+RGSVD  GKCC CG QL  VDIDD ETERFA+SVA LAMEREVKANFSEFQ+WLEK
Sbjct: 247 WVVRRGSVDAGGKCCCCGGQLVSVDIDDDETERFAESVAGLAMEREVKANFSEFQNWLEK 306

Query: 314 NANYEAIVDGANIGLYQQNFTEGGFSVP-QLDAVVKKLYERSGNKWPLVILHNKRLRSLW 372
           +ANYEAI+DGANIGLYQQNF EGGFS+  QLDAV+K LY +SG K PL+ILHNKRLR+L 
Sbjct: 307 HANYEAIMDGANIGLYQQNFAEGGFSISQQLDAVIKDLYNQSGKKRPLIILHNKRLRALL 366

Query: 373 ENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNF 432
           +NPS R L++EW EK VLY TPHGSNDDWYWLYAAVKLRC LVTNDEMRDHIFELLGS+F
Sbjct: 367 QNPSTRELIQEWIEKDVLYTTPHGSNDDWYWLYAAVKLRCWLVTNDEMRDHIFELLGSDF 426

Query: 433 FLKWKERHQT 442
           F+KWKERHQ 
Sbjct: 427 FVKWKERHQV 436

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356543574|ref|XP_003540235.1| PREDICTED: pentatricopeptide repeat-containing protein At2g32230, mitochondrial-like [Glycine max]

 Score =  614 bits (1584), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 294/426 (69%), Positives = 339/426 (79%), Gaps = 4/426 (0%)

Query: 21  NPETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDS 80
           NPE  F   L +C+K+KDL  AISLY+ A S N RL+ HHFNALLYLCS+S  DPS K +
Sbjct: 15  NPEAKFQFELNTCSKAKDLRGAISLYDDAVSNNTRLNQHHFNALLYLCSNSVADPSLKPT 74

Query: 81  ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFN-VVPRLRT 139
           AL +GFR F  M +  V+PNEA+VT+VARLAA+K D DYAF L+K M   +N  +PRLRT
Sbjct: 75  ALDYGFRAFCHMSALAVLPNEATVTAVARLAAAKGDADYAFDLVKSMGKNYNNALPRLRT 134

Query: 140 YDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLR 199
           YDPALFCFCE L+A+KAYEVEEHM  +G+SLE+ E+AALLKVSA  GR +KVY+YL KLR
Sbjct: 135 YDPALFCFCEMLDADKAYEVEEHMSGVGVSLEEAEVAALLKVSARCGRADKVYEYLHKLR 194

Query: 200 STVRCVNEETGKIIEDWFSGQK---VNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVV 256
           S+VRCV+E +  +IE+WF G K   V  V  + G VK  VL+NGGGWHG GW+G+G WVV
Sbjct: 195 SSVRCVSESSAVVIEEWFRGSKSSEVGEVEFEAGQVKEGVLRNGGGWHGQGWVGKGDWVV 254

Query: 257 KRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNAN 316
            R SV   G CC CG+QL CVDIDDAE E+FA SVAALA EREVKANFSEFQ WLEK+A+
Sbjct: 255 SRTSVGADGHCCCCGEQLVCVDIDDAEREKFAGSVAALAFEREVKANFSEFQAWLEKHAS 314

Query: 317 YEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNKRLRSLWENPS 376
           YEAIVDGANIGLYQQNF +GGFS+ QLD VVK+LY RSG KWPLV+LHNKRLR L ENPS
Sbjct: 315 YEAIVDGANIGLYQQNFADGGFSISQLDDVVKELYNRSGKKWPLVVLHNKRLRGLMENPS 374

Query: 377 HRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKW 436
            R LVEEW   G LY TP+GSNDDWYWL+AAVKLRCLLVTNDEMRDHIFEL+GSNFF +W
Sbjct: 375 SRRLVEEWMNNGALYTTPNGSNDDWYWLFAAVKLRCLLVTNDEMRDHIFELIGSNFFNQW 434

Query: 437 KERHQT 442
           KERHQ 
Sbjct: 435 KERHQV 440

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356547141|ref|XP_003541975.1| PREDICTED: pentatricopeptide repeat-containing protein At2g32230, mitochondrial-like [Glycine max]

 Score =  609 bits (1570), Expect = e-171,   Method: Compositional matrix adjust.
 Identities = 301/435 (69%), Positives = 347/435 (79%), Gaps = 4/435 (0%)

Query: 12  PNKKRKTNPNPETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDS 71
           P KK+K   NPET F   L SC+K+KDL  AISLY+ A S N RL+ HHFNALLYLCS+S
Sbjct: 5   PKKKKKGCRNPETKFQFELNSCSKAKDLRGAISLYDDAVSNNTRLNQHHFNALLYLCSNS 64

Query: 72  ATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEF 131
             DPS K +AL +GFR F  M +  V+PNEA+VT+VARLAA+K D DYAF L+K M   +
Sbjct: 65  VADPSLKPTALDYGFRAFRHMSALAVLPNEATVTAVARLAAAKGDADYAFELVKSMGKNY 124

Query: 132 N-VVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEK 190
           N  +PRLRTYDPALFCFCE L+A+KAYEVEEHM  +G+SLE+ E+AALLKVSA  GRV+K
Sbjct: 125 NNALPRLRTYDPALFCFCEMLDADKAYEVEEHMNGVGVSLEEAELAALLKVSARCGRVDK 184

Query: 191 VYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVS---CDLGLVKNAVLKNGGGWHGLG 247
           VY+YL +LRS+VRCV+E T  +IE+WF G K + V     D G VK  VL+NGGGWHG G
Sbjct: 185 VYEYLHRLRSSVRCVSESTAVVIEEWFRGSKASEVGEAEFDAGRVKEGVLRNGGGWHGQG 244

Query: 248 WIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEF 307
           W+G+G WVV R SV   G CC CG QL CVDIDD ETE+FA SVAALA EREVKANFSEF
Sbjct: 245 WVGKGDWVVSRTSVVADGHCCCCGQQLVCVDIDDVETEKFAGSVAALAFEREVKANFSEF 304

Query: 308 QDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNKR 367
           Q WLEK+A+YEAIVDGANIGLYQQNF +GGF++ QLD VVK+LY RSG KWPLV+LHNKR
Sbjct: 305 QAWLEKHASYEAIVDGANIGLYQQNFADGGFNISQLDDVVKELYNRSGKKWPLVVLHNKR 364

Query: 368 LRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFEL 427
           LR L ENPS R LVEEW + GVLY TP+GSNDDWYWL+AAVKLRCLLVTNDEMRDHIFEL
Sbjct: 365 LRGLMENPSSRRLVEEWMKNGVLYTTPNGSNDDWYWLFAAVKLRCLLVTNDEMRDHIFEL 424

Query: 428 LGSNFFLKWKERHQT 442
           +GSNFF +WKERHQ 
Sbjct: 425 IGSNFFNQWKERHQV 439

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297799862|ref|XP_002867815.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297313651|gb|EFH44074.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  584 bits (1505), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 283/450 (62%), Positives = 353/450 (78%), Gaps = 15/450 (3%)

Query: 8   NPSKPNKKRKTNPNPETNFLINLQSCTKSKDLTTAISLYESA-HSQNLRLSLHHFNALLY 66
           +PSKPNKK+K + NPE + LINL SC+K KDL+ A++LY++A  S ++RL+  HF +LLY
Sbjct: 15  SPSKPNKKQKGSRNPEKSLLINLHSCSKRKDLSAALALYDAAITSSDIRLNQQHFQSLLY 74

Query: 67  LCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKR 126
           LCS   +DPS +  A+  GF++FD+M+S+ + PNE+SVT+VARLAA+K DGDYAF L+K 
Sbjct: 75  LCSAFISDPSLQTLAIDRGFQIFDRMVSSGISPNESSVTAVARLAAAKGDGDYAFKLVKD 134

Query: 127 MNNEFNV-VPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAET 185
           +     V VPRLRTY PAL CFCE+LEAEK YEVEEHM   G+ LE+ EI+ALLKVSA T
Sbjct: 135 IVVVGGVSVPRLRTYAPALLCFCESLEAEKGYEVEEHMDASGIMLEEAEISALLKVSAAT 194

Query: 186 GRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVS-----CDLGLVKNAVLKNG 240
           GR  KVY+YL KLR  + CV+EET K IE+WF G K + +S     CD+ L++ AV KNG
Sbjct: 195 GRENKVYRYLHKLRECIGCVSEETSKTIEEWFYGVKASEISDKTIGCDIELLRAAVSKNG 254

Query: 241 GGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREV 300
           GGWHGLGW+G+GKW+VK+G+V  +GKC SCG+ LACVD ++ ETE F  S+ ALAMER+ 
Sbjct: 255 GGWHGLGWVGEGKWIVKKGNVSPAGKCLSCGEHLACVDTNEVETENFVNSLVALAMERKA 314

Query: 301 K-------ANFSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYER 353
           K       A+FSEFQ+WLEK+ +YEAI+DGANIGLYQQNF +GGFS+PQL+AVVK+LY +
Sbjct: 315 KMNSCEPMADFSEFQEWLEKHGDYEAILDGANIGLYQQNFADGGFSLPQLEAVVKELYNK 374

Query: 354 SGNK-WPLVILHNKRLRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRC 412
           SGNK  PLV+LH KR+ +L  NP+HRNLVEEW +  VLY TP GSNDDWYWLYAA KL+C
Sbjct: 375 SGNKKQPLVLLHKKRVNALLGNPNHRNLVEEWIDNNVLYATPPGSNDDWYWLYAAAKLKC 434

Query: 413 LLVTNDEMRDHIFELLGSNFFLKWKERHQT 442
           LLVTNDEMRDHIFELL ++FF KWKERHQ 
Sbjct: 435 LLVTNDEMRDHIFELLSNSFFEKWKERHQV 464

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486225|ref|XP_003633416.1| PREDICTED: pentatricopeptide repeat-containing protein At2g32230, mitochondrial-like [Vitis vinifera]

 Score =  579 bits (1492), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 278/423 (65%), Positives = 339/423 (80%), Gaps = 4/423 (0%)

Query: 23  ETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSAL 82
           E  F  +L +C+K +DL+ A++L+ESA SQN RL  +HFNALLYLC+ S  +PSSK  AL
Sbjct: 12  EGKFRFDLDTCSKRRDLSGAVALFESAVSQNFRLIHYHFNALLYLCTISIDEPSSKALAL 71

Query: 83  RHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDP 142
            +GFR+FD M+++ V PNEA++T+VARLAA+K+DGD AF +++ M  ++ + PRLRTY P
Sbjct: 72  DYGFRIFDHMVNSGVTPNEATITAVARLAAAKSDGDLAFEVVRTMG-KYELSPRLRTYGP 130

Query: 143 ALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTV 202
           AL+ FC NLE EKA+ VEEHM  MG+  E+ E+AALLKVSAE GR +KVY YL KLR+ V
Sbjct: 131 ALYWFCANLEGEKAWAVEEHMVSMGVHPEEPELAALLKVSAEMGRGDKVYAYLHKLRTAV 190

Query: 203 RCVNEETGKIIEDWFSGQ---KVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRG 259
           R V+E T +IIE WF G+   +V GV C LG ++   LKNGGGWHG GWIG+GKW+V R 
Sbjct: 191 RSVSESTAEIIEGWFCGEAASEVGGVDCCLGAIEEVALKNGGGWHGQGWIGKGKWLVCRA 250

Query: 260 SVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEA 319
            VD SG+C SC +QLA VDID AETE F +SVAA+AMEREV++NF EFQDWL+K+A+YEA
Sbjct: 251 KVDSSGQCGSCREQLATVDIDRAETETFLESVAAMAMEREVRSNFREFQDWLDKHADYEA 310

Query: 320 IVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNKRLRSLWENPSHRN 379
           IVDGANIGLYQQNF  G FS+PQLDAVVK+LY+RS  K PLVILHNKR R L EN S+R 
Sbjct: 311 IVDGANIGLYQQNFANGEFSIPQLDAVVKELYDRSQKKRPLVILHNKRFRKLSENASNRK 370

Query: 380 LVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKWKER 439
           L++EW  +GVLY TP+GSNDDWYWLYAAVKL+CLLVTNDEMRDHIFELLGS+FFLKWKER
Sbjct: 371 LLQEWLTQGVLYTTPNGSNDDWYWLYAAVKLKCLLVTNDEMRDHIFELLGSSFFLKWKER 430

Query: 440 HQT 442
           HQ 
Sbjct: 431 HQV 433

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|79557286|ref|NP_179256.3| proteinaceous RNase P 2 [Arabidopsis thaliana] gi|75116712|sp|Q680B9.1|PRRP2_ARATH RecName: Full=Proteinaceous RNase P 2 gi|51970038|dbj|BAD43711.1| unnamed protein product [Arabidopsis thaliana] gi|330251428|gb|AEC06522.1| proteinaceous RNase P 2 [Arabidopsis thaliana]

 Score =  561 bits (1447), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 283/448 (63%), Positives = 349/448 (77%), Gaps = 15/448 (3%)

Query: 10  SKPNKKRKTNPNPETNFLINLQSCTKSKDLTTAISLYESA-HSQNLRLSLHHFNALLYLC 68
           S+PNKK+K + NPETN L NL SC+KSKDL+ A++LY++A  S  +RLS  HF  LLYLC
Sbjct: 17  SRPNKKKKVSRNPETNLLFNLNSCSKSKDLSAALALYDAAITSSEVRLSQQHFQTLLYLC 76

Query: 69  SDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMN 128
           S S TD S +  A+  GF +FD+M+S+ + PNEASVTSVARLAA+K +GDYAF ++K   
Sbjct: 77  SASITDISLQYLAIDRGFEIFDRMVSSGISPNEASVTSVARLAAAKGNGDYAFKVVKEFV 136

Query: 129 NEFNV-VPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGR 187
           +   V +PRLRTY PAL CFCE LEAEK YEVEEHM   G++LE+ EI+ALLKVSA TGR
Sbjct: 137 SVGGVSIPRLRTYAPALLCFCEKLEAEKGYEVEEHMEAAGIALEEAEISALLKVSAATGR 196

Query: 188 VEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKV-----NGVSCDLGLVKNAVLKNGGG 242
             KVY+YL KLR  V CV+EET KIIE+WF G+K      NG+  D+G+++ AVL NGGG
Sbjct: 197 ENKVYRYLHKLREYVGCVSEETLKIIEEWFCGEKAGEVGDNGIGSDVGMLREAVLNNGGG 256

Query: 243 WHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKA 302
           WHG GW+G+GKW VK+G+V  +G+C SC +QLACVD ++ ET++F  S+ ALAM+R+ K 
Sbjct: 257 WHGHGWVGEGKWTVKKGNVSSTGRCLSCSEQLACVDTNEVETQKFVDSLVALAMDRKTKM 316

Query: 303 N-------FSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSG 355
           N       FSEFQDWLEK+ +YEAIVDGANIGLYQQNF +G FS+ QL++V+K+LY  SG
Sbjct: 317 NSCETNVVFSEFQDWLEKHGDYEAIVDGANIGLYQQNFVDGSFSLSQLESVMKELYRESG 376

Query: 356 N-KWPLVILHNKRLRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLL 414
           N KWPL++LH +R+++L ENP+HRNLVEEW   GVLY TP GSNDDWYWLYAA KL+CLL
Sbjct: 377 NNKWPLILLHKRRVKTLLENPTHRNLVEEWISNGVLYATPPGSNDDWYWLYAAAKLKCLL 436

Query: 415 VTNDEMRDHIFELLGSNFFLKWKERHQT 442
           VTNDEMRDHIFELLGS FF KWKERHQ 
Sbjct: 437 VTNDEMRDHIFELLGSTFFQKWKERHQV 464

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|186512202|ref|NP_193921.2| proteinaceous RNase P 3 [Arabidopsis thaliana] gi|426020118|sp|F4JKB6.1|PRRP3_ARATH RecName: Full=Proteinaceous RNase P 3 gi|332659121|gb|AEE84521.1| proteinaceous RNase P 3 [Arabidopsis thaliana]

 Score =  561 bits (1446), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 271/435 (62%), Positives = 338/435 (77%), Gaps = 15/435 (3%)

Query: 23  ETNFLINLQSCTKSKDLTTAISLYESA-HSQNLRLSLHHFNALLYLCSDSATDPSSKDSA 81
           E + LINL SC+K KDL+ A++LY++A  S ++RL+  HF +LLYLCS   +DPS +  A
Sbjct: 89  EKSLLINLHSCSKRKDLSAALALYDAAITSSDIRLNQQHFQSLLYLCSAFISDPSLQTVA 148

Query: 82  LRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNV-VPRLRTY 140
           +  GF++FD+M+S+ + PNE+SVT+VARLAA+K DGDYAF L+K +     V VPRLRTY
Sbjct: 149 IDRGFQIFDRMVSSGISPNESSVTAVARLAAAKGDGDYAFKLVKDLVAVGGVSVPRLRTY 208

Query: 141 DPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRS 200
            PAL CFC+ LEAEK YEVE+HM   G+ LE+ EI+ALLKVSA TGR  KVY+YLQKLR 
Sbjct: 209 APALLCFCDTLEAEKGYEVEDHMDASGIVLEEAEISALLKVSAATGRENKVYRYLQKLRE 268

Query: 201 TVRCVNEETGKIIEDWFSGQKV-----NGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWV 255
            V CV+EET K IE+WF G K      NG+  D+ L++ AVLKNGGGWHGLGW+G+GKW+
Sbjct: 269 CVGCVSEETSKAIEEWFYGVKASEVSDNGIGSDIELLRAAVLKNGGGWHGLGWVGEGKWI 328

Query: 256 VKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVK-------ANFSEFQ 308
           VK+G+V  +GKC SC + LACVD ++ ETE F  S+  LAMER+ K       A+FSEFQ
Sbjct: 329 VKKGNVSSAGKCLSCDEHLACVDTNEVETEDFVNSLVTLAMERKAKMNSCEPMADFSEFQ 388

Query: 309 DWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNK-WPLVILHNKR 367
           +WLEK+ +YEAI+DGANIGLYQQNF +GGFS+PQL+AVVK+LY +SG+K  PL++LH KR
Sbjct: 389 EWLEKHGDYEAILDGANIGLYQQNFADGGFSLPQLEAVVKELYNKSGSKKQPLILLHKKR 448

Query: 368 LRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFEL 427
           + +L ENP+HRNLVEEW    VLY TP GSNDDWYWLYAA KL+CLLVTNDEMRDHIFEL
Sbjct: 449 VNALLENPNHRNLVEEWINNNVLYATPPGSNDDWYWLYAAAKLKCLLVTNDEMRDHIFEL 508

Query: 428 LGSNFFLKWKERHQT 442
           L ++FF KWKERHQ 
Sbjct: 509 LSNSFFQKWKERHQV 523

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	442
TAIR|locus:2059824	528	PRORP2 "proteinaceous RNase P	0.947	0.793	0.610	1.9e-140
TAIR|locus:2141662	576	PRORP3 "AT4G21900" [Arabidopsi	0.947	0.727	0.599	1.5e-136
TAIR|locus:2045432	572	PRORP1 "proteinaceous RNase P	0.918	0.709	0.467	8.4e-97
TAIR|locus:2175178	156	AT5G60430 [Arabidopsis thalian	0.255	0.724	0.533	3e-30
UNIPROTKB|O15091	583	KIAA0391 "Mitochondrial ribonu	0.409	0.310	0.225	2.1e-05
RGD|1305089	587	RGD1305089 "similar to 1110008	0.409	0.308	0.21	2.2e-05
TAIR|locus:2020808	660	AT1G03560 [Arabidopsis thalian	0.386	0.259	0.218	0.00012
MGI|MGI:1913382	584	1110008L16Rik "RIKEN cDNA 1110	0.409	0.309	0.21	0.00035
TAIR|locus:2086032	659	PPR40 "pentatricopeptide (PPR)	0.298	0.200	0.251	0.00041

TAIR|locus:2059824 PRORP2 "proteinaceous RNase P 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 1374 (488.7 bits), Expect = 1.9e-140, P = 1.9e-140
 Identities = 265/434 (61%), Positives = 326/434 (75%)

Query:    23 ETNFLINLQSCTKSKDLTTAISLYESA-HSQNLRLSLHHFNALLYLCSDSATDPSSKDSA 81
             ETN L NL SC+KSKDL+ A++LY++A  S  +RLS  HF  LLYLCS S TD S +  A
Sbjct:    30 ETNLLFNLNSCSKSKDLSAALALYDAAITSSEVRLSQQHFQTLLYLCSASITDISLQYLA 89

Query:    82 LRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNV-VPRLRTY 140
             +  GF +FD+M+S+ + PNEASVTSVARLAA+K +GDYAF ++K   +   V +PRLRTY
Sbjct:    90 IDRGFEIFDRMVSSGISPNEASVTSVARLAAAKGNGDYAFKVVKEFVSVGGVSIPRLRTY 149

Query:   141 DPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRS 200
              PAL CFCE LEAEK YEVEEHM   G++LE+ EI+ALLKVSA TGR  KVY+YL KLR 
Sbjct:   150 APALLCFCEKLEAEKGYEVEEHMEAAGIALEEAEISALLKVSAATGRENKVYRYLHKLRE 209

Query:   201 TVRCVNEETGKIIEDWFSGQKV-----NGVSCDLGLVKNAVLKNXXXXXXXXXXXXXKWV 255
              V CV+EET KIIE+WF G+K      NG+  D+G+++ AVL N             KW 
Sbjct:   210 YVGCVSEETLKIIEEWFCGEKAGEVGDNGIGSDVGMLREAVLNNGGGWHGHGWVGEGKWT 269

Query:   256 VKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKAN-------FSEFQ 308
             VK+G+V  +G+C SC +QLACVD ++ ET++F  S+ ALAM+R+ K N       FSEFQ
Sbjct:   270 VKKGNVSSTGRCLSCSEQLACVDTNEVETQKFVDSLVALAMDRKTKMNSCETNVVFSEFQ 329

Query:   309 DWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGN-KWPLVILHNKR 367
             DWLEK+ +YEAIVDGANIGLYQQNF +G FS+ QL++V+K+LY  SGN KWPL++LH +R
Sbjct:   330 DWLEKHGDYEAIVDGANIGLYQQNFVDGSFSLSQLESVMKELYRESGNNKWPLILLHKRR 389

Query:   368 LRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFEL 427
             +++L ENP+HRNLVEEW   GVLY TP GSNDDWYWLYAA KL+CLLVTNDEMRDHIFEL
Sbjct:   390 VKTLLENPTHRNLVEEWISNGVLYATPPGSNDDWYWLYAAAKLKCLLVTNDEMRDHIFEL 449

Query:   428 LGSNFFLKWKERHQ 441
             LGS FF KWKERHQ
Sbjct:   450 LGSTFFQKWKERHQ 463

GO:0005739 "mitochondrion" evidence=ISM

GO:0016020 "membrane" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0001682 "tRNA 5'-leader removal" evidence=IDA

GO:0004526 "ribonuclease P activity" evidence=IDA

GO:0006397 "mRNA processing" evidence=IMP

GO:0043144 "snoRNA processing" evidence=IMP

TAIR|locus:2141662 PRORP3 "AT4G21900" [Arabidopsis thaliana (taxid:3702)]

 Score = 1337 (475.7 bits), Expect = 1.5e-136, P = 1.5e-136
 Identities = 260/434 (59%), Positives = 324/434 (74%)

Query:    23 ETNFLINLQSCTKSKDLTTAISLYESA-HSQNLRLSLHHFNALLYLCSDSATDPSSKDSA 81
             E + LINL SC+K KDL+ A++LY++A  S ++RL+  HF +LLYLCS   +DPS +  A
Sbjct:    89 EKSLLINLHSCSKRKDLSAALALYDAAITSSDIRLNQQHFQSLLYLCSAFISDPSLQTVA 148

Query:    82 LRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNV-VPRLRTY 140
             +  GF++FD+M+S+ + PNE+SVT+VARLAA+K DGDYAF L+K +     V VPRLRTY
Sbjct:   149 IDRGFQIFDRMVSSGISPNESSVTAVARLAAAKGDGDYAFKLVKDLVAVGGVSVPRLRTY 208

Query:   141 DPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRS 200
              PAL CFC+ LEAEK YEVE+HM   G+ LE+ EI+ALLKVSA TGR  KVY+YLQKLR 
Sbjct:   209 APALLCFCDTLEAEKGYEVEDHMDASGIVLEEAEISALLKVSAATGRENKVYRYLQKLRE 268

Query:   201 TVRCVNEETGKIIEDWFSGQKV-----NGVSCDLGLVKNAVLKNXXXXXXXXXXXXXKWV 255
              V CV+EET K IE+WF G K      NG+  D+ L++ AVLKN             KW+
Sbjct:   269 CVGCVSEETSKAIEEWFYGVKASEVSDNGIGSDIELLRAAVLKNGGGWHGLGWVGEGKWI 328

Query:   256 VKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKAN-------FSEFQ 308
             VK+G+V  +GKC SC + LACVD ++ ETE F  S+  LAMER+ K N       FSEFQ
Sbjct:   329 VKKGNVSSAGKCLSCDEHLACVDTNEVETEDFVNSLVTLAMERKAKMNSCEPMADFSEFQ 388

Query:   309 DWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNK-WPLVILHNKR 367
             +WLEK+ +YEAI+DGANIGLYQQNF +GGFS+PQL+AVVK+LY +SG+K  PL++LH KR
Sbjct:   389 EWLEKHGDYEAILDGANIGLYQQNFADGGFSLPQLEAVVKELYNKSGSKKQPLILLHKKR 448

Query:   368 LRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFEL 427
             + +L ENP+HRNLVEEW    VLY TP GSNDDWYWLYAA KL+CLLVTNDEMRDHIFEL
Sbjct:   449 VNALLENPNHRNLVEEWINNNVLYATPPGSNDDWYWLYAAAKLKCLLVTNDEMRDHIFEL 508

Query:   428 LGSNFFLKWKERHQ 441
             L ++FF KWKERHQ
Sbjct:   509 LSNSFFQKWKERHQ 522

GO:0005215 "transporter activity" evidence=ISS

GO:0005739 "mitochondrion" evidence=ISM

GO:0016020 "membrane" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=IDA

GO:0001682 "tRNA 5'-leader removal" evidence=IDA

GO:0004526 "ribonuclease P activity" evidence=IDA

GO:0006397 "mRNA processing" evidence=IMP

GO:0043144 "snoRNA processing" evidence=IMP

TAIR|locus:2045432 PRORP1 "proteinaceous RNase P 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 962 (343.7 bits), Expect = 8.4e-97, P = 8.4e-97
 Identities = 196/419 (46%), Positives = 276/419 (65%)

Query:    30 LQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCS--DSATDPSSKDSALRHGFR 87
             L  C+K  D+  A+ LY+ A    ++LS +H+N LLY+CS  ++AT+ SS +  L  GF 
Sbjct:   104 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATE-SSPNPGLSRGFD 162

Query:    88 VFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCF 147
             +F QM+ + V+PNEA+ T+ ARLA +K+D + AF ++K+M   F + PRLR+Y PALF F
Sbjct:   163 IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMK-AFGIQPRLRSYGPALFGF 221

Query:   148 CENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNE 207
             C   +A+KAYEV+ HM    +  E+ E+AALLKVS +T   +KVY+ LQ+LR  VR V++
Sbjct:   222 CRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSK 281

Query:   208 ETGKIIEDWFSGQKVN--GVS-CDLGLVKNAVLKNXXXXXXXXXXXXXKWVVKRGSVDES 264
              T  +IE+WF  +     GV   D+  +++AV+               KW VKR  +DE+
Sbjct:   282 STFDMIEEWFKSEVATKTGVKKWDVKKIRDAVVSGGGGWHGQGWLGTGKWNVKRTEMDEN 341

Query:   265 GKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGA 324
             G C  C ++L C+DI+  ETE FA S+  LA EREVKANF++FQ+WLE++  ++A++DGA
Sbjct:   342 GVCKCCKEKLVCIDINPVETETFAASLTRLACEREVKANFNQFQEWLERHGPFDAVIDGA 401

Query:   325 NIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNK-WPLVILHNKRLRSLWEN-PSHRNLVE 382
             N+GL  Q      FS  QL+  V++  + S +K  PLVILH  R+       P +R L+E
Sbjct:   402 NMGLVNQR----SFSFFQLNNTVQRCQQISPSKRLPLVILHKSRVNGGPATYPKNRALLE 457

Query:   383 EWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKWKERHQ 441
             +W   G LY TP GSNDDWYWLYAAV  +CLLVTNDEMRDH+F+LLG++FF +WKE+HQ
Sbjct:   458 KWKNAGALYATPPGSNDDWYWLYAAVSCKCLLVTNDEMRDHLFQLLGNSFFPRWKEKHQ 516

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006855 "drug transmembrane transport" evidence=IEA

GO:0015238 "drug transmembrane transporter activity" evidence=IEA

GO:0015297 "antiporter activity" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0055085 "transmembrane transport" evidence=IEA

GO:0004526 "ribonuclease P activity" evidence=IMP;IDA

GO:0008033 "tRNA processing" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

TAIR|locus:2175178 AT5G60430 [Arabidopsis thaliana (taxid:3702)]

 Score = 334 (122.6 bits), Expect = 3.0e-30, P = 3.0e-30
 Identities = 64/120 (53%), Positives = 84/120 (70%)

Query:   231 LVKNAVLKNXXXXXXXXXXXXXKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQS 290
             +++ AVLKN             KW+VK+G+V  +G+C SC +QLACVD ++ ET++F  S
Sbjct:     1 MLREAVLKNGGGWHGHGWVGDGKWIVKKGNVSSTGRCLSCSEQLACVDTNEVETQKFVDS 60

Query:   291 VAALAMEREVKAN-------FSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQL 343
             + ALAMER+ K N       FSEFQDWLEK+ +YEAIVDGANIGLYQQNF +G FS+ Q+
Sbjct:    61 LVALAMERKAKMNSCESDVVFSEFQDWLEKHGDYEAIVDGANIGLYQQNFVDGSFSLSQV 120

GO:0005739 "mitochondrion" evidence=ISM

GO:0006855 "drug transmembrane transport" evidence=IEA

GO:0015238 "drug transmembrane transporter activity" evidence=IEA

GO:0015297 "antiporter activity" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0055085 "transmembrane transport" evidence=IEA

UNIPROTKB|O15091 KIAA0391 "Mitochondrial ribonuclease P protein 3" [Homo sapiens (taxid:9606)]

 Score = 132 (51.5 bits), Expect = 2.1e-05, P = 2.1e-05
 Identities = 45/200 (22%), Positives = 82/200 (41%)

Query:   253 KWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAME------REVKANFSE 306
             +W  +  +V +SG+C  CG  +  + +   E E     +    ++      +        
Sbjct:   334 QWKGQFTTVRKSGQCSGCGKTIESIQLSPEEYECLKGKIMRDVIDGGDQYRKTTPQELKR 393

Query:   307 FQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNK 366
             F+++++    ++ ++DG N+        E       L  VV +L +R+     L   H  
Sbjct:   394 FENFIKSRPPFDVVIDGLNVAKMFPKVRESQL----LLNVVSQLAKRNLRLLVLGRKHML 449

Query:   367 RLRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKL--RCLLVTNDEMRDH- 423
             R  S W     R+ +EE  ++   +     S DD + LYA +     C  +T D MRDH 
Sbjct:   450 RRSSQWS----RDEMEEVQKQASCFFADDISEDDPFLLYATLHSGNHCRFITRDLMRDHK 505

Query:   424 --IFELLGSNFFLKWKERHQ 441
               + +      F KW++ HQ
Sbjct:   506 ACLPDAKTQRLFFKWQQGHQ 525

GO:0008033 "tRNA processing" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

RGD|1305089 RGD1305089 "similar to 1110008L16Rik protein" [Rattus norvegicus (taxid:10116)]

 Score = 132 (51.5 bits), Expect = 2.2e-05, P = 2.2e-05
 Identities = 42/200 (21%), Positives = 89/200 (44%)

Query:   253 KWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAME------REVKANFSE 306
             +W  +  ++ +SG+C SCG  +  + +   E E   +++    ++      +        
Sbjct:   334 QWKGQFTTIQKSGQCSSCGRAIESIHLSPEEYEFLKETIMRDVIDGGDQYKKTTPQELKR 393

Query:   307 FQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNK 366
             F+ +++    ++ ++DG N+    + F +G  S   L  +V +L +++     L   H  
Sbjct:   394 FERFVKSCPPFDIVIDGLNVA---KMFPKGRES-QNLLGIVSQLAQQNLQLLVLGRKHML 449

Query:   367 RLRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKL--RCLLVTNDEMRDH- 423
             R  S W     ++ +E+  ++   +   + S DD + LYA +     C  +T D +RDH 
Sbjct:   450 RPSSQWR----KDEMEQVRKQAHCFFADNISEDDPFLLYATLNSGSHCKFITKDLLRDHK 505

Query:   424 --IFELLGSNFFLKWKERHQ 441
               + +      F KW++ HQ
Sbjct:   506 ACLPDARAQRLFFKWQQGHQ 525

GO:0005739 "mitochondrion" evidence=IEA

GO:0008033 "tRNA processing" evidence=IEA

TAIR|locus:2020808 AT1G03560 [Arabidopsis thaliana (taxid:3702)]

 Score = 126 (49.4 bits), Expect = 0.00012, P = 0.00012
 Identities = 40/183 (21%), Positives = 81/183 (44%)

Query:    26 FLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLY-LCSDSATDPSSKDSALRH 84
             ++  +Q+C    D  + ++LY+    + +++  H F+ ++  LC         K+  L  
Sbjct:   295 YMTMIQACYADSDFGSCVALYQEMDEKGIQVPPHAFSLVIGGLC---------KEGKLNE 345

Query:    85 GFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPAL 144
             G+ VF+ M+     PN A  T +    A     + A  L+ RM +E    P + TY   +
Sbjct:   346 GYTVFENMIRKGSKPNVAIYTVLIDGYAKSGSVEDAIRLLHRMIDE-GFKPDVVTYSVVV 404

Query:   145 FCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRC 204
                C+N   E+A +        GL++     ++L+    + GRV++  +  +++ S   C
Sbjct:   405 NGLCKNGRVEEALDYFHTCRFDGLAINSMFYSSLIDGLGKAGRVDEAERLFEEM-SEKGC 463

Query:   205 VNE 207
               +
Sbjct:   464 TRD 466

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

MGI|MGI:1913382 1110008L16Rik "RIKEN cDNA 1110008L16 gene" [Mus musculus (taxid:10090)]

 Score = 124 (48.7 bits), Expect = 0.00035, Sum P(2) = 0.00035
 Identities = 42/200 (21%), Positives = 84/200 (42%)

Query:   253 KWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAME------REVKANFSE 306
             +W  +  ++ +SG+C  CG  +  + +   E E   + +    ++      +        
Sbjct:   331 QWKGQFTTIQKSGQCSGCGRTIEPIHLSPEEYEFLKEKIMRDVIDGGDQYKKTTPQELKR 390

Query:   307 FQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNK 366
             F+ ++     ++ ++DG N+    + F +G  S   L  VV +L +++     L   H  
Sbjct:   391 FESFVNSCPPFDIVIDGLNVA---KMFPKGRES-QNLLGVVSQLAQQNLQLLVLGRKHML 446

Query:   367 RLRSLWENPSHRNLVEEWNEKGVLYMTPHGSNDDWYWLYAAVKL--RCLLVTNDEMRDH- 423
             R  S W        +E+  ++   +   + S DD + LYA +     C  +T D +RDH 
Sbjct:   447 RPSSQWRKEE----MEQVRKQAHCFFADNISEDDPFLLYATLNSGNHCKFITKDLLRDHK 502

Query:   424 --IFELLGSNFFLKWKERHQ 441
               + +      F KW++ HQ
Sbjct:   503 ACLPDARTQRLFFKWQQGHQ 522

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0005739 "mitochondrion" evidence=IEA

GO:0008033 "tRNA processing" evidence=IEA

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2086032 PPR40 "pentatricopeptide (PPR) domain protein 40" [Arabidopsis thaliana (taxid:3702)]

 Score = 121 (47.7 bits), Expect = 0.00041, P = 0.00041
 Identities = 34/135 (25%), Positives = 64/135 (47%)

Query:    82 LRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYD 141
             ++  F  F +ML   + PNE +   + R   S  D D +  L  +M  E  + P L  Y+
Sbjct:   511 IKDAFDCFKEMLEWGIEPNEITYNILIRSCCSTGDTDRSVKLFAKMK-ENGLSPDLYAYN 569

Query:   142 PALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRST 201
               +  FC+  + +KA E+ + M  +GL  +    + L+K  +E+GR  +  +    +   
Sbjct:   570 ATIQSFCKMRKVKKAEELLKTMLRIGLKPDNFTYSTLIKALSESGRESEAREMFSSIERH 629

Query:   202 VRCVNEE-TGKIIED 215
               CV +  T +++E+
Sbjct:   630 -GCVPDSYTKRLVEE 643


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.318   0.132   0.396    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      442       412   0.00080  118 3  11 22  0.40    34
                                                     34  0.45    37


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  9
  No. of states in DFA:  624 (66 KB)
  Total size of DFA:  296 KB (2153 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  34.56u 0.12s 34.68t   Elapsed:  00:00:02
  Total cpu time:  34.56u 0.12s 34.68t   Elapsed:  00:00:02
  Start:  Fri May 10 23:12:16 2013   End:  Fri May 10 23:12:18 2013

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006979 "response to oxidative stress" evidence=IMP

GO:0009651 "response to salt stress" evidence=IMP

GO:0009737 "response to abscisic acid stimulus" evidence=IMP

GO:0042775 "mitochondrial ATP synthesis coupled electron transport" evidence=IMP

---

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)
Q680B9	PRRP2_ARATH	3, ., 1, ., 2, 6, ., 5	0.6316	0.9796	0.8200	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: gw1.IV.1562.1 hypothetical protein (481 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	442
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-04

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

 Score = 42.9 bits (101), Expect = 3e-04
 Identities = 35/185 (18%), Positives = 74/185 (40%), Gaps = 11/185 (5%)

Query: 30  LQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVF 89
           +++C  +  +  A  +Y+  H  N++ +   +   +  CS                  ++
Sbjct: 586 MKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGD--------WDFALSIY 637

Query: 90  DQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCE 149
           D M    V P+E   +++  +A    D D AF +++    +  +     +Y  +L   C 
Sbjct: 638 DDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQ-GIKLGTVSYS-SLMGACS 695

Query: 150 NL-EAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEE 208
           N    +KA E+ E +  + L      + AL+    E  ++ K  + L +++    C N  
Sbjct: 696 NAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTI 755

Query: 209 TGKII 213
           T  I+
Sbjct: 756 TYSIL 760

Length = 1060

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	442
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
PF11977	155	RNase_Zc3h12a: Zc3h12a-like Ribonuclease NYN domai	99.87
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.55
PF13041	50	PPR_2: PPR repeat family	99.49
PF13041	50	PPR_2: PPR repeat family	99.49
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.46
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.37
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.29
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.23
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.21
PF12854	34	PPR_1: PPR repeat	99.05
PF12854	34	PPR_1: PPR repeat	98.97
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.88
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.77
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	98.77
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.73
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.6
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.57
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	98.52
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.43
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.42
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.38
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.34
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	98.32
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	98.31
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.28
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.23
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.21
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.14
PRK12370	553	invasion protein regulator; Provisional	98.13
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	98.1
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.08
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	98.08
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.08
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	98.06
PRK14574	822	hmsH outer membrane protein; Provisional	98.05
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.04
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.99
PRK12370	553	invasion protein regulator; Provisional	97.98
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	97.96
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.94
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	97.93
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.86
KOG3777	443	consensus Uncharacterized conserved protein [Funct	97.86
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	97.86
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	97.84
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	97.83
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.76
PRK14574	822	hmsH outer membrane protein; Provisional	97.71
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.69
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.61
PRK11189	296	lipoprotein NlpI; Provisional	97.6
KOG1126	638	consensus DNA-binding cell division cycle control	97.6
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	97.6
KOG1129	478	consensus TPR repeat-containing protein [General f	97.59
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	97.57
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	97.54
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	97.52
PRK11189	296	lipoprotein NlpI; Provisional	97.49
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.48
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	97.45
KOG2003	840	consensus TPR repeat-containing protein [General f	97.41
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	97.4
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	97.39
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	97.28
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	97.25
KOG1126	638	consensus DNA-binding cell division cycle control	97.25
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	97.25
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	97.24
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.21
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	97.16
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.07
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	97.06
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.05
KOG2003	840	consensus TPR repeat-containing protein [General f	97.03
PRK10370	198	formate-dependent nitrite reductase complex subuni	97.0
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	97.0
COG4783	484	Putative Zn-dependent protease, contains TPR repea	96.99
KOG0547	606	consensus Translocase of outer mitochondrial membr	96.96
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	96.95
TIGR02552	135	LcrH_SycD type III secretion low calcium response	96.94
PRK15359	144	type III secretion system chaperone protein SscB;	96.9
TIGR02552	135	LcrH_SycD type III secretion low calcium response	96.86
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.85
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.82
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	96.8
PRK10370	198	formate-dependent nitrite reductase complex subuni	96.75
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	96.72
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	96.71
PRK15359	144	type III secretion system chaperone protein SscB;	96.7
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	96.64
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.63
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	96.62
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	96.57
KOG2076	895	consensus RNA polymerase III transcription factor	96.54
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	96.43
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	96.42
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	96.36
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	96.33
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	96.27
KOG2076	895	consensus RNA polymerase III transcription factor	96.22
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	96.17
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	96.15
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	96.09
KOG1128	777	consensus Uncharacterized conserved protein, conta	96.08
KOG1129	478	consensus TPR repeat-containing protein [General f	96.07
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	95.99
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	95.95
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	95.91
KOG0547	606	consensus Translocase of outer mitochondrial membr	95.79
COG4783	484	Putative Zn-dependent protease, contains TPR repea	95.77
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	95.71
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.69
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	95.69
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	95.64
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	95.61
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	95.61
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	95.59
KOG3941	406	consensus Intermediate in Toll signal transduction	95.56
KOG3616	1636	consensus Selective LIM binding factor [Transcript	95.51
KOG4340	459	consensus Uncharacterized conserved protein [Funct	95.46
KOG3941	406	consensus Intermediate in Toll signal transduction	95.43
KOG3785	557	consensus Uncharacterized conserved protein [Funct	95.4
PRK14720	906	transcript cleavage factor/unknown domain fusion p	95.26
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	95.24
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	95.14
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.1
KOG3060	289	consensus Uncharacterized conserved protein [Funct	95.1
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	95.07
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	95.06
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.0
PF03704	146	BTAD: Bacterial transcriptional activator domain;	94.97
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	94.89
PF13929	292	mRNA_stabil: mRNA stabilisation	94.86
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.83
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	94.82
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	94.74
PF12688	120	TPR_5: Tetratrico peptide repeat	94.72
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	94.71
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	94.64
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	94.34
KOG1128	777	consensus Uncharacterized conserved protein, conta	94.33
KOG1915	677	consensus Cell cycle control protein (crooked neck	94.3
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	93.97
KOG2047	835	consensus mRNA splicing factor [RNA processing and	93.88
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	93.88
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.86
PRK04841	903	transcriptional regulator MalT; Provisional	93.84
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.7
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	93.64
KOG3785	557	consensus Uncharacterized conserved protein [Funct	93.56
KOG1915	677	consensus Cell cycle control protein (crooked neck	93.56
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	93.54
PRK10803	263	tol-pal system protein YbgF; Provisional	93.52
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	93.39
KOG2376	652	consensus Signal recognition particle, subunit Srp	93.31
KOG0495	913	consensus HAT repeat protein [RNA processing and m	93.3
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	93.25
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	93.16
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	92.89
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	92.88
KOG4340	459	consensus Uncharacterized conserved protein [Funct	92.68
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	92.68
PF12688	120	TPR_5: Tetratrico peptide repeat	92.6
PRK04841	903	transcriptional regulator MalT; Provisional	92.38
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	92.32
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	92.11
PF13371	73	TPR_9: Tetratricopeptide repeat	91.86
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	91.79
KOG2047	835	consensus mRNA splicing factor [RNA processing and	91.56
smart00299	140	CLH Clathrin heavy chain repeat homology.	91.53
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	91.35
KOG1125	579	consensus TPR repeat-containing protein [General f	91.25
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	91.23
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	90.77
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	90.22
PRK14720	906	transcript cleavage factor/unknown domain fusion p	90.11
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	89.97
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	89.97
KOG4570	418	consensus Uncharacterized conserved protein [Funct	89.87
KOG3616	1636	consensus Selective LIM binding factor [Transcript	89.86
KOG0495	913	consensus HAT repeat protein [RNA processing and m	89.72
PRK10803	263	tol-pal system protein YbgF; Provisional	89.66
PF13371	73	TPR_9: Tetratricopeptide repeat	89.58
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	89.48
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	89.34
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	89.21
KOG4570	418	consensus Uncharacterized conserved protein [Funct	89.09
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	89.01
COG3629	280	DnrI DNA-binding transcriptional activator of the	88.6
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	88.55
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	88.34
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	87.78
KOG2796	366	consensus Uncharacterized conserved protein [Funct	87.69
KOG2796	366	consensus Uncharacterized conserved protein [Funct	87.5
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	87.14
COG3629	280	DnrI DNA-binding transcriptional activator of the	86.89
KOG2376	652	consensus Signal recognition particle, subunit Srp	86.84
PF13929	292	mRNA_stabil: mRNA stabilisation	86.65
KOG0553	304	consensus TPR repeat-containing protein [General f	86.04
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	85.81
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	85.63
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	85.49
KOG0553	304	consensus TPR repeat-containing protein [General f	84.42
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	84.0
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	83.68
PLN02789	320	farnesyltranstransferase	81.59
KOG3060	289	consensus Uncharacterized conserved protein [Funct	81.42
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	80.94
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	80.85
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	80.56
PLN02789	320	farnesyltranstransferase	80.5
KOG1585	308	consensus Protein required for fusion of vesicles	80.47
PF14626	122	RNase_Zc3h12a_2: Zc3h12a-like Ribonuclease NYN dom	80.22

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.1e-41  Score=367.92  Aligned_cols=314  Identities=11%  Similarity=0.109  Sum_probs=212.7

Q ss_pred             ccccCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHH
Q 013497           14 KKRKTNPNPET-NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQM   92 (442)
Q Consensus        14 ~~~~~~~~p~~-~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M   92 (442)
                      +.++.|..|+. +||+||.+|++.|++++|.++|++|.+.|+.||..|||+||.+|.+.|        ++++|.++|++|
T Consensus       462 ~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G--------~~eeAl~lf~~M  533 (1060)
T PLN03218        462 LVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAG--------QVAKAFGAYGIM  533 (1060)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCc--------CHHHHHHHHHHH
Confidence            34566777877 888888888888888888888888888888888888888888777777        788888888888


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhh--CCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 013497           93 LSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNE--FNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSL  170 (442)
Q Consensus        93 ~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~--~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p  170 (442)
                      .+.|+.||.+|||+||.+|++.|++++|.++|++|. .  .|+.||.+||++||.+|++.|++++|.++|++|.+.|+.|
T Consensus       534 ~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~-~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p  612 (1060)
T PLN03218        534 RSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMK-AETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKG  612 (1060)
T ss_pred             HHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH-HhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC
Confidence            888888888888888888888888888888888886 4  5778888888888888888888888888888888888888


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCcccc
Q 013497          171 EQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIG  250 (442)
Q Consensus       171 ~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~  250 (442)
                      +..+||+||.+|++.|++++|.++|++|...|+.||..||++|+++|  ++.       +.+++|.+.+..... .|.. 
T Consensus       613 ~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~--~k~-------G~~eeA~~l~~eM~k-~G~~-  681 (1060)
T PLN03218        613 TPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVA--GHA-------GDLDKAFEILQDARK-QGIK-  681 (1060)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH--HhC-------CCHHHHHHHHHHHHH-cCCC-
Confidence            88888888888888888888888888888888888888888888888  665       334444433220000 0000 


Q ss_pred             ccceEEeeeccCCCCCCCcCCCcccccCCC-----HHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcCCcceEEeccc
Q 013497          251 QGKWVVKRGSVDESGKCCSCGDQLACVDID-----DAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGAN  325 (442)
Q Consensus       251 ~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~-----~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~~~d~vIdg~N  325 (442)
                       .+..+..+.+..+..|+...++++.++..     .+|..+|+.+|.+||+.|+.++|+++|++|...+..||.+.-..-
T Consensus       682 -pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sL  760 (1060)
T PLN03218        682 -LGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSIL  760 (1060)
T ss_pred             -CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence             00001111222223333333333333211     125666666666666666666666666666666655554333222


Q ss_pred             hhccccccCCCCcChhhHHHHHHHHHHh
Q 013497          326 IGLYQQNFTEGGFSVPQLDAVVKKLYER  353 (442)
Q Consensus       326 v~~~~~~~~~~~~~~~~~~~vv~~l~~~  353 (442)
                      +..+.+.   |  .++.+..+++.+.+.
T Consensus       761 L~a~~k~---G--~le~A~~l~~~M~k~  783 (1060)
T PLN03218        761 LVASERK---D--DADVGLDLLSQAKED  783 (1060)
T ss_pred             HHHHHHC---C--CHHHHHHHHHHHHHc
Confidence            2222221   1  355666666666655

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=6.9e-41  Score=361.67  Aligned_cols=295  Identities=15%  Similarity=0.172  Sum_probs=206.4

Q ss_pred             ccccCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHH
Q 013497           14 KKRKTNPNPET-NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQM   92 (442)
Q Consensus        14 ~~~~~~~~p~~-~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M   92 (442)
                      ++.+.|+.|+. |||+||++|++.|++++|+++|++|.+.|+.||..|||+||.+|.+.+        .+++|.++|++|
T Consensus       497 eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G--------~~deA~~lf~eM  568 (1060)
T PLN03218        497 EMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSG--------AVDRAFDVLAEM  568 (1060)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCC--------CHHHHHHHHHHH
Confidence            35567888998 999999999999999999999999999999999999999999888877        777777777777


Q ss_pred             Hh--CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 013497           93 LS--NNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSL  170 (442)
Q Consensus        93 ~~--~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p  170 (442)
                      ..  .|+.||.+||++||.+|++.|++++|.++|++|. +.|+.|+..+||++|.+|++.|++++|.++|++|.+.|+.|
T Consensus       569 ~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~-e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~P  647 (1060)
T PLN03218        569 KAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIH-EYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKP  647 (1060)
T ss_pred             HHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH-HcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Confidence            65  5677777777777777777777777777777777 67777777777777777777777777777777777777777


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCcccc
Q 013497          171 EQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIG  250 (442)
Q Consensus       171 ~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~  250 (442)
                      |..||++||++|++.|++++|.++|++|.+.|+.|+..+|++||.+|  ++.|       .+++|...+...-. .+.. 
T Consensus       648 D~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay--~k~G-------~~eeA~~lf~eM~~-~g~~-  716 (1060)
T PLN03218        648 DEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGAC--SNAK-------NWKKALELYEDIKS-IKLR-  716 (1060)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH--HhCC-------CHHHHHHHHHHHHH-cCCC-
Confidence            77777777777777777777777777777777777777777777777  5552       22333222210000 0000 


Q ss_pred             ccceEEeeeccCCCCCCCcCCCcccccCCC-----HHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcCCcceEEeccc
Q 013497          251 QGKWVVKRGSVDESGKCCSCGDQLACVDID-----DAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGAN  325 (442)
Q Consensus       251 ~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~-----~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~~~d~vIdg~N  325 (442)
                       .+....++.+..+..++...++++.++.+     .+|..+|+.+|.+|++.|+.++|.++|.+|.+.+..+|.++-..-
T Consensus       717 -PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsL  795 (1060)
T PLN03218        717 -PTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCI  795 (1060)
T ss_pred             -CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence             00000011111122222222222222110     028999999999999999999999999999999998887766655


Q ss_pred             hhcc
Q 013497          326 IGLY  329 (442)
Q Consensus       326 v~~~  329 (442)
                      ++++
T Consensus       796 Iglc  799 (1060)
T PLN03218        796 TGLC  799 (1060)
T ss_pred             HHHH
Confidence            5544

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.4e-36  Score=328.99  Aligned_cols=311  Identities=11%  Similarity=0.092  Sum_probs=245.3

Q ss_pred             CCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCC
Q 013497           21 NPET-NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIP   99 (442)
Q Consensus        21 ~p~~-~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p   99 (442)
                      .|+. +||++|.+|++.|++++|+++|++|.+.|+.||..||+++|.+|.+.+        .++.|.+++..|.+.|+.|
T Consensus       250 ~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g--------~~~~a~~l~~~~~~~g~~~  321 (857)
T PLN03077        250 RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLG--------DERLGREMHGYVVKTGFAV  321 (857)
T ss_pred             CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcC--------ChHHHHHHHHHHHHhCCcc
Confidence            4566 999999999999999999999999999999999999999999999888        8899999999999999999


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALL  179 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li  179 (442)
                      |+.+||+||.+|+++|++++|.++|++|.     .||.++||++|.+|++.|++++|+++|++|.+.|+.||..||+++|
T Consensus       322 d~~~~n~Li~~y~k~g~~~~A~~vf~~m~-----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll  396 (857)
T PLN03077        322 DVSVCNSLIQMYLSLGSWGEAEKVFSRME-----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVL  396 (857)
T ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHhhCC-----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHH
Confidence            99999999999999999999999999988     4788999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCccc--CCccc--------
Q 013497          180 KVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWH--GLGWI--------  249 (442)
Q Consensus       180 ~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--~~~~~--------  249 (442)
                      .+|++.|++++|.+++.+|.+.|+.|+..+|++|+++|  ++.|       .+++|.+.+.....  ...|.        
T Consensus       397 ~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y--~k~g-------~~~~A~~vf~~m~~~d~vs~~~mi~~~~~  467 (857)
T PLN03077        397 SACACLGDLDVGVKLHELAERKGLISYVVVANALIEMY--SKCK-------CIDKALEVFHNIPEKDVISWTSIIAGLRL  467 (857)
T ss_pred             HHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHH--HHcC-------CHHHHHHHHHhCCCCCeeeHHHHHHHHHH
Confidence            99999999999999999999999999999999999988  6653       23333322211000  00000        


Q ss_pred             ---------------------------------------------------c-ccceEEeeeccCCCCCCCcCCCccccc
Q 013497          250 ---------------------------------------------------G-QGKWVVKRGSVDESGKCCSCGDQLACV  277 (442)
Q Consensus       250 ---------------------------------------------------~-~~~w~v~~~~~~~~g~c~~c~~~l~~~  277 (442)
                                                                         | ..+-.+.++.++.+.+|+....+++.|
T Consensus       468 ~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f  547 (857)
T PLN03077        468 NNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF  547 (857)
T ss_pred             CCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHH
Confidence                                                               0 001123344556677788777788777


Q ss_pred             CCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcCCcceEEeccchhccccccCCCCcChhhHHHHHHHHHHhcCCC
Q 013497          278 DIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNK  357 (442)
Q Consensus       278 ~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~~~d~vIdg~Nv~~~~~~~~~~~~~~~~~~~vv~~l~~~~~~~  357 (442)
                      +..+.|..+|+++|.+|++.|+.++|+++|++|.+.+..||.+.=..-+..+...   |  .++++..+++.+.++. +.
T Consensus       548 ~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~---g--~v~ea~~~f~~M~~~~-gi  621 (857)
T PLN03077        548 NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRS---G--MVTQGLEYFHSMEEKY-SI  621 (857)
T ss_pred             HhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhc---C--hHHHHHHHHHHHHHHh-CC
Confidence            6557899999999999999999999999999999999877766543322222222   2  3667777777777433 24


Q ss_pred             cc
Q 013497          358 WP  359 (442)
Q Consensus       358 ~~  359 (442)
                      .|
T Consensus       622 ~P  623 (857)
T PLN03077        622 TP  623 (857)
T ss_pred             CC
Confidence            44

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

Probab=100.00  E-value=1.1e-35  Score=316.79  Aligned_cols=301  Identities=12%  Similarity=0.057  Sum_probs=161.5

Q ss_pred             cCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC
Q 013497           17 KTNPNPET-NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN   95 (442)
Q Consensus        17 ~~~~~p~~-~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~   95 (442)
                      +.|..|+. +||+||++|++.|++++|.++|++|.    .+|+++||+||.+|.+.|        ++++|.++|++|.+.
T Consensus       252 ~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g--------~~~eA~~lf~~M~~~  319 (697)
T PLN03081        252 KTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHG--------YSEEALCLYYEMRDS  319 (697)
T ss_pred             HhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCC--------CHHHHHHHHHHHHHc
Confidence            34455555 55555555555555555555555554    234455555555555555        555555555555555


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 013497           96 NVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEI  175 (442)
Q Consensus        96 g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty  175 (442)
                      |+.||.+||+++|++|++.|++++|.+++.+|. +.|+.||..+||+||.+|++.|++++|.++|++|.+    ||.+||
T Consensus       320 g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~-~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~----~d~~t~  394 (697)
T PLN03081        320 GVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLI-RTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR----KNLISW  394 (697)
T ss_pred             CCCCCHHHHHHHHHHHHhccchHHHHHHHHHHH-HhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC----CCeeeH
Confidence            555555555555555555555555555555555 555555555555555555555555555555555532    455555


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCccccccceE
Q 013497          176 AALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWV  255 (442)
Q Consensus       176 ~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~  255 (442)
                      |+||.+|++.|+.++|.++|++|.+.|+.||..||++++++|  ++.       +.+++|...+...-...|+..  +..
T Consensus       395 n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~--~~~-------g~~~~a~~~f~~m~~~~g~~p--~~~  463 (697)
T PLN03081        395 NALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSAC--RYS-------GLSEQGWEIFQSMSENHRIKP--RAM  463 (697)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH--hcC-------CcHHHHHHHHHHHHHhcCCCC--Ccc
Confidence            555555555555555555555555555555555555555555  443       223333222210000000000  000


Q ss_pred             EeeeccCCCCCCCcCCCcccccCCCH--HHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcC----CcceEEeccchhcc
Q 013497          256 VKRGSVDESGKCCSCGDQLACVDIDD--AETERFAQSVAALAMEREVKANFSEFQDWLEKNA----NYEAIVDGANIGLY  329 (442)
Q Consensus       256 v~~~~~~~~g~c~~c~~~l~~~~l~~--~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~----~~d~vIdg~Nv~~~  329 (442)
                      .....++..+.++...++++.++-.+  ++..+|+++|.+|+.+|+.+.|...++++++-.+    .|..+++     .|
T Consensus       464 ~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~-----~y  538 (697)
T PLN03081        464 HYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLN-----LY  538 (697)
T ss_pred             chHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHH-----HH
Confidence            01112222333333333333332111  2777899999999999999988888888865332    2222222     12


Q ss_pred             ccccCCCCcChhhHHHHHHHHHHhcC
Q 013497          330 QQNFTEGGFSVPQLDAVVKKLYERSG  355 (442)
Q Consensus       330 ~~~~~~~~~~~~~~~~vv~~l~~~~~  355 (442)
                      .+.   |  .++.+..+++.+++++-
T Consensus       539 ~~~---G--~~~~A~~v~~~m~~~g~  559 (697)
T PLN03081        539 NSS---G--RQAEAAKVVETLKRKGL  559 (697)
T ss_pred             HhC---C--CHHHHHHHHHHHHHcCC
Confidence            222   3  48899999999998843

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

Probab=100.00  E-value=5.8e-36  Score=318.83  Aligned_cols=305  Identities=15%  Similarity=0.091  Sum_probs=239.4

Q ss_pred             cccCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHH
Q 013497           15 KRKTNPNPET-NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQML   93 (442)
Q Consensus        15 ~~~~~~~p~~-~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~   93 (442)
                      .++.|..|+. +||.+|++|++.|++++|.++|++|.    .||.++||+||.+|.+.|        ++++|.++|++|.
T Consensus       149 m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~----~~~~~t~n~li~~~~~~g--------~~~~A~~lf~~M~  216 (697)
T PLN03081        149 VESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMP----ERNLASWGTIIGGLVDAG--------NYREAFALFREMW  216 (697)
T ss_pred             HHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCC----CCCeeeHHHHHHHHHHCc--------CHHHHHHHHHHHH
Confidence            4566888888 99999999999999999999999997    478899999999888888        8999999999999


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH
Q 013497           94 SNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQ  173 (442)
Q Consensus        94 ~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~  173 (442)
                      +.|+.||..||+++|.+|++.|..+.+.+++..|. +.|+.||..+||+||.+|++.|++++|.++|++|..    +|.+
T Consensus       217 ~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~-~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~v  291 (697)
T PLN03081        217 EDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVL-KTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTV  291 (697)
T ss_pred             HhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHH-HhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChh
Confidence            99999999999999999999999999999999998 889999999999999999999999999999999864    5888


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCccccccc
Q 013497          174 EIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGK  253 (442)
Q Consensus       174 ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  253 (442)
                      +||+||.+|++.|+.++|.++|++|++.|+.||..||++++.+|  ++.|       .+++|.+.++... ..|.  ..+
T Consensus       292 t~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~--~~~g-------~~~~a~~i~~~m~-~~g~--~~d  359 (697)
T PLN03081        292 AWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIF--SRLA-------LLEHAKQAHAGLI-RTGF--PLD  359 (697)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH--Hhcc-------chHHHHHHHHHHH-HhCC--CCC
Confidence            99999999999999999999999999999999999999999999  7663       2333322211000 0000  013


Q ss_pred             eEEeeeccCCCCCCCcCCCcccccCC-CHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcCCcceEEeccchhccccc
Q 013497          254 WVVKRGSVDESGKCCSCGDQLACVDI-DDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGANIGLYQQN  332 (442)
Q Consensus       254 w~v~~~~~~~~g~c~~c~~~l~~~~l-~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~~~d~vIdg~Nv~~~~~~  332 (442)
                      -.+.++.++.+++|+....+.+.|+- ..+|..+|+++|.+|++.|+.++|+++|++|.+.+..||.+.=..-+..+...
T Consensus       360 ~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~  439 (697)
T PLN03081        360 IVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYS  439 (697)
T ss_pred             eeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcC
Confidence            34456677778888888888888764 34789999999999999999999999999999988876654422212111111


Q ss_pred             cCCCCcChhhHHHHHHHHHHh
Q 013497          333 FTEGGFSVPQLDAVVKKLYER  353 (442)
Q Consensus       333 ~~~~~~~~~~~~~vv~~l~~~  353 (442)
                         |  ..++...+++.+.+.
T Consensus       440 ---g--~~~~a~~~f~~m~~~  455 (697)
T PLN03081        440 ---G--LSEQGWEIFQSMSEN  455 (697)
T ss_pred             ---C--cHHHHHHHHHHHHHh
Confidence               2  255555666666543

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.4e-35  Score=321.17  Aligned_cols=269  Identities=11%  Similarity=0.091  Sum_probs=213.3

Q ss_pred             CCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCC
Q 013497           21 NPET-NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIP   99 (442)
Q Consensus        21 ~p~~-~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p   99 (442)
                      .|+. +||++|.+|++.|++++|+++|++|...|+.||.+||+++|.+|...+        .++.+.+++.+|.+.|+.|
T Consensus       149 ~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~--------~~~~~~~~~~~~~~~g~~~  220 (857)
T PLN03077        149 ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIP--------DLARGREVHAHVVRFGFEL  220 (857)
T ss_pred             CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCcc--------chhhHHHHHHHHHHcCCCc
Confidence            4666 899999999999999999999999998899999999999999888777        7888888888888888888


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALL  179 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li  179 (442)
                      |+.+||+||.+|+++|++++|.++|++|.     .||.+|||+||.+|++.|+.++|+++|++|.+.|+.||..||+++|
T Consensus       221 ~~~~~n~Li~~y~k~g~~~~A~~lf~~m~-----~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll  295 (857)
T PLN03077        221 DVDVVNALITMYVKCGDVVSARLVFDRMP-----RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVI  295 (857)
T ss_pred             ccchHhHHHHHHhcCCCHHHHHHHHhcCC-----CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHH
Confidence            99999999999999999999999998888     4788889999999999999999999999998889999999999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCccccccceEEeee
Q 013497          180 KVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRG  259 (442)
Q Consensus       180 ~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~~  259 (442)
                      .+|++.|+.+.|.+++.+|.+.|+.||..+|++|+.+|  ++.       +.+++|...+.                   
T Consensus       296 ~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y--~k~-------g~~~~A~~vf~-------------------  347 (857)
T PLN03077        296 SACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMY--LSL-------GSWGEAEKVFS-------------------  347 (857)
T ss_pred             HHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHH--Hhc-------CCHHHHHHHHh-------------------
Confidence            99999999999999999998889999999999999998  666       55666665543                   


Q ss_pred             ccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcCCcceEEeccchhccccccCCCCcC
Q 013497          260 SVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFS  339 (442)
Q Consensus       260 ~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~~~d~vIdg~Nv~~~~~~~~~~~~~  339 (442)
                      .|.    .+              |..+|+++|.+|++.|+.++|+++|++|.+.+..||.+.-..-+..+.+.   |  .
T Consensus       348 ~m~----~~--------------d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~---g--~  404 (857)
T PLN03077        348 RME----TK--------------DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACL---G--D  404 (857)
T ss_pred             hCC----CC--------------CeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhcc---c--h
Confidence            221    12              56678888888888888888888888887777666654433333222211   1  2


Q ss_pred             hhhHHHHHHHHHHh
Q 013497          340 VPQLDAVVKKLYER  353 (442)
Q Consensus       340 ~~~~~~vv~~l~~~  353 (442)
                      ++.+..+.+.+.+.
T Consensus       405 ~~~a~~l~~~~~~~  418 (857)
T PLN03077        405 LDVGVKLHELAERK  418 (857)
T ss_pred             HHHHHHHHHHHHHh
Confidence            45555555555554

>PF11977 RNase_Zc3h12a: Zc3h12a-like Ribonuclease NYN domain; InterPro: IPR021869 This domain is found in the Zc3h12a protein which has shown to be a ribonuclease that controls the stability of a set of inflammatory genes []

Probab=99.87  E-value=3.1e-23  Score=177.76  Aligned_cols=118  Identities=31%  Similarity=0.506  Sum_probs=91.2

Q ss_pred             ceEEeccchhccccccCCCCcChhhHHHHHHHHHHhcCCCccEEEccCccccC-CCCChhhHHHHHHHHhcCeEEeCCCC
Q 013497          318 EAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNKRLRS-LWENPSHRNLVEEWNEKGVLYMTPHG  396 (442)
Q Consensus       318 d~vIdg~Nv~~~~~~~~~~~~~~~~~~~vv~~l~~~~~~~~~l~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  396 (442)
                      -+||||+|||+++.+.  ..|++.+|..+++++.++  |..+++|++..+... ....+++++.|++|.+++.+++||++
T Consensus         4 ~VVIDG~NVA~~~~~~--~~f~~~~i~~~v~~~~~r--G~~~v~v~~~~~~~~~~~~~~~~~~~L~~l~~~~~i~~tp~~   79 (155)
T PF11977_consen    4 PVVIDGSNVAYSHGNQ--KFFSVRGIQIAVEYFKSR--GHEVVVVFPPNYRYKKLAKKSDDQEELEKLIRKGIIYFTPSG   79 (155)
T ss_dssp             -EEEEHHHHHHHHTTT--TSEEHHHHHHHHHHHHHT--T---EEEEEEGGGGS-TTS-EESTCHHHHHHHTTSEEEE-EE
T ss_pred             EEEEeCHHHHhhcCCC--CCcCHHHHHHHHHHHHHc--CCCeEEEEcchhhhccccCCCChHHHHHHHHHCCeEEEcCCC
Confidence            3799999999865441  238999999999999999  678888887666322 34567788899999999999999999


Q ss_pred             CC--------ccHHHHHHHHhcCcEEEecCccccchhhccccchhhhhhhhcCC
Q 013497          397 SN--------DDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKWKERHQT  442 (442)
Q Consensus       397 ~~--------DD~~~l~aa~~~~~~~vsnD~~rdh~~~~~~~~~f~~W~~~hq~  442 (442)
                      ++        ||||||++|.+.+++|||||+||||.+   ....|.+|.++|+|
T Consensus        80 ~~~g~~~~~ydD~~il~~A~~~~a~IVSND~frD~~~---~~~~~~~~~~~~~i  130 (155)
T PF11977_consen   80 SNYGSRSRNYDDRYILYYAEEKDAVIVSNDRFRDHIF---ENPELRRWIERRLI  130 (155)
T ss_dssp             EETTEEEEB-HHHHHHHHHHHTT-EEE-S---HHHHH---H-HHHHHHHHHHEE
T ss_pred             CCCCCcccccchHHHHHHHHHcCCEEEeCchHHHHhh---cchHHHHHHHHeee
Confidence            87        999999999999999999999999999   56789999999975

It has been suggested that this domain belongs to the PIN domain superfamily []. ; PDB: 3V33_A 3V34_B 3V32_B.

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.55  E-value=1.8e-12  Score=128.96  Aligned_cols=235  Identities=10%  Similarity=0.015  Sum_probs=162.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLS---LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNE  101 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~---~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~  101 (442)
                      ++..+...+.+.|++++|..+++.+...+..++   ...+..|...+...|        ++++|..+|+++.+.. +++.
T Consensus        71 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g--------~~~~A~~~~~~~l~~~-~~~~  141 (389)
T PRK11788         71 LHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAG--------LLDRAEELFLQLVDEG-DFAE  141 (389)
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHcCC-cchH
Confidence            788888888999999999999998887543332   245666666777777        8899999999887652 3567


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc----ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL----RTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAA  177 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~----~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~  177 (442)
                      .+++.++..+.+.|++++|.+.++.+. ..+-.+..    ..|..+...+.+.|+.++|..+|+++.+.. ..+...+..
T Consensus       142 ~~~~~la~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~  219 (389)
T PRK11788        142 GALQQLLEIYQQEKDWQKAIDVAERLE-KLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASIL  219 (389)
T ss_pred             HHHHHHHHHHHHhchHHHHHHHHHHHH-HhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHH
Confidence            888899999999999999999998887 54322211    235567777888899999999998887653 224557777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCccccccceEEe
Q 013497          178 LLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVK  257 (442)
Q Consensus       178 li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~  257 (442)
                      +...+.+.|+.++|.++|+++....-.....++..+...|  ...|       ..++|...+..                
T Consensus       220 la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~--~~~g-------~~~~A~~~l~~----------------  274 (389)
T PRK11788        220 LGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECY--QALG-------DEAEGLEFLRR----------------  274 (389)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHH--HHcC-------CHHHHHHHHHH----------------
Confidence            8888888999999999998887653222235667777777  5553       33333333220                


Q ss_pred             eeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHc
Q 013497          258 RGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKN  314 (442)
Q Consensus       258 ~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~  314 (442)
                        .+..   -|              +...+..+...+...|+.++|...|++.++..
T Consensus       275 --~~~~---~p--------------~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~  312 (389)
T PRK11788        275 --ALEE---YP--------------GADLLLALAQLLEEQEGPEAAQALLREQLRRH  312 (389)
T ss_pred             --HHHh---CC--------------CchHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence              0000   01              22233555666777788888888888877764

>PF13041 PPR_2: PPR repeat family

Probab=99.49  E-value=4.7e-14  Score=96.72  Aligned_cols=49  Identities=18%  Similarity=0.308  Sum_probs=25.5

Q ss_pred             CCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          135 PRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       135 p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      ||+++||++|++|++.|++++|+++|++|.+.|+.||..||++||++||
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            4455555555555555555555555555555555555555555555544

>PF13041 PPR_2: PPR repeat family

Probab=99.49  E-value=4.2e-14  Score=96.97  Aligned_cols=50  Identities=18%  Similarity=0.276  Sum_probs=49.0

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHH
Q 013497           99 PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCE  149 (442)
Q Consensus        99 p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~  149 (442)
                      ||++|||++|++|++.|++++|.++|++|. +.|+.||..||++||++|||
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~-~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMK-KRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHH-HcCCCCCHHHHHHHHHHHcC
Confidence            899999999999999999999999999999 99999999999999999986

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.46  E-value=2.7e-11  Score=120.58  Aligned_cols=266  Identities=11%  Similarity=0.072  Sum_probs=192.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC---HHHHHHHH
Q 013497           32 SCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN---EASVTSVA  108 (442)
Q Consensus        32 ~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~---~~ty~~li  108 (442)
                      .+...|++++|+..|.++.+.+ +.+..++..+..++...+        ++++|.++++.+...+..++   ..++..+.
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g--------~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La  114 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRG--------EVDRAIRIHQNLLSRPDLTREQRLLALQELG  114 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcC--------cHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence            3567789999999999998764 235567888877888888        89999999999987643332   35788999


Q ss_pred             HHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHh
Q 013497          109 RLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQ----QEIAALLKVSAE  184 (442)
Q Consensus       109 ~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~----~ty~~li~~~~~  184 (442)
                      ..|.+.|++++|..+|+++. +. -.++..+++.++..|.+.|++++|.++++.+...+-.+..    ..|..+...+.+
T Consensus       115 ~~~~~~g~~~~A~~~~~~~l-~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~  192 (389)
T PRK11788        115 QDYLKAGLLDRAEELFLQLV-DE-GDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALA  192 (389)
T ss_pred             HHHHHCCCHHHHHHHHHHHH-cC-CcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHh
Confidence            99999999999999999998 53 2346788999999999999999999999999876543322    245677788889


Q ss_pred             cCCHHHHHHHHHHHHhccCCCC-hHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCccccccceEEeeeccCC
Q 013497          185 TGRVEKVYQYLQKLRSTVRCVN-EETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDE  263 (442)
Q Consensus       185 ~g~~~~a~~ll~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~~~~~~  263 (442)
                      .|+.++|..+|+++.+..  |+ ...+..+...+  ...|...-....++++.....                       
T Consensus       193 ~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~~--~~~g~~~~A~~~~~~~~~~~p-----------------------  245 (389)
T PRK11788        193 RGDLDAARALLKKALAAD--PQCVRASILLGDLA--LAQGDYAAAIEALERVEEQDP-----------------------  245 (389)
T ss_pred             CCCHHHHHHHHHHHHhHC--cCCHHHHHHHHHHH--HHCCCHHHHHHHHHHHHHHCh-----------------------
Confidence            999999999999987653  43 44556666777  555444444455555554311                       


Q ss_pred             CCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcCCcceEEeccchhccccccCCCCcChhhH
Q 013497          264 SGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFSVPQL  343 (442)
Q Consensus       264 ~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~~~d~vIdg~Nv~~~~~~~~~~~~~~~~~  343 (442)
                                       ......+..+...|+..|+.++|...|+++++..+.....   .+++.....  .|  .++++
T Consensus       246 -----------------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~---~~la~~~~~--~g--~~~~A  301 (389)
T PRK11788        246 -----------------EYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLL---LALAQLLEE--QE--GPEAA  301 (389)
T ss_pred             -----------------hhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHH---HHHHHHHHH--hC--CHHHH
Confidence                             0023456777888999999999999999998876644332   333322111  12  47788


Q ss_pred             HHHHHHHHHhcCCCcc
Q 013497          344 DAVVKKLYERSGNKWP  359 (442)
Q Consensus       344 ~~vv~~l~~~~~~~~~  359 (442)
                      ..+++...+..+....
T Consensus       302 ~~~l~~~l~~~P~~~~  317 (389)
T PRK11788        302 QALLREQLRRHPSLRG  317 (389)
T ss_pred             HHHHHHHHHhCcCHHH
Confidence            8888777666664443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.37  E-value=2.7e-11  Score=114.71  Aligned_cols=165  Identities=19%  Similarity=0.240  Sum_probs=137.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHH
Q 013497           23 ETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEA  102 (442)
Q Consensus        23 ~~~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~  102 (442)
                      +.||.+||.+.||--..+.|.++|++..+...+.+..+||.+|.+-+-.            ...++..+|....+.||..
T Consensus       207 ~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~------------~~K~Lv~EMisqkm~Pnl~  274 (625)
T KOG4422|consen  207 DETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS------------VGKKLVAEMISQKMTPNLF  274 (625)
T ss_pred             chhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh------------ccHHHHHHHHHhhcCCchH
Confidence            4499999999999999999999999999988899999999999854433            2489999999999999999


Q ss_pred             HHHHHHHHHHhcCCHHH----HHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHH-HHHHHHHHH----HCCCCC---
Q 013497          103 SVTSVARLAASKNDGDY----AFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEK-AYEVEEHMG----LMGLSL---  170 (442)
Q Consensus       103 ty~~li~~~~~~g~~~~----A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~-A~~l~~~M~----~~g~~p---  170 (442)
                      |||+++.+.++.|+++.    |++++.||+ +-|+.|.+.+|..+|.-+++.++..+ |..+..++.    .+.++|   
T Consensus       275 TfNalL~c~akfg~F~~ar~aalqil~EmK-eiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p  353 (625)
T KOG4422|consen  275 TFNALLSCAAKFGKFEDARKAALQILGEMK-EIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITP  353 (625)
T ss_pred             hHHHHHHHHHHhcchHHHHHHHHHHHHHHH-HhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCC
Confidence            99999999999998764    678899999 99999999999999999999998754 444444443    333443   


Q ss_pred             -CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          171 -EQQEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       171 -~~~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                       |...|.+-+..|....+.+.|+++..-+..
T Consensus       354 ~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~t  384 (625)
T KOG4422|consen  354 TDNKFFQSAMSICSSLRDLELAYQVHGLLKT  384 (625)
T ss_pred             chhHHHHHHHHHHHHhhhHHHHHHHHHHHHc
Confidence             456677888888888888888887766543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.29  E-value=1.4e-09  Score=103.23  Aligned_cols=190  Identities=15%  Similarity=0.091  Sum_probs=150.2

Q ss_pred             CCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHhcCC--------------------CCCC
Q 013497           21 NPET--NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLY-LCSDSAT--------------------DPSS   77 (442)
Q Consensus        21 ~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~-~~~~~~~--------------------~~~~   77 (442)
                      .|+.  +=|.|+.... .|.+..+.-+|+.|++.|+..+...=-.|+. .|..+..                    +..-
T Consensus       112 ~~~~V~~E~nL~kmIS-~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sW  190 (625)
T KOG4422|consen  112 DPLQVETENNLLKMIS-SREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSW  190 (625)
T ss_pred             CchhhcchhHHHHHHh-hcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccc
Confidence            3554  7777877665 6789999999999999999888888888877 3333220                    1112


Q ss_pred             chhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHH
Q 013497           78 KDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAY  157 (442)
Q Consensus        78 ~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~  157 (442)
                      +.|.+.+   ++-+.    .+-+..||.+||.|+|+--..+.|.+++++-. ....+.+..+||.+|.+-.-.    ...
T Consensus       191 K~G~vAd---L~~E~----~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~-~~k~kv~~~aFN~lI~~~S~~----~~K  258 (625)
T KOG4422|consen  191 KSGAVAD---LLFET----LPKTDETVSIMIAGLCKFSSLERARELYKEHR-AAKGKVYREAFNGLIGASSYS----VGK  258 (625)
T ss_pred             ccccHHH---HHHhh----cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHH-HhhheeeHHhhhhhhhHHHhh----ccH
Confidence            3344422   33222    23456799999999999999999999999998 777788999999999775432    237


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH----HHHHHHHHHhccCCCChHHHHHHHHHhccccCCCc
Q 013497          158 EVEEHMGLMGLSLEQQEIAALLKVSAETGRVEK----VYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGV  225 (442)
Q Consensus       158 ~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~----a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~  225 (442)
                      ++..+|....+.||..|||+++.+..+.|+++.    |.+++.+|++-|+.|+-.+|..||.-|  ++.++.
T Consensus       259 ~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f--~re~dp  328 (625)
T KOG4422|consen  259 KLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNF--KRESDP  328 (625)
T ss_pred             HHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHh--cccCCc
Confidence            899999999999999999999999999998765    568899999999999999999999999  776554

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

Probab=99.23  E-value=4.6e-09  Score=114.95  Aligned_cols=267  Identities=8%  Similarity=0.018  Sum_probs=152.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      ++..+...+.+.|+.++|..+|.++.+.+ +.+...+..+...+...+        ++++|.++++.+.... +.+..+|
T Consensus       535 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~A~~~~~~~~~~~-~~~~~~~  604 (899)
T TIGR02917       535 AILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKG--------QLKKALAILNEAADAA-PDSPEAW  604 (899)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCC--------CHHHHHHHHHHHHHcC-CCCHHHH
Confidence            77777777777777777777777776543 234455556666666666        6777777777776543 3456677


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE  184 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~  184 (442)
                      ..+..+|.+.|++++|...|+.+. ... ..+...+..+...|.+.|+.++|..+++.+.... +.+..++..+...+..
T Consensus       605 ~~l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  681 (899)
T TIGR02917       605 LMLGRAQLAAGDLNKAVSSFKKLL-ALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLA  681 (899)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH-HhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHH
Confidence            777777777777777777777776 321 2244566677777777777777777777766542 2245666777777777


Q ss_pred             cCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCccccccceEEeeeccCCC
Q 013497          185 TGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDES  264 (442)
Q Consensus       185 ~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~~~~~~~  264 (442)
                      .|+.++|.++++.+.... ..++..+..+...+  ...|...-....++.++......   ..+         .......
T Consensus       682 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~--~~~g~~~~A~~~~~~~~~~~~~~---~~~---------~~l~~~~  746 (899)
T TIGR02917       682 AKRTESAKKIAKSLQKQH-PKAALGFELEGDLY--LRQKDYPAAIQAYRKALKRAPSS---QNA---------IKLHRAL  746 (899)
T ss_pred             cCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHH--HHCCCHHHHHHHHHHHHhhCCCc---hHH---------HHHHHHH
Confidence            777777777777776553 23444455554544  33322222222233333221100   000         0000000


Q ss_pred             CCCCcCCCccc----ccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcCCcce
Q 013497          265 GKCCSCGDQLA----CVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEA  319 (442)
Q Consensus       265 g~c~~c~~~l~----~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~~~d~  319 (442)
                      ...+...+++.    .+...|.+...+..+...+...|+.++|.+.|+++++..+....
T Consensus       747 ~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~  805 (899)
T TIGR02917       747 LASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAV  805 (899)
T ss_pred             HHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHH
Confidence            00000011111    11223335566666666777889999999999999987654333

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.

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

Probab=99.21  E-value=5.9e-09  Score=114.11  Aligned_cols=178  Identities=11%  Similarity=0.043  Sum_probs=125.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+...|.+.|++++|+..|+++.+.. +.+...+..+..++...+        ++++|..+|+.+.+.. +.+..++
T Consensus       603 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~A~~~~~~~~~~~-~~~~~~~  672 (899)
T TIGR02917       603 AWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMK--------NYAKAITSLKRALELK-PDNTEAQ  672 (899)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcC--------CHHHHHHHHHHHHhcC-CCCHHHH
Confidence            88888888999999999999998887653 234566666666776666        7888888888776643 3356777


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE  184 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~  184 (442)
                      ..+...+...|++++|..+++.+. ... .++...+..+...+.+.|++++|.+.|+.+...+  |+..++..+..++.+
T Consensus       673 ~~l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~  748 (899)
T TIGR02917       673 IGLAQLLLAAKRTESAKKIAKSLQ-KQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLA  748 (899)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH-hhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHH
Confidence            778888888888888888887777 433 3455667777777777777887777777776653  444566667777777


Q ss_pred             cCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          185 TGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       185 ~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      .|+.++|.+.+.++.... ..++..+..+...|
T Consensus       749 ~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~  780 (899)
T TIGR02917       749 SGNTAEAVKTLEAWLKTH-PNDAVLRTALAELY  780 (899)
T ss_pred             CCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            777777777777766542 23444555555555

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.

>PF12854 PPR_1: PPR repeat

Probab=99.05  E-value=2.5e-10  Score=70.83  Aligned_cols=33  Identities=18%  Similarity=0.201  Sum_probs=21.8

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhH
Q 013497           96 NVIPNEASVTSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus        96 g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      |+.||++|||+||++||+.|++++|.++|++|+
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            566666666666666666666666666666663

>PF12854 PPR_1: PPR repeat

Probab=98.97  E-value=5.1e-10  Score=69.45  Aligned_cols=33  Identities=21%  Similarity=0.467  Sum_probs=24.8

Q ss_pred             CCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Q 013497          132 NVVPRLRTYDPALFCFCENLEAEKAYEVEEHMG  164 (442)
Q Consensus       132 g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~  164 (442)
                      |+.||.+|||+||++||+.|++++|.++|++|+
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            677777777777777777777777777777763

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

Probab=98.88  E-value=8.3e-09  Score=105.82  Aligned_cols=191  Identities=10%  Similarity=0.036  Sum_probs=134.2

Q ss_pred             ccccCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCC------------------------CCCCHHHHHHHHHHH
Q 013497           14 KKRKTNPNPET-NFLINLQSCTKSKDLTTAISLYESAHSQN------------------------LRLSLHHFNALLYLC   68 (442)
Q Consensus        14 ~~~~~~~~p~~-~~~~li~~~~k~g~~~~A~~lf~~m~~~g------------------------~~p~~~ty~~ll~~~   68 (442)
                      .++..|..|+. ||..+|..||..|+++.|- +|.-|+-..                        -.|.+.||+.|+.+|
T Consensus        15 ~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~Ll~ay   93 (1088)
T KOG4318|consen   15 LHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNLLKAY   93 (1088)
T ss_pred             HHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHHHHHH
Confidence            35678899999 9999999999999999998 777665221                        136778888888888


Q ss_pred             HhcCCCCCCchhhHHHHHHHHHHHH----hCCC-----------------CCCHHHHHHHHHHHHhcCCHHHHHHHH---
Q 013497           69 SDSATDPSSKDSALRHGFRVFDQML----SNNV-----------------IPNEASVTSVARLAASKNDGDYAFVLI---  124 (442)
Q Consensus        69 ~~~~~~~~~~~~~~~~a~~l~~~M~----~~g~-----------------~p~~~ty~~li~~~~~~g~~~~A~~~~---  124 (442)
                      ...|.-.     .++...+.++...    ..|+                 -||..   ++|....-.|.++.+++++   
T Consensus        94 r~hGDli-----~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---n~illlv~eglwaqllkll~~~  165 (1088)
T KOG4318|consen   94 RIHGDLI-----LFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---NAILLLVLEGLWAQLLKLLAKV  165 (1088)
T ss_pred             HhccchH-----HHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---HHHHHHHHHHHHHHHHHHHhhC
Confidence            8886100     2333333222221    1222                 13322   2222333333333333333   


Q ss_pred             ---------------------------HHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 013497          125 ---------------------------KRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAA  177 (442)
Q Consensus       125 ---------------------------~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~  177 (442)
                                                 ...++-.+ .|+..+|.+++.+-..+|+++.|..++.+|.+.|+..+..-|..
T Consensus       166 Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e-~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwp  244 (1088)
T KOG4318|consen  166 PVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVE-APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWP  244 (1088)
T ss_pred             CcccccchHHHHHHHhccCCchHHHHHHHHHHhhc-CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchh
Confidence                                       22221122 58999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHH-HHHHh
Q 013497          178 LLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKI-IEDWF  217 (442)
Q Consensus       178 li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~-li~~~  217 (442)
                      ||-+   .++..-+..++.-|+..|+.|+..|+.. ++..+
T Consensus       245 Ll~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l  282 (1088)
T KOG4318|consen  245 LLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQL  282 (1088)
T ss_pred             hhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhh
Confidence            9887   8888889999999999999999999864 34433

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.77  E-value=2.4e-06  Score=90.66  Aligned_cols=177  Identities=8%  Similarity=-0.041  Sum_probs=107.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLS-LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEAS  103 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~-~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~t  103 (442)
                      .+..+.-+....|++++|+..|+++.+.  .|+ ...+..+-.++...|        ++++|.+.|++..+.. +.+...
T Consensus        78 ~l~~l~~~~l~~g~~~~A~~~l~~~l~~--~P~~~~a~~~la~~l~~~g--------~~~~Ai~~l~~Al~l~-P~~~~a  146 (656)
T PRK15174         78 LLRRWVISPLASSQPDAVLQVVNKLLAV--NVCQPEDVLLVASVLLKSK--------QYATVADLAEQAWLAF-SGNSQI  146 (656)
T ss_pred             HHHHHhhhHhhcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHhC-CCcHHH
Confidence            4444445555678888888888887654  233 334444444666666        7777888887776542 224566


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          104 VTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       104 y~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      +..+...+...|+.++|...++.+. ..  .|+.......+..+.+.|++++|..+++.+....-.++...+..+...+.
T Consensus       147 ~~~la~~l~~~g~~~eA~~~~~~~~-~~--~P~~~~a~~~~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~  223 (656)
T PRK15174        147 FALHLRTLVLMDKELQAISLARTQA-QE--VPPRGDMIATCLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLC  223 (656)
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHH
Confidence            7777777788888888887777765 32  33332222223346677778888777777765543334444555566677


Q ss_pred             hcCCHHHHHHHHHHHHhccCCCC-hHHHHHHHHHh
Q 013497          184 ETGRVEKVYQYLQKLRSTVRCVN-EETGKIIEDWF  217 (442)
Q Consensus       184 ~~g~~~~a~~ll~~m~~~~~~p~-~~t~~~li~~~  217 (442)
                      +.|+.++|...+++.....  |+ ...+..+-..+
T Consensus       224 ~~g~~~eA~~~~~~al~~~--p~~~~~~~~Lg~~l  256 (656)
T PRK15174        224 AVGKYQEAIQTGESALARG--LDGAALRRSLGLAY  256 (656)
T ss_pred             HCCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHH
Confidence            7777777777777776542  33 33444444444

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=98.77  E-value=6.1e-06  Score=87.66  Aligned_cols=162  Identities=14%  Similarity=0.011  Sum_probs=76.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRL-SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEAS  103 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p-~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~t  103 (442)
                      .+..+-..+.+.|+.++|+..|+++.+.  .| +...+..+..++...|        ++++|...++.+......+.. .
T Consensus       112 a~~~la~~l~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g--------~~~eA~~~~~~~~~~~P~~~~-a  180 (656)
T PRK15174        112 DVLLVASVLLKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMD--------KELQAISLARTQAQEVPPRGD-M  180 (656)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCC--------ChHHHHHHHHHHHHhCCCCHH-H
Confidence            4444455555555666666555555432  22 2334444444555555        555555555555443322222 2


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          104 VTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       104 y~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      +..+ ..+...|++++|..+++.+. ...-.++...+..+...+.+.|+.++|...++...... ..+...+..+-..+.
T Consensus       181 ~~~~-~~l~~~g~~~eA~~~~~~~l-~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~  257 (656)
T PRK15174        181 IATC-LSFLNKSRLPEDHDLARALL-PFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYY  257 (656)
T ss_pred             HHHH-HHHHHcCCHHHHHHHHHHHH-hcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            2122 22455555566655555554 22111222333334455555555666655555555432 113444445555555


Q ss_pred             hcCCHHH----HHHHHHHHHh
Q 013497          184 ETGRVEK----VYQYLQKLRS  200 (442)
Q Consensus       184 ~~g~~~~----a~~ll~~m~~  200 (442)
                      ..|+.++    |...|++...
T Consensus       258 ~~G~~~eA~~~A~~~~~~Al~  278 (656)
T PRK15174        258 QSGRSREAKLQAAEHWRHALQ  278 (656)
T ss_pred             HcCCchhhHHHHHHHHHHHHh
Confidence            5555553    4555555543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.73  E-value=1.1e-05  Score=73.08  Aligned_cols=180  Identities=14%  Similarity=0.081  Sum_probs=140.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+..+...+.+.|++++|.+.|+++.+.. +.+...+..+-.++...+        ++++|.+.|++..+... .+...+
T Consensus        33 ~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~--------~~~~A~~~~~~al~~~~-~~~~~~  102 (234)
T TIGR02521        33 IRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLG--------ELEKAEDSFRRALTLNP-NNGDVL  102 (234)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHhhCC-CCHHHH
Confidence            78888899999999999999999987653 234566666666787777        89999999999887653 356778


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      ..+...+...|++++|.+.+++.. .....| ....+..+...+...|+.++|...+++.....- .+...+..+...+.
T Consensus       103 ~~~~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~  180 (234)
T TIGR02521       103 NNYGTFLCQQGKYEQAMQQFEQAI-EDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDP-QRPESLLELAELYY  180 (234)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHH-hccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CChHHHHHHHHHHH
Confidence            888999999999999999999988 432222 345677778889999999999999999876532 24567888889999


Q ss_pred             hcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          184 ETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       184 ~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      ..|+.++|...+++.... ...++..+..+...+
T Consensus       181 ~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~  213 (234)
T TIGR02521       181 LRGQYKDARAYLERYQQT-YNQTAESLWLGIRIA  213 (234)
T ss_pred             HcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHH
Confidence            999999999999998876 233444544444444

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.

>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=98.60  E-value=1.2e-05  Score=85.12  Aligned_cols=161  Identities=6%  Similarity=-0.103  Sum_probs=90.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLS-LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEAS  103 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~-~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~t  103 (442)
                      .|+.+-..+...|++++|+..|++..+.  .|+ ..+|..+-..+...+        ++++|...|+...+.. +-+..+
T Consensus       333 a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g--------~~~eA~~~~~~al~~~-p~~~~~  401 (615)
T TIGR00990       333 ALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELG--------DPDKAEEDFDKALKLN-SEDPDI  401 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHHhC-CCCHHH
Confidence            4555555555666666666666665543  232 234444444444444        6666666666655442 224556


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 013497          104 VTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVS  182 (442)
Q Consensus       104 y~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~  182 (442)
                      |..+...+...|++++|...|++.. ..  .|+ ...+..+-..+.+.|+.++|...|+...... +-+...|+.+-..+
T Consensus       402 ~~~lg~~~~~~g~~~~A~~~~~kal-~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~  477 (615)
T TIGR00990       402 YYHRAQLHFIKGEFAQAGKDYQKSI-DL--DPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELL  477 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH-Hc--CccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            6666666666666666666666655 22  332 3445555556666666666666666655431 22345566666666


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 013497          183 AETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       183 ~~~g~~~~a~~ll~~m~~  200 (442)
                      ...|++++|.+.|++...
T Consensus       478 ~~~g~~~~A~~~~~~Al~  495 (615)
T TIGR00990       478 LDQNKFDEAIEKFDTAIE  495 (615)
T ss_pred             HHccCHHHHHHHHHHHHh
Confidence            666666666666666544

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

Probab=98.57  E-value=3.7e-07  Score=86.67  Aligned_cols=157  Identities=15%  Similarity=0.132  Sum_probs=24.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 013497           31 QSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLY-LCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVAR  109 (442)
Q Consensus        31 ~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~-~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~  109 (442)
                      ..+.+.|++++|++++++.....-.|+...|-.++. ++...+        ..+.|.+.|+++...+.. +...+..++.
T Consensus        16 ~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~--------~~~~A~~ay~~l~~~~~~-~~~~~~~l~~   86 (280)
T PF13429_consen   16 RLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLG--------DYDEAIEAYEKLLASDKA-NPQDYERLIQ   86 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccc--------cccccccccccccccccc-cccccccccc
Confidence            334455555555555544333222233333333333 333333        455555555555443322 3333444444


Q ss_pred             HHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCH
Q 013497          110 LAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLM-GLSLEQQEIAALLKVSAETGRV  188 (442)
Q Consensus       110 ~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~-g~~p~~~ty~~li~~~~~~g~~  188 (442)
                      . ...+++++|.+++++.- +.  .++...+..++..+.+.++++++.++++..... ...++...|..+...+.+.|+.
T Consensus        87 l-~~~~~~~~A~~~~~~~~-~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~  162 (280)
T PF13429_consen   87 L-LQDGDPEEALKLAEKAY-ER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDP  162 (280)
T ss_dssp             -----------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHH
T ss_pred             c-ccccccccccccccccc-cc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCH
Confidence            4 34555555555554433 11  233444444555555555555555555554432 1223444444444555555555


Q ss_pred             HHHHHHHHHHHh
Q 013497          189 EKVYQYLQKLRS  200 (442)
Q Consensus       189 ~~a~~ll~~m~~  200 (442)
                      ++|.+++++..+
T Consensus       163 ~~A~~~~~~al~  174 (280)
T PF13429_consen  163 DKALRDYRKALE  174 (280)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555555554443

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=98.52  E-value=2.6e-05  Score=70.63  Aligned_cols=164  Identities=13%  Similarity=0.086  Sum_probs=131.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC-CCHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI-PNEAS  103 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~-p~~~t  103 (442)
                      .+..+...+...|++++|.+.|++..+..- .+...+..+-..+...+        ++++|.+.|+........ .....
T Consensus        67 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~~~~~~~~g--------~~~~A~~~~~~~~~~~~~~~~~~~  137 (234)
T TIGR02521        67 AYLALALYYQQLGELEKAEDSFRRALTLNP-NNGDVLNNYGTFLCQQG--------KYEQAMQQFEQAIEDPLYPQPARS  137 (234)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcc--------cHHHHHHHHHHHHhccccccchHH
Confidence            788888999999999999999999886542 34456666666777777        899999999998865322 23456


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          104 VTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       104 y~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      +..+...+...|++++|...+.+.. ... ..+...+..+...+...|+.++|.+.+++.... ...+...+..+...+.
T Consensus       138 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~  214 (234)
T TIGR02521       138 LENAGLCALKAGDFDKAEKYLTRAL-QID-PQRPESLLELAELYYLRGQYKDARAYLERYQQT-YNQTAESLWLGIRIAR  214 (234)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH-HhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHH
Confidence            7778889999999999999999987 431 224567888899999999999999999998876 3446677778888888


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 013497          184 ETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       184 ~~g~~~~a~~ll~~m~~  200 (442)
                      ..|+.++|..+.+.+..
T Consensus       215 ~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       215 ALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHhhHHHHHHHHHHHHh
Confidence            99999999998887754

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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.43  E-value=4.4e-07  Score=56.44  Aligned_cols=33  Identities=24%  Similarity=0.344  Sum_probs=20.8

Q ss_pred             cHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC
Q 013497          139 TYDPALFCFCENLEAEKAYEVEEHMGLMGLSLE  171 (442)
Q Consensus       139 ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~  171 (442)
                      |||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            566666666666666666666666666666665

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.

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

Probab=98.42  E-value=4.6e-06  Score=65.56  Aligned_cols=90  Identities=21%  Similarity=0.327  Sum_probs=79.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNL-RLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEAS  103 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~-~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~t  103 (442)
                      |=...|..|...+++.....+|..+++.|+ .|++.+|+.+|..-.+..+++..-+.++-..+.+|++|...+++|+..|
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            345567778888999999999999999999 9999999999997666667777777788899999999999999999999


Q ss_pred             HHHHHHHHHhc
Q 013497          104 VTSVARLAASK  114 (442)
Q Consensus       104 y~~li~~~~~~  114 (442)
                      |+++|..+.+.
T Consensus       107 Ynivl~~Llkg  117 (120)
T PF08579_consen  107 YNIVLGSLLKG  117 (120)
T ss_pred             HHHHHHHHHHh
Confidence            99999988763

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 [, , ].

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.38  E-value=5.9e-07  Score=55.82  Aligned_cols=34  Identities=9%  Similarity=0.239  Sum_probs=32.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSL   58 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~   58 (442)
                      +||++|.+|++.|++++|.++|++|.+.|++||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            7999999999999999999999999999999983

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.

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

Probab=98.34  E-value=3.7e-06  Score=86.94  Aligned_cols=161  Identities=10%  Similarity=0.043  Sum_probs=100.0

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCC------------------------CCC
Q 013497           44 SLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNN------------------------VIP   99 (442)
Q Consensus        44 ~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g------------------------~~p   99 (442)
                      .++..|...|+.||.+||.+||.-|+..|        .++.|- +|..|+-+.                        -.|
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~g--------dieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep   81 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKG--------DIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEP   81 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccC--------CCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCC
Confidence            46778899999999999999999544444        333333 444443322                        136


Q ss_pred             CHHHHHHHHHHHHhcCCHHH---HHHHHHHhH---hhCC-----------------CCCCcccHHHHHHHHHHcCCHHHH
Q 013497          100 NEASVTSVARLAASKNDGDY---AFVLIKRMN---NEFN-----------------VVPRLRTYDPALFCFCENLEAEKA  156 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~---A~~~~~~m~---~~~g-----------------~~p~~~ty~~li~~~~~~g~~~~A  156 (442)
                      -.-||+.|..+|..+|++..   +.+.+....   +..|                 ..||..   .+|.-....|.++.+
T Consensus        82 ~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---n~illlv~eglwaql  158 (1088)
T KOG4318|consen   82 LADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---NAILLLVLEGLWAQL  158 (1088)
T ss_pred             chhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---HHHHHHHHHHHHHHH
Confidence            67788999999999988654   222121111   0111                 123322   122222223333333


Q ss_pred             HHHH----------------HH-------------HHHCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC
Q 013497          157 YEVE----------------EH-------------MGLMGL-SLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVN  206 (442)
Q Consensus       157 ~~l~----------------~~-------------M~~~g~-~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~  206 (442)
                      .++.                ++             |...+. .|+..+|.+++++-..+|+.+-|..++.+|++.|+..+
T Consensus       159 lkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir  238 (1088)
T KOG4318|consen  159 LKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIR  238 (1088)
T ss_pred             HHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcc
Confidence            3222                11             112222 58999999999999999999999999999999999998


Q ss_pred             hHHHHHHHHH
Q 013497          207 EETGKIIEDW  216 (442)
Q Consensus       207 ~~t~~~li~~  216 (442)
                      +.-|-.|+-+
T Consensus       239 ~HyFwpLl~g  248 (1088)
T KOG4318|consen  239 AHYFWPLLLG  248 (1088)
T ss_pred             cccchhhhhc
Confidence            8766555544

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

Probab=98.32  E-value=1.4e-05  Score=75.90  Aligned_cols=183  Identities=14%  Similarity=0.066  Sum_probs=90.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCC-CCCCHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNN-VIPNEAS  103 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g-~~p~~~t  103 (442)
                      .+..++.. ...+++++|.+++.+.-+..  ++...+..++..+...+        ..+++.++++...... .+++...
T Consensus        80 ~~~~l~~l-~~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~--------~~~~~~~~l~~~~~~~~~~~~~~~  148 (280)
T PF13429_consen   80 DYERLIQL-LQDGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLG--------DYDEAEELLEKLEELPAAPDSARF  148 (280)
T ss_dssp             -----------------------------------------H-HHHTT---------HHHHHHHHHHHHH-T---T-HHH
T ss_pred             cccccccc-cccccccccccccccccccc--cccchhhHHHHHHHHHh--------HHHHHHHHHHHHHhccCCCCCHHH
Confidence            55555555 57777888877776654432  45556666777666666        7777777777765432 3456677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 013497          104 VTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVS  182 (442)
Q Consensus       104 y~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~  182 (442)
                      |..+...+.+.|+.++|++.+++.. +.  .|+ ....+.++..+...|+.+++.++++...... ..|...+..+..+|
T Consensus       149 ~~~~a~~~~~~G~~~~A~~~~~~al-~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~  224 (280)
T PF13429_consen  149 WLALAEIYEQLGDPDKALRDYRKAL-EL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAY  224 (280)
T ss_dssp             HHHHHHHHHHCCHHHHHHHHHHHHH-HH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH-Hc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHh
Confidence            7777777788888888888887776 32  454 5567777777777788877777777765543 33445667777777


Q ss_pred             HhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCc
Q 013497          183 AETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGV  225 (442)
Q Consensus       183 ~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~  225 (442)
                      ...|+.++|..+|++.... .+-|+.+...+.+.+  ...|..
T Consensus       225 ~~lg~~~~Al~~~~~~~~~-~p~d~~~~~~~a~~l--~~~g~~  264 (280)
T PF13429_consen  225 LQLGRYEEALEYLEKALKL-NPDDPLWLLAYADAL--EQAGRK  264 (280)
T ss_dssp             HHHT-HHHHHHHHHHHHHH-STT-HHHHHHHHHHH--T-----
T ss_pred             ccccccccccccccccccc-ccccccccccccccc--cccccc
Confidence            7788888888888776653 123555556666666  444433

>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=98.31  E-value=0.00038  Score=73.71  Aligned_cols=166  Identities=10%  Similarity=-0.046  Sum_probs=130.0

Q ss_pred             cCCHHHHHHHHHHHHhCC-CCCC-HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHH
Q 013497           36 SKDLTTAISLYESAHSQN-LRLS-LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN-EASVTSVARLAA  112 (442)
Q Consensus        36 ~g~~~~A~~lf~~m~~~g-~~p~-~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~-~~ty~~li~~~~  112 (442)
                      .+++++|.+.|++..+.+ ..|+ ...|+.+-.++...|        ++++|...|+...+.  .|+ ..+|..+...+.
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g--------~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~  376 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKG--------KHLEALADLSKSIEL--DPRVTQSYIKRASMNL  376 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHH
Confidence            467999999999988765 3443 344555544666666        899999999998765  344 568888899999


Q ss_pred             hcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 013497          113 SKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKV  191 (442)
Q Consensus       113 ~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a  191 (442)
                      ..|++++|...|++.. ..  .| +...|..+-..|...|++++|...|+...... +.+...+..+...+.+.|++++|
T Consensus       377 ~~g~~~eA~~~~~~al-~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA  452 (615)
T TIGR00990       377 ELGDPDKAEEDFDKAL-KL--NSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASS  452 (615)
T ss_pred             HCCCHHHHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHH
Confidence            9999999999999987 43  34 46788889999999999999999999988753 22456677788889999999999


Q ss_pred             HHHHHHHHhccCCCC-hHHHHHHHHHh
Q 013497          192 YQYLQKLRSTVRCVN-EETGKIIEDWF  217 (442)
Q Consensus       192 ~~ll~~m~~~~~~p~-~~t~~~li~~~  217 (442)
                      ...|++....  .|+ +..+..+-..+
T Consensus       453 ~~~~~~al~~--~P~~~~~~~~lg~~~  477 (615)
T TIGR00990       453 MATFRRCKKN--FPEAPDVYNYYGELL  477 (615)
T ss_pred             HHHHHHHHHh--CCCChHHHHHHHHHH
Confidence            9999998764  344 55666666666

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.28  E-value=1.3e-06  Score=54.00  Aligned_cols=32  Identities=19%  Similarity=0.263  Sum_probs=13.8

Q ss_pred             cHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 013497          139 TYDPALFCFCENLEAEKAYEVEEHMGLMGLSL  170 (442)
Q Consensus       139 ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p  170 (442)
                      |||.+|.+|++.|+++.|+++|++|.+.|++|
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            34444444444444444444444444444433

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.23  E-value=1.5e-06  Score=53.72  Aligned_cols=33  Identities=30%  Similarity=0.390  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP  135 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p  135 (442)
                      .|||++|++|++.|+++.|.++|++|+ +.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~-~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMK-EQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHH-HhCCCC
Confidence            689999999999999999999999999 899988

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.21  E-value=0.00047  Score=75.95  Aligned_cols=173  Identities=8%  Similarity=-0.060  Sum_probs=117.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+-.++.. ++..+|+..|.+....  .|+......+...+...+        ++++|...|+.+...  .|+...+
T Consensus       479 a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~G--------r~eeAi~~~rka~~~--~p~~~a~  545 (987)
T PRK09782        479 AWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVE--------DYATALAAWQKISLH--DMSNEDL  545 (987)
T ss_pred             HHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCC--------CHHHHHHHHHHHhcc--CCCcHHH
Confidence            55555555555 7888899988776644  366443222222444566        899999999987543  3444556


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc-ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL-RTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~-~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      ..+...+.+.|+.++|...++... ..  .|+. ..+..+.....+.|+.++|...+++..+.  .|+...|..+-..+.
T Consensus       546 ~~la~all~~Gd~~eA~~~l~qAL-~l--~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~  620 (987)
T PRK09782        546 LAAANTAQAAGNGAARDRWLQQAE-QR--GLGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYR  620 (987)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHH-hc--CCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHH
Confidence            677778888999999999998887 43  3433 22222223334559999999999888764  467788888888899


Q ss_pred             hcCCHHHHHHHHHHHHhccCCCChH-HHHHHHHHh
Q 013497          184 ETGRVEKVYQYLQKLRSTVRCVNEE-TGKIIEDWF  217 (442)
Q Consensus       184 ~~g~~~~a~~ll~~m~~~~~~p~~~-t~~~li~~~  217 (442)
                      +.|+.++|...|++....  .|+.. .+..+-..+
T Consensus       621 ~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL  653 (987)
T PRK09782        621 QRHNVPAAVSDLRAALEL--EPNNSNYQAALGYAL  653 (987)
T ss_pred             HCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            999999999999887765  46544 334444444

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

Probab=98.14  E-value=2.9e-06  Score=51.15  Aligned_cols=29  Identities=31%  Similarity=0.450  Sum_probs=14.4

Q ss_pred             cHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 013497          139 TYDPALFCFCENLEAEKAYEVEEHMGLMG  167 (442)
Q Consensus       139 ty~~li~~~~~~g~~~~A~~l~~~M~~~g  167 (442)
                      |||++|++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            44555555555555555555555554443

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.

>PRK12370 invasion protein regulator; Provisional

Probab=98.13  E-value=0.00069  Score=70.76  Aligned_cols=167  Identities=8%  Similarity=-0.019  Sum_probs=121.4

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 013497           36 SKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKN  115 (442)
Q Consensus        36 ~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g  115 (442)
                      .++.++|...+++..+.. +-+...+..+-.++...+        ++++|...|++..+... .+...+..+-..|...|
T Consensus       317 ~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g--------~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~l~~~G  386 (553)
T PRK12370        317 QNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHS--------EYIVGSLLFKQANLLSP-ISADIKYYYGWNLFMAG  386 (553)
T ss_pred             chHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcc--------CHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCC
Confidence            355899999999988653 224555655544666677        89999999999887652 34667888889999999


Q ss_pred             CHHHHHHHHHHhHhhCCCCCCcc-cHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 013497          116 DGDYAFVLIKRMNNEFNVVPRLR-TYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQY  194 (442)
Q Consensus       116 ~~~~A~~~~~~m~~~~g~~p~~~-ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~l  194 (442)
                      ++++|...+++.. +  +.|+.. .+..+...+...|+.++|...+++.....-.-+...+..+-.++...|+.++|...
T Consensus       387 ~~~eAi~~~~~Al-~--l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~  463 (553)
T PRK12370        387 QLEEALQTINECL-K--LDPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKL  463 (553)
T ss_pred             CHHHHHHHHHHHH-h--cCCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHH
Confidence            9999999999988 4  356543 33444555777899999999999987653222344567777788899999999999


Q ss_pred             HHHHHhccCCCChHHH-HHHHHHh
Q 013497          195 LQKLRSTVRCVNEETG-KIIEDWF  217 (442)
Q Consensus       195 l~~m~~~~~~p~~~t~-~~li~~~  217 (442)
                      +.++...  .|+..+. +.+...+
T Consensus       464 ~~~~~~~--~~~~~~~~~~l~~~~  485 (553)
T PRK12370        464 TKEISTQ--EITGLIAVNLLYAEY  485 (553)
T ss_pred             HHHhhhc--cchhHHHHHHHHHHH
Confidence            9887544  4444333 3444444

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=98.10  E-value=0.0019  Score=64.59  Aligned_cols=168  Identities=8%  Similarity=0.009  Sum_probs=94.6

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 013497           36 SKDLTTAISLYESAHSQNLRLSLHHFNALLY-LCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASK  114 (442)
Q Consensus        36 ~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~-~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~  114 (442)
                      .|+++.|.+......+..-  ++..+-.+.. +....|        +++.|.+.|.++.+....+...........+...
T Consensus        97 eGd~~~A~k~l~~~~~~~~--~p~l~~llaA~aA~~~g--------~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~  166 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAE--QPVVNYLLAAEAAQQRG--------DEARANQHLERAAELADNDQLPVEITRVRIQLAR  166 (398)
T ss_pred             CCCHHHHHHHHHHHHhccc--chHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHC
Confidence            5788888877776554321  2222222222 334444        6788888888776533222222222335677778


Q ss_pred             CCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHhcC
Q 013497          115 NDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQ-------QEIAALLKVSAETG  186 (442)
Q Consensus       115 g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~-------~ty~~li~~~~~~g  186 (442)
                      |+++.|...+++.. +.  .| +......+...|.+.|++++|.+++..+.+.+..++.       .+|..++.-.....
T Consensus       167 g~~~~Al~~l~~~~-~~--~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~  243 (398)
T PRK10747        167 NENHAARHGVDKLL-EV--APRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQ  243 (398)
T ss_pred             CCHHHHHHHHHHHH-hc--CCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhc
Confidence            88888888888777 43  34 3456777777888888888888888888776554322       13334444443444


Q ss_pred             CHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          187 RVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       187 ~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      +.+...++++.+... ...++.....+...+
T Consensus       244 ~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l  273 (398)
T PRK10747        244 GSEGLKRWWKNQSRK-TRHQVALQVAMAEHL  273 (398)
T ss_pred             CHHHHHHHHHhCCHH-HhCCHHHHHHHHHHH
Confidence            444455554444322 123444555555555

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

Probab=98.08  E-value=6.6e-05  Score=74.17  Aligned_cols=125  Identities=12%  Similarity=0.046  Sum_probs=81.7

Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHh
Q 013497           52 QNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN--NVIPNEASVTSVARLAASKNDGDYAFVLIKRMNN  129 (442)
Q Consensus        52 ~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~--g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~  129 (442)
                      .+.+.+......+++.+....        .++.+..++-..+..  ....-..|..++|+.|.+.|..+.++.++..=. 
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~--------~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~-  130 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKD--------DLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRL-  130 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHh--------HHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChh-
Confidence            344556666666666655555        666777766666543  222223344577777777777777777777766 


Q ss_pred             hCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 013497          130 EFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAET  185 (442)
Q Consensus       130 ~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~  185 (442)
                      ..|+-||..|||.||+.+.+.|++..|.+|..+|..++...+..|+.--+.+|.+.
T Consensus       131 ~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  131 QYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            67777777777777777777777777777777777776666666666555555444

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 [].

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=98.08  E-value=0.00088  Score=73.83  Aligned_cols=151  Identities=12%  Similarity=0.052  Sum_probs=74.8

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 013497           34 TKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAAS  113 (442)
Q Consensus        34 ~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~  113 (442)
                      .+.|++++|...|+++...  .|+...+..+..++...|        ++++|.+.|+...+.. +++...+..+...+.+
T Consensus       520 ~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~G--------d~~eA~~~l~qAL~l~-P~~~~l~~~La~~l~~  588 (987)
T PRK09782        520 YQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAG--------NGAARDRWLQQAEQRG-LGDNALYWWLHAQRYI  588 (987)
T ss_pred             HHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCC--------CHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHh
Confidence            4566666666666665433  233333333333444444        5555666665555443 1122222222223333


Q ss_pred             cCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHH
Q 013497          114 KNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSL-EQQEIAALLKVSAETGRVEKVY  192 (442)
Q Consensus       114 ~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p-~~~ty~~li~~~~~~g~~~~a~  192 (442)
                      .|++++|...+++.. .  +.|+...|..+-..+.+.|+.++|...+++.....  | +...++.+-..+...|+.++|.
T Consensus       589 ~Gr~~eAl~~~~~AL-~--l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~--Pd~~~a~~nLG~aL~~~G~~eeAi  663 (987)
T PRK09782        589 PGQPELALNDLTRSL-N--IAPSANAYVARATIYRQRHNVPAAVSDLRAALELE--PNNSNYQAALGYALWDSGDIAQSR  663 (987)
T ss_pred             CCCHHHHHHHHHHHH-H--hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            456666666655554 2  24455555555555556666666666555555432  2 2334444444555555566655


Q ss_pred             HHHHHHHh
Q 013497          193 QYLQKLRS  200 (442)
Q Consensus       193 ~ll~~m~~  200 (442)
                      .++.+..+
T Consensus       664 ~~l~~AL~  671 (987)
T PRK09782        664 EMLERAHK  671 (987)
T ss_pred             HHHHHHHH
Confidence            55555443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.08  E-value=0.00056  Score=77.74  Aligned_cols=160  Identities=11%  Similarity=0.015  Sum_probs=84.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC------
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI------   98 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~------   98 (442)
                      .+..+-..+.+.|++++|++.|++..+.. +.+...+..+..++...         ..++|..+++.+......      
T Consensus       387 a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~---------~~~~A~~~l~~l~~~~~~~~~~~~  456 (1157)
T PRK11447        387 AVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQ---------SPEKALAFIASLSASQRRSIDDIE  456 (1157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhc---------CHHHHHHHHHhCCHHHHHHHHHHH
Confidence            66777888999999999999999987643 22344555555554332         345555555443211000      


Q ss_pred             --CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 013497           99 --PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEI  175 (442)
Q Consensus        99 --p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty  175 (442)
                        .....+..+...+...|++++|.+.|++.. .  +.|+ ...+..+...|.+.|+.++|..+++......- .+...+
T Consensus       457 ~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al-~--~~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P-~~~~~~  532 (1157)
T PRK11447        457 RSLQNDRLAQQAEALENQGKWAQAAELQRQRL-A--LDPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKP-NDPEQV  532 (1157)
T ss_pred             HHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHH-H--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHH
Confidence              011233445555666666666666666655 2  2343 23444555556666666666666666554221 122222


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHH
Q 013497          176 AALLKVSAETGRVEKVYQYLQKL  198 (442)
Q Consensus       176 ~~li~~~~~~g~~~~a~~ll~~m  198 (442)
                      ..+...+...++.++|...++.+
T Consensus       533 ~a~al~l~~~~~~~~Al~~l~~l  555 (1157)
T PRK11447        533 YAYGLYLSGSDRDRAALAHLNTL  555 (1157)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHhC
Confidence            22223334455555555555443

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=98.06  E-value=0.0012  Score=75.20  Aligned_cols=173  Identities=6%  Similarity=-0.035  Sum_probs=113.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           26 FLINLQSCTKSKDLTTAISLYESAHSQNLRL-SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        26 ~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p-~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      +..+-..+...|+.++|++.|++..+..  | +...+..+-.++...|        ++++|..+|++..+.... +...+
T Consensus       464 ~~~~a~~~~~~g~~~eA~~~~~~Al~~~--P~~~~~~~~LA~~~~~~G--------~~~~A~~~l~~al~~~P~-~~~~~  532 (1157)
T PRK11447        464 LAQQAEALENQGKWAQAAELQRQRLALD--PGSVWLTYRLAQDLRQAG--------QRSQADALMRRLAQQKPN-DPEQV  532 (1157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHcCCC-CHHHH
Confidence            4455667788999999999999988653  4 3445555556777777        899999999998764322 33444


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcc---------cHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLR---------TYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEI  175 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~---------ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty  175 (442)
                      -.+...+.+.++.++|+..++.+. .....++..         .+-.+...+...|+.++|.++++.     .+++...+
T Consensus       533 ~a~al~l~~~~~~~~Al~~l~~l~-~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~  606 (1157)
T PRK11447        533 YAYGLYLSGSDRDRAALAHLNTLP-RAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRID  606 (1157)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHhCC-chhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHH
Confidence            444455677888999988888765 322222211         122345567777888888777762     23344555


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhccCCCC-hHHHHHHHHHh
Q 013497          176 AALLKVSAETGRVEKVYQYLQKLRSTVRCVN-EETGKIIEDWF  217 (442)
Q Consensus       176 ~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~-~~t~~~li~~~  217 (442)
                      ..|-..+.+.|+.++|.+.|++....  .|+ +.....+...+
T Consensus       607 ~~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~  647 (1157)
T PRK11447        607 LTLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVD  647 (1157)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            66777777788888888887777654  333 44555555555

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.05  E-value=0.0016  Score=70.45  Aligned_cols=325  Identities=12%  Similarity=0.048  Sum_probs=176.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCC
Q 013497           22 PETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSL--HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIP   99 (442)
Q Consensus        22 p~~~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~--~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p   99 (442)
                      |+..|...|- ..+.|+++.|+..|.+..+.  .|+.  ..+ .++.++...|        ..++|+.++++... .-..
T Consensus        34 ~~~~y~~aii-~~r~Gd~~~Al~~L~qaL~~--~P~~~~av~-dll~l~~~~G--------~~~~A~~~~eka~~-p~n~  100 (822)
T PRK14574         34 ADTQYDSLII-RARAGDTAPVLDYLQEESKA--GPLQSGQVD-DWLQIAGWAG--------RDQEVIDVYERYQS-SMNI  100 (822)
T ss_pred             hhHHHHHHHH-HHhCCCHHHHHHHHHHHHhh--CccchhhHH-HHHHHHHHcC--------CcHHHHHHHHHhcc-CCCC
Confidence            3345555554 45678888998888887755  3332  233 6666666666        78888888887751 1112


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAAL  178 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~l  178 (442)
                      ......++...|...|++++|+++++++. +.  .|+ ...+..++..|...++.++|++.++.+...  .|+...+..+
T Consensus       101 ~~~~llalA~ly~~~gdyd~Aiely~kaL-~~--dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~l  175 (822)
T PRK14574        101 SSRGLASAARAYRNEKRWDQALALWQSSL-KK--DPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTL  175 (822)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHH-hh--CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHH
Confidence            23333344567777788888888888887 33  333 355567777888888888888888887654  4555555444


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhccCCCC-hHHHHHHHHHhccccCCCcccchhhHH-----------------HHHHhcC
Q 013497          179 LKVSAETGRVEKVYQYLQKLRSTVRCVN-EETGKIIEDWFSGQKVNGVSCDLGLVK-----------------NAVLKNG  240 (442)
Q Consensus       179 i~~~~~~g~~~~a~~ll~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~~~~~~~~~-----------------~a~~~~~  240 (442)
                      +..+...++..+|.+.++++.+.  .|+ +..+.-+....  ...|........++                 .+.+.. 
T Consensus       176 ayL~~~~~~~~~AL~~~ekll~~--~P~n~e~~~~~~~~l--~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~v-  250 (822)
T PRK14574        176 SYLNRATDRNYDALQASSEAVRL--APTSEEVLKNHLEIL--QRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQV-  250 (822)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH--HHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHH-
Confidence            44444455665688888888766  354 33334444444  22211111111111                 111110 


Q ss_pred             CcccCCccccccceEEeeeccCCCCCCCcCCCccccc-------CCCHH---H-HHHHHHHHHHHhHHHHHHhhHHHHHH
Q 013497          241 GGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACV-------DIDDA---E-TERFAQSVAALAMEREVKANFSEFQD  309 (442)
Q Consensus       241 ~~~~~~~~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~-------~l~~~---d-~~~~~~~I~~~~~~g~~~~a~~~F~~  309 (442)
                                  .|....+. .....-.....+|...       .-.|+   . .......+.++...++..++.+.|+.
T Consensus       251 ------------r~a~~~~~-~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~  317 (822)
T PRK14574        251 ------------RMAVLPTR-SETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEA  317 (822)
T ss_pred             ------------hhcccccc-cchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence                        11100000 0000000111111111       11121   1 22233556678888889999999999


Q ss_pred             HHHHcCC-cceEEeccchhccccccCCCCcChhhHHHHHHHHHHhcCC--CccEEE-----ccCccccCCCCChhhHHHH
Q 013497          310 WLEKNAN-YEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGN--KWPLVI-----LHNKRLRSLWENPSHRNLV  381 (442)
Q Consensus       310 m~~~~~~-~d~vIdg~Nv~~~~~~~~~~~~~~~~~~~vv~~l~~~~~~--~~~l~~-----l~~~~~~~~~~~~~~~~~~  381 (442)
                      +...+.+ |+.+....=-+|....      ..+++..+.+.+.+..+.  ..|.-+     |.--++ ..++...++.++
T Consensus       318 l~~~~~~~P~y~~~a~adayl~~~------~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~l-d~e~~~~A~~~l  390 (822)
T PRK14574        318 MEAEGYKMPDYARRWAASAYIDRR------LPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLN-ESEQLDKAYQFA  390 (822)
T ss_pred             hhhcCCCCCHHHHHHHHHHHHhcC------CcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHH-hcccHHHHHHHH
Confidence            9987743 5555444333444433      467888888888654210  011111     111122 244556788999


Q ss_pred             HHHHhcCe
Q 013497          382 EEWNEKGV  389 (442)
Q Consensus       382 ~~~~~~~~  389 (442)
                      +++.+..-
T Consensus       391 ~~~~~~~p  398 (822)
T PRK14574        391 VNYSEQTP  398 (822)
T ss_pred             HHHHhcCC
Confidence            99998433

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

Probab=98.04  E-value=4.5e-06  Score=50.28  Aligned_cols=31  Identities=13%  Similarity=0.082  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCC
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMNNEFNV  133 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~  133 (442)
                      +|||+||++|++.|++++|.++|++|+ +.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~-~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMR-ERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHh-HCcC
Confidence            489999999999999999999999999 7764

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.

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

Probab=97.99  E-value=0.00013  Score=72.11  Aligned_cols=129  Identities=9%  Similarity=-0.020  Sum_probs=109.6

Q ss_pred             HHHHHHh---CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhC--CCCCCcccHHHHHHHHHHcCCHHHHHHHHHH
Q 013497           88 VFDQMLS---NNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEF--NVVPRLRTYDPALFCFCENLEAEKAYEVEEH  162 (442)
Q Consensus        88 l~~~M~~---~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~--g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~  162 (442)
                      ++..|.+   .+.+.+.+...++++.+....+++++..++...+ ..  ....-..|..++|..|.+.|..+++.+++..
T Consensus        50 ~~~~l~~k~~~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R-~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n  128 (429)
T PF10037_consen   50 LYSELDKKFERKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFR-HSPNCSYLLPSTHHALVRQCLELGAEDELLELLKN  128 (429)
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHH-cCcccccccCccHHHHHHHHHhcCCHHHHHHHHhC
Confidence            5555543   4456688899999999999999999999998887 43  2223335667999999999999999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          163 MGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       163 M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      =...|+.||..|||.||+.+.+.|++..|.++..+|.......++.|+..-+..|
T Consensus       129 ~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~  183 (429)
T PF10037_consen  129 RLQYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSC  183 (429)
T ss_pred             hhhcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHH
Confidence            9999999999999999999999999999999999999998888988887666666

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 [].

>PRK12370 invasion protein regulator; Provisional

Probab=97.98  E-value=0.00073  Score=70.54  Aligned_cols=182  Identities=9%  Similarity=-0.010  Sum_probs=124.2

Q ss_pred             CCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCC
Q 013497           20 PNPET--NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNV   97 (442)
Q Consensus        20 ~~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~   97 (442)
                      ..|+.  .+..+-..+...|++++|...|++..+.+ +-+...|..+-.++...|        ++++|...|++..+...
T Consensus       333 ldP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G--------~~~eAi~~~~~Al~l~P  403 (553)
T PRK12370        333 LDHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAG--------QLEEALQTINECLKLDP  403 (553)
T ss_pred             cCCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHhcCC
Confidence            34544  77777777888999999999999988764 223455655555777777        99999999999987654


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc-ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-HHH
Q 013497           98 IPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL-RTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQ-QEI  175 (442)
Q Consensus        98 ~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~-~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~-~ty  175 (442)
                      .+ ...+..+...+...|++++|...+++.. ... .|+. ..+..+-.+|...|+.++|...+..+...  .|+. ...
T Consensus       404 ~~-~~~~~~~~~~~~~~g~~eeA~~~~~~~l-~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~  478 (553)
T PRK12370        404 TR-AAAGITKLWITYYHTGIDDAIRLGDELR-SQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAV  478 (553)
T ss_pred             CC-hhhHHHHHHHHHhccCHHHHHHHHHHHH-Hhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHH
Confidence            42 2233344555777899999999999886 432 3543 34667778888999999999999887544  3343 344


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhc-cCCCChHHHHHHHHHh
Q 013497          176 AALLKVSAETGRVEKVYQYLQKLRST-VRCVNEETGKIIEDWF  217 (442)
Q Consensus       176 ~~li~~~~~~g~~~~a~~ll~~m~~~-~~~p~~~t~~~li~~~  217 (442)
                      +.|...|+..|  ++|...++.+.+. ...+.......++.++
T Consensus       479 ~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~~~~~~~~  519 (553)
T PRK12370        479 NLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGLLPLVLVA  519 (553)
T ss_pred             HHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchHHHHHHHH
Confidence            55555667777  5788877777553 2223333334444444

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=97.96  E-value=0.0057  Score=66.48  Aligned_cols=161  Identities=11%  Similarity=0.035  Sum_probs=126.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      ...-.+......|+.++|++++.+..... ..+...+..+-.++...+        ++++|.++|++..+.. +.+...+
T Consensus        17 ~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g--------~~~~A~~~~~~al~~~-P~~~~a~   86 (765)
T PRK10049         17 QIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLK--------QWQNSLTLWQKALSLE-PQNDDYQ   86 (765)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHhC-CCCHHHH
Confidence            34445556778899999999999987522 345556777777888888        8999999999987653 3356677


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE  184 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~  184 (442)
                      ..+...+...|+.++|...+++.. ..  .|+...+..+-..+...|+.++|...+++..+..-. +...+..+...+..
T Consensus        87 ~~la~~l~~~g~~~eA~~~l~~~l-~~--~P~~~~~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~  162 (765)
T PRK10049         87 RGLILTLADAGQYDEALVKAKQLV-SG--APDKANLLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRN  162 (765)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            888899999999999999999998 43  454333888888999999999999999999876322 44556677888888


Q ss_pred             cCCHHHHHHHHHHHH
Q 013497          185 TGRVEKVYQYLQKLR  199 (442)
Q Consensus       185 ~g~~~~a~~ll~~m~  199 (442)
                      .|..++|...++...
T Consensus       163 ~~~~e~Al~~l~~~~  177 (765)
T PRK10049        163 NRLSAPALGAIDDAN  177 (765)
T ss_pred             CCChHHHHHHHHhCC
Confidence            999999998887554

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.94  E-value=0.0031  Score=64.03  Aligned_cols=248  Identities=12%  Similarity=0.047  Sum_probs=161.0

Q ss_pred             CCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHH----HHHhcCCCCCCchhhHHHHHHHHH
Q 013497           20 PNPET--NFLINLQSCTKSKDLTTAISLYESAHSQ---NLRLSLHHFNALLY----LCSDSATDPSSKDSALRHGFRVFD   90 (442)
Q Consensus        20 ~~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~---g~~p~~~ty~~ll~----~~~~~~~~~~~~~~~~~~a~~l~~   90 (442)
                      ..|..  +...+-..|...|+++.|+.++....+.   +.-.+.....+++.    +|...+        ++++|..+|+
T Consensus       194 ~~P~~~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~--------k~~eAv~ly~  265 (508)
T KOG1840|consen  194 EDPERLRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLG--------KYDEAVNLYE  265 (508)
T ss_pred             CCchHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhc--------cHHHHHHHHH
Confidence            34444  8888999999999999999999986543   11122233333333    566666        8999999999


Q ss_pred             HHHh-----CCCC-CC-HHHHHHHHHHHHhcCCHHHHHHHHHHhHh----hCCC-CCCc-ccHHHHHHHHHHcCCHHHHH
Q 013497           91 QMLS-----NNVI-PN-EASVTSVARLAASKNDGDYAFVLIKRMNN----EFNV-VPRL-RTYDPALFCFCENLEAEKAY  157 (442)
Q Consensus        91 ~M~~-----~g~~-p~-~~ty~~li~~~~~~g~~~~A~~~~~~m~~----~~g~-~p~~-~ty~~li~~~~~~g~~~~A~  157 (442)
                      ++..     .|-. |. ..|++.|-.+|++.|++++|...++...+    ..|. .|.+ .-++.+...|+..+++++|.
T Consensus       266 ~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~  345 (508)
T KOG1840|consen  266 EALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAK  345 (508)
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHH
Confidence            8865     2222 22 46777777889999999998888876541    1121 2222 34677888899999999999


Q ss_pred             HHHHHHHHC---CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhc----cCCCChH---HHHHHHHHhccccCC
Q 013497          158 EVEEHMGLM---GLSLE----QQEIAALLKVSAETGRVEKVYQYLQKLRST----VRCVNEE---TGKIIEDWFSGQKVN  223 (442)
Q Consensus       158 ~l~~~M~~~---g~~p~----~~ty~~li~~~~~~g~~~~a~~ll~~m~~~----~~~p~~~---t~~~li~~~~~~~~~  223 (442)
                      .++....+.   -+.++    ..+|+.|-..|-+.|++++|.+++.+....    +..-+..   .++-|-..|  ....
T Consensus       346 ~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~--~~~k  423 (508)
T KOG1840|consen  346 KLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAY--EELK  423 (508)
T ss_pred             HHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHH--HHhc
Confidence            988865432   12222    358999999999999999999999887542    2222222   334455555  3332


Q ss_pred             CcccchhhHHHHHHhcCCcccCCccccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhh
Q 013497          224 GVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKAN  303 (442)
Q Consensus       224 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a  303 (442)
                      ...++.....++...                      +...|.+.            |.-..+|..+...|...|+.+.|
T Consensus       424 ~~~~a~~l~~~~~~i----------------------~~~~g~~~------------~~~~~~~~nL~~~Y~~~g~~e~a  469 (508)
T KOG1840|consen  424 KYEEAEQLFEEAKDI----------------------MKLCGPDH------------PDVTYTYLNLAALYRAQGNYEAA  469 (508)
T ss_pred             ccchHHHHHHHHHHH----------------------HHHhCCCC------------CchHHHHHHHHHHHHHcccHHHH
Confidence            333333444444332                      11112111            22456788888999999999998


Q ss_pred             HHHHHHHH
Q 013497          304 FSEFQDWL  311 (442)
Q Consensus       304 ~~~F~~m~  311 (442)
                      +++-...+
T Consensus       470 ~~~~~~~~  477 (508)
T KOG1840|consen  470 EELEEKVL  477 (508)
T ss_pred             HHHHHHHH
Confidence            87766554

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=97.93  E-value=0.0015  Score=65.25  Aligned_cols=193  Identities=8%  Similarity=-0.048  Sum_probs=133.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-------HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCC
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSL-------HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNV   97 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~-------~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~   97 (442)
                      .+..+...|.+.|++++|.+++..+.+.+..++.       .+|..++..-....        ..+...++++.+.+. .
T Consensus       189 al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~--------~~~~l~~~w~~lp~~-~  259 (398)
T PRK10747        189 VLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQ--------GSEGLKRWWKNQSRK-T  259 (398)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhc--------CHHHHHHHHHhCCHH-H
Confidence            7778888888888888888888888877654322       12223333211121        234444555544222 2


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 013497           98 IPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAA  177 (442)
Q Consensus        98 ~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~  177 (442)
                      +.+......+..++...|+.++|.+++++.. +.  .||.  --.++.+.+..++.+++.+..+...+.. +-|...+.+
T Consensus       260 ~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l-~~--~~~~--~l~~l~~~l~~~~~~~al~~~e~~lk~~-P~~~~l~l~  333 (398)
T PRK10747        260 RHQVALQVAMAEHLIECDDHDTAQQIILDGL-KR--QYDE--RLVLLIPRLKTNNPEQLEKVLRQQIKQH-GDTPLLWST  333 (398)
T ss_pred             hCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH-hc--CCCH--HHHHHHhhccCCChHHHHHHHHHHHhhC-CCCHHHHHH
Confidence            4577888999999999999999999999887 43  4444  2224555556799999999999988653 224556778


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHH
Q 013497          178 LLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAV  236 (442)
Q Consensus       178 li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~  236 (442)
                      +-..+.+.+++++|.+.|+.....  .|+..++..+-..+  .+.|...-.....++++
T Consensus       334 lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~--~~~g~~~~A~~~~~~~l  388 (398)
T PRK10747        334 LGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADAL--DRLHKPEEAAAMRRDGL  388 (398)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHH--HHcCCHHHHHHHHHHHH
Confidence            888999999999999999999875  69998888888888  55543333334444443

>TIGR00540 hemY_coli hemY protein

Probab=97.86  E-value=0.0018  Score=65.07  Aligned_cols=195  Identities=12%  Similarity=0.005  Sum_probs=126.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HH---HhcCCCCCCchhhHHHHHHHHHHHHhCCCC--
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLY-LC---SDSATDPSSKDSALRHGFRVFDQMLSNNVI--   98 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~-~~---~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~--   98 (442)
                      .+..+...+.+.|++++|.+++..+.+.++. +...+..+-. +.   ...+        ..+.+.+.+..+.+.-..  
T Consensus       189 ~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~--------~~~~~~~~L~~~~~~~p~~~  259 (409)
T TIGR00540       189 VLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEA--------MADEGIDGLLNWWKNQPRHR  259 (409)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHH--------HHhcCHHHHHHHHHHCCHHH
Confidence            6667777778888888888888887777643 3333322111 11   1111        222233345444443221  


Q ss_pred             -CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCccc---HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH--
Q 013497           99 -PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRT---YDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQ--  172 (442)
Q Consensus        99 -p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~t---y~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~--  172 (442)
                       .+...+..+...+...|+.++|.+++++.. +.  .||...   ...........++.+.+.+.++...+.  .|+.  
T Consensus       260 ~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l-~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~  334 (409)
T TIGR00540       260 RHNIALKIALAEHLIDCDDHDSAQEIIFDGL-KK--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPK  334 (409)
T ss_pred             hCCHHHHHHHHHHHHHCCChHHHHHHHHHHH-hh--CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCChh
Confidence             378888999999999999999999999988 43  566543   122223334467888888888877654  3444  


Q ss_pred             -HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHH
Q 013497          173 -QEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNA  235 (442)
Q Consensus       173 -~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a  235 (442)
                       ....++-..+.+.|++++|.+.|+........|++.++..+...+  .+.|...-.....+++
T Consensus       335 ~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll--~~~g~~~~A~~~~~~~  396 (409)
T TIGR00540       335 CCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAF--DQAGDKAEAAAMRQDS  396 (409)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHH--HHcCCHHHHHHHHHHH
Confidence             445578888899999999999999655556689999888888888  5554333333334444

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.

>KOG3777 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.86  E-value=6.7e-06  Score=80.22  Aligned_cols=105  Identities=26%  Similarity=0.315  Sum_probs=82.5

Q ss_pred             CcceEEeccchhccccccCCCCcChhhHHHHHHHHHHhcCCCccEEEccCccccCCCCChhhHHHHHHHHhcCeEEeCCC
Q 013497          316 NYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNKRLRSLWENPSHRNLVEEWNEKGVLYMTPH  395 (442)
Q Consensus       316 ~~d~vIdg~Nv~~~~~~~~~~~~~~~~~~~vv~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  395 (442)
                      ..-++|||-|||+...|  +-.|++..+...++++.++++ +.+.+.+..++....  .+  ..++..+.++..+-|||+
T Consensus        12 ~~P~~i~~~~~~ls~G~--~~~f~~r~~~v~~~~~~~~~~-rd~tv~~~~~r~e~~--~p--~~~l~~l~~~~~~~ftp~   84 (443)
T KOG3777|consen   12 LRPVVIHGSNLALSQGN--EEVFSCRGILVSVDWFLQRGH-RDITVLVPSWRKEAT--RP--DAILRELEEKKILVFTPD   84 (443)
T ss_pred             ccCceeeccchhhcccc--hhheecccceeehhhhhhhcc-cCcchhchhhhhcCC--ch--HHHHHHHHhccccccCCC
Confidence            45689999999998776  236788889999999999877 334444443332221  12  238999999999999999


Q ss_pred             C--------CCccHHHHHHHHhcCcEEEecCccccchhhc
Q 013497          396 G--------SNDDWYWLYAAVKLRCLLVTNDEMRDHIFEL  427 (442)
Q Consensus       396 ~--------~~DD~~~l~aa~~~~~~~vsnD~~rdh~~~~  427 (442)
                      .        ++||||++..|.+++++|++||.+||..-+.
T Consensus        85 ~~~~~~r~~c~~~rf~~~~~~~s~~~~~~~dn~rd~~le~  124 (443)
T KOG3777|consen   85 RSIQGSRVICYDRRFSASLARESDGIVSLNDNYRDLILES  124 (443)
T ss_pred             hhhccceeeeehhhhHhhhhccccceecCCchHHHHHhhc
Confidence            8        8999999999999999999999999986554

>TIGR00540 hemY_coli hemY protein

Probab=97.86  E-value=0.0072  Score=60.63  Aligned_cols=120  Identities=11%  Similarity=0.004  Sum_probs=58.6

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 013497           36 SKDLTTAISLYESAHSQNLRLSLHHFNALLY-LCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASK  114 (442)
Q Consensus        36 ~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~-~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~  114 (442)
                      .|+++.|.+.+.+..+.  .|+...+-.+.. +....|        +.+.|.+.|.+..+....++...--+....+...
T Consensus        97 ~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g--------~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~  166 (409)
T TIGR00540        97 EGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRG--------DEARANQHLEEAAELAGNDNILVEIARTRILLAQ  166 (409)
T ss_pred             CCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHC
Confidence            45666666666554433  333333333322 333334        5555666665554433222222233335555555


Q ss_pred             CCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 013497          115 NDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGL  168 (442)
Q Consensus       115 g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~  168 (442)
                      |+++.|...++++. +.  .| +......+...|...|++++|.+++..+.+.++
T Consensus       167 ~~~~~Al~~l~~l~-~~--~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~  218 (409)
T TIGR00540       167 NELHAARHGVDKLL-EM--APRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGL  218 (409)
T ss_pred             CCHHHHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCC
Confidence            66666666666555 32  23 233455555555666666666666555555543

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.

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=97.84  E-value=0.005  Score=66.96  Aligned_cols=175  Identities=10%  Similarity=-0.036  Sum_probs=127.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCC--------
Q 013497           29 NLQSCTKSKDLTTAISLYESAHSQNLRL---SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNV--------   97 (442)
Q Consensus        29 li~~~~k~g~~~~A~~lf~~m~~~g~~p---~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~--------   97 (442)
                      +-..|...|++++|+.+|+++.+..-..   ....+..|..++...+        ++++|.++++.+.....        
T Consensus       278 la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g--------~~~eA~~~l~~~~~~~P~~~~~~~~  349 (765)
T PRK10049        278 VASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESE--------NYPGALTVTAHTINNSPPFLRLYGS  349 (765)
T ss_pred             HHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcc--------cHHHHHHHHHHHhhcCCceEeecCC
Confidence            4557788888888888888876432111   1233444444556666        89999999999987531        


Q ss_pred             ---CCC---HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC
Q 013497           98 ---IPN---EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLE  171 (442)
Q Consensus        98 ---~p~---~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~  171 (442)
                         .|+   ...+..+...+...|+.++|+++++++. .. .+-+...+..+...+...|+.++|+++++......  |+
T Consensus       350 ~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al-~~-~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~--Pd  425 (765)
T PRK10049        350 PTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELA-YN-APGNQGLRIDYASVLQARGWPRAAENELKKAEVLE--PR  425 (765)
T ss_pred             CCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hh-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhC--CC
Confidence               133   2355677889999999999999999988 43 23355778888899999999999999999887753  55


Q ss_pred             -HHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          172 -QQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       172 -~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                       ...+-.+...+.+.|++++|..+++++...  .|+......+-...
T Consensus       426 ~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~--~Pd~~~~~~~~~~~  470 (765)
T PRK10049        426 NINLEVEQAWTALDLQEWRQMDVLTDDVVAR--EPQDPGVQRLARAR  470 (765)
T ss_pred             ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence             455666677888999999999999999875  56655544444333

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=97.83  E-value=0.0037  Score=57.45  Aligned_cols=164  Identities=13%  Similarity=0.044  Sum_probs=117.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-H---HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLS-L---HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN  100 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~-~---~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~  100 (442)
                      .+-.+...+.+.|++++|...|+++....  |+ .   .++..+-.++...+        ++++|...|+++.+......
T Consensus        35 ~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~la~~~~~~~--------~~~~A~~~~~~~l~~~p~~~  104 (235)
T TIGR03302        35 ELYEEAKEALDSGDYTEAIKYFEALESRY--PFSPYAEQAQLDLAYAYYKSG--------DYAEAIAAADRFIRLHPNHP  104 (235)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHHHhcC--------CHHHHHHHHHHHHHHCcCCC
Confidence            67777778889999999999999987543  32 2   23444444666666        89999999999987554322


Q ss_pred             HH--HHHHHHHHHHhc--------CCHHHHHHHHHHhHhhCCCCCCcc-cHH-----------------HHHHHHHHcCC
Q 013497          101 EA--SVTSVARLAASK--------NDGDYAFVLIKRMNNEFNVVPRLR-TYD-----------------PALFCFCENLE  152 (442)
Q Consensus       101 ~~--ty~~li~~~~~~--------g~~~~A~~~~~~m~~~~g~~p~~~-ty~-----------------~li~~~~~~g~  152 (442)
                      ..  ++..+-.++...        |+.++|.+.|+.+. ..  .|+.. .+.                 .+-..|.+.|+
T Consensus       105 ~~~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~-~~--~p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~  181 (235)
T TIGR03302       105 DADYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELI-RR--YPNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGA  181 (235)
T ss_pred             chHHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHH-HH--CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            22  344444444443        77899999999987 43  45442 211                 33456778899


Q ss_pred             HHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          153 AEKAYEVEEHMGLMG--LSLEQQEIAALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       153 ~~~A~~l~~~M~~~g--~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      .++|...++...+..  -......+..+...+.+.|+.++|..+++.+...
T Consensus       182 ~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       182 YVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             hHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            999999999987652  1223568889999999999999999999888764

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).

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

Probab=97.76  E-value=0.00038  Score=54.96  Aligned_cols=79  Identities=10%  Similarity=0.075  Sum_probs=53.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCC-CCCcccHHHHHHHHHHcCC--------HHHHHHHHHHHHHCCCCCCHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNV-VPRLRTYDPALFCFCENLE--------AEKAYEVEEHMGLMGLSLEQQEI  175 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~-~p~~~ty~~li~~~~~~g~--------~~~A~~l~~~M~~~g~~p~~~ty  175 (442)
                      ...|.-+...+++.....+|+..+ +.|+ .|++.+|+.++.+.++...        +-.++.+|+.|...+++|+..||
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslk-RN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etY  107 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLK-RNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHH-hcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHH
Confidence            345555556677777777777777 7777 7777777777777765432        33455677777777777777777


Q ss_pred             HHHHHHHHh
Q 013497          176 AALLKVSAE  184 (442)
Q Consensus       176 ~~li~~~~~  184 (442)
                      +.+|..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            777776654

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 [, , ].

>PRK14574 hmsH outer membrane protein; Provisional

Probab=97.71  E-value=0.008  Score=65.08  Aligned_cols=168  Identities=11%  Similarity=0.019  Sum_probs=134.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCC-----CCCCH
Q 013497           27 LINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNN-----VIPNE  101 (442)
Q Consensus        27 ~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g-----~~p~~  101 (442)
                      --.|-++.+.|+..++++.|+.|...|.+...++--.+-.+|...+        .+++|..+|.......     ..++.
T Consensus       296 ~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~--------~P~kA~~l~~~~~~~~~~~~~~~~~~  367 (822)
T PRK14574        296 IDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRR--------LPEKAAPILSSLYYSDGKTFRNSDDL  367 (822)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcC--------CcHHHHHHHHHHhhccccccCCCcch
Confidence            3467788899999999999999999997766677777888888887        8999999999986543     23355


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC---------------Cc-ccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP---------------RL-RTYDPALFCFCENLEAEKAYEVEEHMGL  165 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p---------------~~-~ty~~li~~~~~~g~~~~A~~l~~~M~~  165 (442)
                      .....|.-+|...+++++|..+++.+. ..  .|               |. ..+..++..+...|++.+|++.++++..
T Consensus       368 ~~~~~L~yA~ld~e~~~~A~~~l~~~~-~~--~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~  444 (822)
T PRK14574        368 LDADDLYYSLNESEQLDKAYQFAVNYS-EQ--TPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSS  444 (822)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHH-hc--CCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            557889999999999999999999998 52  33               11 1244567788999999999999999976


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChH
Q 013497          166 MGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEE  208 (442)
Q Consensus       166 ~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~  208 (442)
                      .. +-|......+-+.+...|...+|.++++.....  .|+..
T Consensus       445 ~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l--~P~~~  484 (822)
T PRK14574        445 TA-PANQNLRIALASIYLARDLPRKAEQELKAVESL--APRSL  484 (822)
T ss_pred             hC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh--CCccH
Confidence            53 337778889999999999999999999665443  55543

>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=97.69  E-value=0.00046  Score=61.12  Aligned_cols=109  Identities=9%  Similarity=0.056  Sum_probs=70.4

Q ss_pred             CCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCC
Q 013497           55 RLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVV  134 (442)
Q Consensus        55 ~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~  134 (442)
                      .-|-.+|..+|..+....   ..+.|.++-....+..|.+-|+.-|..+|+.||+.+=+ |.+- -..+|+.|=      
T Consensus        44 ~k~K~~F~~~V~~f~~~~---~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~F------  112 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRD---VRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAEF------  112 (228)
T ss_pred             cccHHHHHHHHHHHHhcC---CCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHHh------
Confidence            446688888888776553   34666899999999999999999999999999998765 3221 112222221      


Q ss_pred             CCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 013497          135 PRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETG  186 (442)
Q Consensus       135 p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g  186 (442)
                                .-|  -.+-+-|.+|+++|...|+.||..|+..|++.+.+.+
T Consensus       113 ----------~hy--p~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  113 ----------MHY--PRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             ----------ccC--cHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhcccc
Confidence                      111  1123445666666666666666666666666665544

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>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=97.61  E-value=0.0012  Score=58.59  Aligned_cols=100  Identities=15%  Similarity=0.151  Sum_probs=68.2

Q ss_pred             HHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCC
Q 013497           25 NFLINLQSCTKS-----KDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIP   99 (442)
Q Consensus        25 ~~~~li~~~~k~-----g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p   99 (442)
                      +|..+|+.|.+.     |.++=....+..|.+-|+.-|..+|+.||..+=++...          -..+|+.|--     
T Consensus        49 ~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fv----------p~n~fQ~~F~-----  113 (228)
T PF06239_consen   49 TFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFV----------PRNFFQAEFM-----  113 (228)
T ss_pred             HHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcc----------cccHHHHHhc-----
Confidence            788899999865     77777788889999999999999999999988776511          1222222210     


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCC
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLE  152 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~  152 (442)
                                -  .-.+-+-|++++++|. ..|+.||..|+..|++.|++.+.
T Consensus       114 ----------h--yp~Qq~c~i~lL~qME-~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  114 ----------H--YPRQQECAIDLLEQME-NNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             ----------c--CcHHHHHHHHHHHHHH-HcCCCCcHHHHHHHHHHhccccH
Confidence                      0  1123445666666666 66666666666666666666554

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK11189 lipoprotein NlpI; Provisional

Probab=97.60  E-value=0.046  Score=52.22  Aligned_cols=149  Identities=10%  Similarity=-0.064  Sum_probs=105.7

Q ss_pred             CCHHHHHHHHHHHHhCC-CCCCH--HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 013497           37 KDLTTAISLYESAHSQN-LRLSL--HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAAS  113 (442)
Q Consensus        37 g~~~~A~~lf~~m~~~g-~~p~~--~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~  113 (442)
                      +..+.++.-+.++.... +.|+.  ..|..+=.++...|        ..++|...|++..+... .+...|+.+-..|..
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g--------~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~~~~  110 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLG--------LRALARNDFSQALALRP-DMADAYNYLGIYLTQ  110 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHH
Confidence            44566777777776442 33322  33444333566666        89999999999877643 367899999999999


Q ss_pred             cCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 013497          114 KNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVY  192 (442)
Q Consensus       114 ~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~  192 (442)
                      .|++++|...|+... +  +.|+ ..+|..+-..+...|+.++|.+.|+.....  .|+..........+...++.++|.
T Consensus       111 ~g~~~~A~~~~~~Al-~--l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~  185 (296)
T PRK11189        111 AGNFDAAYEAFDSVL-E--LDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAK  185 (296)
T ss_pred             CCCHHHHHHHHHHHH-H--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHH
Confidence            999999999999987 4  4565 466777778888999999999999998764  354332222222334567899999


Q ss_pred             HHHHHHH
Q 013497          193 QYLQKLR  199 (442)
Q Consensus       193 ~ll~~m~  199 (442)
                      ..|.+..
T Consensus       186 ~~l~~~~  192 (296)
T PRK11189        186 ENLKQRY  192 (296)
T ss_pred             HHHHHHH
Confidence            9997654

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

Probab=97.60  E-value=0.0017  Score=65.83  Aligned_cols=178  Identities=11%  Similarity=0.060  Sum_probs=130.2

Q ss_pred             CCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCC
Q 013497           20 PNPET--NFLINLQSCTKSKDLTTAISLYESAHSQNLRL-SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNN   96 (442)
Q Consensus        20 ~~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p-~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g   96 (442)
                      ..|+.  +|.++=++|.-.++.+.|++.|++..+.  .| .+++|+.+=+=+....        .+|.|...|+..    
T Consensus       416 ~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~e--------e~d~a~~~fr~A----  481 (638)
T KOG1126|consen  416 TDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATE--------EFDKAMKSFRKA----  481 (638)
T ss_pred             hCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhH--------HHHhHHHHHHhh----
Confidence            34555  9999999999999999999999998754  33 4577766544333344        799999999876    


Q ss_pred             CCCCHHHHHHHH---HHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH
Q 013497           97 VIPNEASVTSVA---RLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQ  172 (442)
Q Consensus        97 ~~p~~~ty~~li---~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~  172 (442)
                      +.+|.--||++-   -.|.+.++.+.|+-.|+...   .+.| +.+.-..+-..+-+.|+.|+|+.++++.....-+ |.
T Consensus       482 l~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~---~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~  557 (638)
T KOG1126|consen  482 LGVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAV---EINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NP  557 (638)
T ss_pred             hcCCchhhHHHHhhhhheeccchhhHHHHHHHhhh---cCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-Cc
Confidence            456666677654   56899999999999998876   4556 4455566667777899999999999998765433 33


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHH-HHHHHHh
Q 013497          173 QEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETG-KIIEDWF  217 (442)
Q Consensus       173 ~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~-~~li~~~  217 (442)
                      .+---....+...++.++|+..|++++..  .|++.+. ..+-.-|
T Consensus       558 l~~~~~~~il~~~~~~~eal~~LEeLk~~--vP~es~v~~llgki~  601 (638)
T KOG1126|consen  558 LCKYHRASILFSLGRYVEALQELEELKEL--VPQESSVFALLGKIY  601 (638)
T ss_pred             hhHHHHHHHHHhhcchHHHHHHHHHHHHh--CcchHHHHHHHHHHH
Confidence            32223444556689999999999999865  6777644 4444455

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

Probab=97.60  E-value=0.007  Score=61.19  Aligned_cols=286  Identities=12%  Similarity=0.053  Sum_probs=147.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCC--------------------------CCCC
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLS-LHHFNALLYLCSDSAT--------------------------DPSS   77 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~-~~ty~~ll~~~~~~~~--------------------------~~~~   77 (442)
                      .|+.|=..+-..|++-.|+..|++....  .|+ .-.|-.|=..|...++                          --|-
T Consensus       220 awsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrpn~A~a~gNla~iYy  297 (966)
T KOG4626|consen  220 AWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRPNHAVAHGNLACIYY  297 (966)
T ss_pred             eehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCCcchhhccceEEEEe
Confidence            5666666666667777777777766532  221 1223333223333330                          0012


Q ss_pred             chhhHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc-ccHHHHHHHHHHcCCHHH
Q 013497           78 KDSALRHGFRVFDQMLSNNVIPN-EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL-RTYDPALFCFCENLEAEK  155 (442)
Q Consensus        78 ~~~~~~~a~~l~~~M~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~-~ty~~li~~~~~~g~~~~  155 (442)
                      ..|.+|.|.+.|++..+.  .|+ ...|+.|..++-..|++.+|...+.... .  +.|+. -+.+.|-..|...|.+++
T Consensus       298 eqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL-~--l~p~hadam~NLgni~~E~~~~e~  372 (966)
T KOG4626|consen  298 EQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKAL-R--LCPNHADAMNNLGNIYREQGKIEE  372 (966)
T ss_pred             ccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHH-H--hCCccHHHHHHHHHHHHHhccchH
Confidence            234666666666665543  333 3566666666666677777766666655 2  23332 455666666666666776


Q ss_pred             HHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHH
Q 013497          156 AYEVEEHMGLMGLSLE-QQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKN  234 (442)
Q Consensus       156 A~~l~~~M~~~g~~p~-~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~  234 (442)
                      |..+|..-.+  +.|. ...+|.|-..|-..|++++|...+++-.+  +.|+-      .+++  ...|...-..+++..
T Consensus       373 A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~f------Ada~--~NmGnt~ke~g~v~~  440 (966)
T KOG4626|consen  373 ATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTF------ADAL--SNMGNTYKEMGDVSA  440 (966)
T ss_pred             HHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchH------HHHH--HhcchHHHHhhhHHH
Confidence            6666665543  2332 23456666666667777777666665542  23321      1122  111111111133333


Q ss_pred             HHHhcCCcccCCccccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHc
Q 013497          235 AVLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKN  314 (442)
Q Consensus       235 a~~~~~~~~~~~~~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~  314 (442)
                      |+.-.                                  .+.|.+.|.=.+.++.+-+.+--.|.+.+|...+++-+.- 
T Consensus       441 A~q~y----------------------------------~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLkl-  485 (966)
T KOG4626|consen  441 AIQCY----------------------------------TRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKL-  485 (966)
T ss_pred             HHHHH----------------------------------HHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHcc-
Confidence            32210                                  1112233323334445555566678899999999987754 


Q ss_pred             CCcceEEeccchhccccccCCCCcCh-hhHHHHHHHHHHhcCCCccEEEccCcc
Q 013497          315 ANYEAIVDGANIGLYQQNFTEGGFSV-PQLDAVVKKLYERSGNKWPLVILHNKR  367 (442)
Q Consensus       315 ~~~d~vIdg~Nv~~~~~~~~~~~~~~-~~~~~vv~~l~~~~~~~~~l~~l~~~~  367 (442)
                       .||.-=-+-|.+++.|-.|.|. ++ +.+..+++..+++.. ++.|--+|-.|
T Consensus       486 -kPDfpdA~cNllh~lq~vcdw~-D~d~~~~kl~sivrdql~-~~rlpsvhP~h  536 (966)
T KOG4626|consen  486 -KPDFPDAYCNLLHCLQIVCDWT-DYDKRMKKLVSIVRDQLE-KNRLPSVHPHH  536 (966)
T ss_pred             -CCCCchhhhHHHHHHHHHhccc-chHHHHHHHHHHHHHHHh-hhcCCccCccc
Confidence             4444444678888877666665 33 234455555554432 33333334433

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

Probab=97.59  E-value=0.0033  Score=58.82  Aligned_cols=167  Identities=12%  Similarity=0.018  Sum_probs=132.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHH
Q 013497           27 LINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTS  106 (442)
Q Consensus        27 ~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~  106 (442)
                      +-|=.+|.+.|.+.+|.+.|+.....  .|-+.||-.|-+.|.+..        .++.|+.+|.+-.+. ++-|+....-
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~rid--------QP~~AL~~~~~gld~-fP~~VT~l~g  295 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRID--------QPERALLVIGEGLDS-FPFDVTYLLG  295 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhc--------cHHHHHHHHhhhhhc-CCchhhhhhh
Confidence            45667889999999999999987766  455667877777999888        899999999987654 3334444456


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 013497          107 VARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETG  186 (442)
Q Consensus       107 li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g  186 (442)
                      +.+.+-..++.++|.+++++.. +.. ..++.....+-.+|.-.++.+.|+..++.+...|+. +...|+.+--+|.-.+
T Consensus       296 ~ARi~eam~~~~~a~~lYk~vl-k~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaq  372 (478)
T KOG1129|consen  296 QARIHEAMEQQEDALQLYKLVL-KLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQ  372 (478)
T ss_pred             hHHHHHHHHhHHHHHHHHHHHH-hcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhc
Confidence            7788888999999999999987 432 446677777788888999999999999999999987 6677888888888899


Q ss_pred             CHHHHHHHHHHHHhccCCCCh
Q 013497          187 RVEKVYQYLQKLRSTVRCVNE  207 (442)
Q Consensus       187 ~~~~a~~ll~~m~~~~~~p~~  207 (442)
                      .+|-++--|++-...-..|+.
T Consensus       373 Q~D~~L~sf~RAlstat~~~~  393 (478)
T KOG1129|consen  373 QIDLVLPSFQRALSTATQPGQ  393 (478)
T ss_pred             chhhhHHHHHHHHhhccCcch
Confidence            999998888877665555553

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=97.57  E-value=0.0058  Score=62.06  Aligned_cols=172  Identities=13%  Similarity=0.008  Sum_probs=125.5

Q ss_pred             CCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHH---hC--C-CCCCHHHHHHHHH-HHHhcCCCCCCchhhHHHHHHHHH
Q 013497           20 PNPET--NFLINLQSCTKSKDLTTAISLYESAH---SQ--N-LRLSLHHFNALLY-LCSDSATDPSSKDSALRHGFRVFD   90 (442)
Q Consensus        20 ~~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~---~~--g-~~p~~~ty~~ll~-~~~~~~~~~~~~~~~~~~a~~l~~   90 (442)
                      ..|.+  +++.|=..|++.|++++|...+++..   +.  | ..|.+.+..+-+. .|...+        .+++|..++.
T Consensus       278 ~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~--------~~Eea~~l~q  349 (508)
T KOG1840|consen  278 DHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMN--------EYEEAKKLLQ  349 (508)
T ss_pred             CCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhc--------chhHHHHHHH
Confidence            34555  88889899999999999999998854   22  2 2344444443343 666666        7999998888


Q ss_pred             HHHh---CCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhHhh---CC--CCCC-cccHHHHHHHHHHcCCHHHHH
Q 013497           91 QMLS---NNVIPN----EASVTSVARLAASKNDGDYAFVLIKRMNNE---FN--VVPR-LRTYDPALFCFCENLEAEKAY  157 (442)
Q Consensus        91 ~M~~---~g~~p~----~~ty~~li~~~~~~g~~~~A~~~~~~m~~~---~g--~~p~-~~ty~~li~~~~~~g~~~~A~  157 (442)
                      ...+   .-+.++    ..+|+.|-..|-+.|++++|.++|++..+.   .+  ..+. -..++.|-..|.+.+...+|.
T Consensus       350 ~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~  429 (508)
T KOG1840|consen  350 KALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAE  429 (508)
T ss_pred             HHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHH
Confidence            6543   112232    368999999999999999999999987621   11  1222 356788888999999999999


Q ss_pred             HHHHHHH----HCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 013497          158 EVEEHMG----LMGL-SL-EQQEIAALLKVSAETGRVEKVYQYLQKLR  199 (442)
Q Consensus       158 ~l~~~M~----~~g~-~p-~~~ty~~li~~~~~~g~~~~a~~ll~~m~  199 (442)
                      ++|.+-.    ..|. .| ...+|..|...|...|++++|.++.+...
T Consensus       430 ~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  430 QLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            9988753    3332 22 34688999999999999999999988775

>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=97.54  E-value=0.00086  Score=63.71  Aligned_cols=160  Identities=12%  Similarity=0.085  Sum_probs=93.5

Q ss_pred             CCHH-HHHHHHHHHHhc-CCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHhcCCCCCCchhhHHHHHHHHHHHHhCCC
Q 013497           21 NPET-NFLINLQSCTKS-KDLTTAISLYESAHSQNLRLSLHHFNALLY-LCSDSATDPSSKDSALRHGFRVFDQMLSNNV   97 (442)
Q Consensus        21 ~p~~-~~~~li~~~~k~-g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~-~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~   97 (442)
                      .|.. .. .++..|.+. .+-+.++.-+++.......++..++..+.. .+...|        .+++|++++..-     
T Consensus        63 ~~~l~av-~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~--------~~~~AL~~l~~~-----  128 (290)
T PF04733_consen   63 SPELQAV-RLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEG--------DYEEALKLLHKG-----  128 (290)
T ss_dssp             SCCCHHH-HHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCC--------HHHHHHCCCTTT-----
T ss_pred             ChhHHHH-HHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcC--------CHHHHHHHHHcc-----
Confidence            4444 33 333444443 445555555554443333323333333333 444445        788888777532     


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHH
Q 013497           98 IPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCE----NLEAEKAYEVEEHMGLMGLSLEQQ  173 (442)
Q Consensus        98 ~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~----~g~~~~A~~l~~~M~~~g~~p~~~  173 (442)
                       -+.-.....+..|.+.++++.|.+.++.|+ +.  ..|. +-.-|..++..    ...+.+|+.+|+++.+. ..++..
T Consensus       129 -~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~-~~--~eD~-~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~  202 (290)
T PF04733_consen  129 -GSLELLALAVQILLKMNRPDLAEKELKNMQ-QI--DEDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPK  202 (290)
T ss_dssp             -TCHHHHHHHHHHHHHTT-HHHHHHHHHHHH-CC--SCCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHH
T ss_pred             -CcccHHHHHHHHHHHcCCHHHHHHHHHHHH-hc--CCcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHH
Confidence             355666677888888888888888888888 43  3343 33334443332    33578888888887554 556778


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          174 EIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       174 ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      +.|.+..+....|++++|.+++.+-..
T Consensus       203 ~lng~A~~~l~~~~~~eAe~~L~~al~  229 (290)
T PF04733_consen  203 LLNGLAVCHLQLGHYEEAEELLEEALE  229 (290)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            888888888888888888888877543

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.

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

Probab=97.52  E-value=0.013  Score=54.90  Aligned_cols=164  Identities=13%  Similarity=0.071  Sum_probs=90.9

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCH----HHHHHHH
Q 013497           33 CTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNE----ASVTSVA  108 (442)
Q Consensus        33 ~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~----~ty~~li  108 (442)
                      |-..|-+|.|..+|..+.+.|. .-...--.|+..|....        .+++|.++=+++.+.+-.+..    ..|.-|.
T Consensus       117 ym~aGl~DRAE~~f~~L~de~e-fa~~AlqqLl~IYQ~tr--------eW~KAId~A~~L~k~~~q~~~~eIAqfyCELA  187 (389)
T COG2956         117 YMAAGLLDRAEDIFNQLVDEGE-FAEGALQQLLNIYQATR--------EWEKAIDVAERLVKLGGQTYRVEIAQFYCELA  187 (389)
T ss_pred             HHHhhhhhHHHHHHHHHhcchh-hhHHHHHHHHHHHHHhh--------HHHHHHHHHHHHHHcCCccchhHHHHHHHHHH
Confidence            4445555555555555554332 11123334444555444        555555555555544433321    1233333


Q ss_pred             HHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHH-HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 013497          109 RLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPA-LFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGR  187 (442)
Q Consensus       109 ~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~l-i~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~  187 (442)
                      ..+....+++.|..++..-. ..  .|+.+--+.+ =..+...|++..|.+.++...+++..--..+...|..+|...|+
T Consensus       188 q~~~~~~~~d~A~~~l~kAl-qa--~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~  264 (389)
T COG2956         188 QQALASSDVDRARELLKKAL-QA--DKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGK  264 (389)
T ss_pred             HHHhhhhhHHHHHHHHHHHH-hh--CccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCC
Confidence            33334445555555555544 21  3333333333 24566778888888888888777655455667788888888888


Q ss_pred             HHHHHHHHHHHHhccCCCChH
Q 013497          188 VEKVYQYLQKLRSTVRCVNEE  208 (442)
Q Consensus       188 ~~~a~~ll~~m~~~~~~p~~~  208 (442)
                      .++....+.++.+....++..
T Consensus       265 ~~~~~~fL~~~~~~~~g~~~~  285 (389)
T COG2956         265 PAEGLNFLRRAMETNTGADAE  285 (389)
T ss_pred             HHHHHHHHHHHHHccCCccHH
Confidence            888888888887765555543

>PRK11189 lipoprotein NlpI; Provisional

Probab=97.49  E-value=0.073  Score=50.88  Aligned_cols=127  Identities=10%  Similarity=-0.063  Sum_probs=83.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+=..|.+.|+.++|...|++..+.. +-+...|+.+-..+...+        ++++|.+.|+...+.... +..+|
T Consensus        66 ~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g--------~~~~A~~~~~~Al~l~P~-~~~a~  135 (296)
T PRK11189         66 LHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAG--------NFDAAYEAFDSVLELDPT-YNYAY  135 (296)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHHhCCC-CHHHH
Confidence            45555556778888888888888877653 234567777666777777        788888888887764322 45667


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMG  164 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~  164 (442)
                      ..+-..+...|++++|.+.|+... .  ..|+..........+...++.++|.+.|+...
T Consensus       136 ~~lg~~l~~~g~~~eA~~~~~~al-~--~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        136 LNRGIALYYGGRYELAQDDLLAFY-Q--DDPNDPYRALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHH-H--hCCCCHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            777777778888888888888766 3  24544322222222334566777777775543

>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=97.48  E-value=0.0031  Score=62.17  Aligned_cols=125  Identities=15%  Similarity=0.111  Sum_probs=98.3

Q ss_pred             HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-Cc
Q 013497           59 HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RL  137 (442)
Q Consensus        59 ~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~  137 (442)
                      +.-.+|+..+...+        +++.|.++|+++.+..  |++.  ..|++.+...++-.+|.+++.+.. ..  .| +.
T Consensus       170 yLv~~Ll~~l~~t~--------~~~~ai~lle~L~~~~--pev~--~~LA~v~l~~~~E~~AI~ll~~aL-~~--~p~d~  234 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQ--------RYDEAIELLEKLRERD--PEVA--VLLARVYLLMNEEVEAIRLLNEAL-KE--NPQDS  234 (395)
T ss_pred             HHHHHHHHHHhhcc--------cHHHHHHHHHHHHhcC--CcHH--HHHHHHHHhcCcHHHHHHHHHHHH-Hh--CCCCH
Confidence            44556666777777        8999999999998775  6644  358888888899999999999887 33  33 43


Q ss_pred             ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          138 RTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQ-QEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       138 ~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~-~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      .....-...|.+.++.+.|.++.+++.+.  .|+. .+|..|..+|.+.|+++.|.-.+..+.-
T Consensus       235 ~LL~~Qa~fLl~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  235 ELLNLQAEFLLSKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            44444456688999999999999999875  5655 4999999999999999999999987753

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>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=97.45  E-value=0.003  Score=60.00  Aligned_cols=150  Identities=15%  Similarity=0.143  Sum_probs=106.9

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 013497           32 SCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLA  111 (442)
Q Consensus        32 ~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~  111 (442)
                      .+...|++++|+++++.-      -+.......+..+.+.+        +++.|.+.++.|.+..  .|. +.+-|..++
T Consensus       111 i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~--------R~dlA~k~l~~~~~~~--eD~-~l~qLa~aw  173 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMN--------RPDLAEKELKNMQQID--EDS-ILTQLAEAW  173 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT---------HHHHHHHHHHHHCCS--CCH-HHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcC--------CHHHHHHHHHHHHhcC--CcH-HHHHHHHHH
Confidence            456679999998888642      34566666777777777        8999999999998653  343 333344433


Q ss_pred             ----HhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 013497          112 ----ASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGR  187 (442)
Q Consensus       112 ----~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~  187 (442)
                          .-.+.+.+|..+|+++. . .+.++..+.|.+..++...|++++|.+++.+..+..- -+..|...+|.+....|+
T Consensus       174 v~l~~g~e~~~~A~y~f~El~-~-~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~-~~~d~LaNliv~~~~~gk  250 (290)
T PF04733_consen  174 VNLATGGEKYQDAFYIFEELS-D-KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDP-NDPDTLANLIVCSLHLGK  250 (290)
T ss_dssp             HHHHHTTTCCCHHHHHHHHHH-C-CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-C-CHHHHHHHHHHHHHHTT-
T ss_pred             HHHHhCchhHHHHHHHHHHHH-h-ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHhCC
Confidence                33447899999999987 4 3567788888999999999999999999988765442 256677778888878887


Q ss_pred             H-HHHHHHHHHHHhc
Q 013497          188 V-EKVYQYLQKLRST  201 (442)
Q Consensus       188 ~-~~a~~ll~~m~~~  201 (442)
                      . +.+.+++.+++..
T Consensus       251 ~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  251 PTEAAERYLSQLKQS  265 (290)
T ss_dssp             TCHHHHHHHHHCHHH
T ss_pred             ChhHHHHHHHHHHHh
Confidence            7 7788888888764

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.

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

Probab=97.41  E-value=0.02  Score=55.75  Aligned_cols=232  Identities=12%  Similarity=0.070  Sum_probs=146.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHhcC---------------CC------------CCCchhhHH
Q 013497           32 SCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLY-LCSDSA---------------TD------------PSSKDSALR   83 (442)
Q Consensus        32 ~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~-~~~~~~---------------~~------------~~~~~~~~~   83 (442)
                      -+.+.|+++.|+++++-..+..-+.-...-|.|-. -|..+|               ++            -..-.|.++
T Consensus       428 ~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~d  507 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLD  507 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHH
Confidence            47889999999999988876554433333343322 233333               11            112457889


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCC-CCCcccHHHHHHHHHHcCCHHHHHHHHHH
Q 013497           84 HGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNV-VPRLRTYDPALFCFCENLEAEKAYEVEEH  162 (442)
Q Consensus        84 ~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~-~p~~~ty~~li~~~~~~g~~~~A~~l~~~  162 (442)
                      +|.+.|.+...+.-......||+=+.+ -+.|++++|++.|-.+-   ++ .-+..+.--+.+.|-...+...|.+++..
T Consensus       508 ka~~~ykeal~ndasc~ealfniglt~-e~~~~ldeald~f~klh---~il~nn~evl~qianiye~led~aqaie~~~q  583 (840)
T KOG2003|consen  508 KAAEFYKEALNNDASCTEALFNIGLTA-EALGNLDEALDCFLKLH---AILLNNAEVLVQIANIYELLEDPAQAIELLMQ  583 (840)
T ss_pred             HHHHHHHHHHcCchHHHHHHHHhcccH-HHhcCHHHHHHHHHHHH---HHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHH
Confidence            999999888776555556666665544 45688999999887765   22 22445555666777778888888888754


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCC-ChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCC
Q 013497          163 MGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCV-NEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGG  241 (442)
Q Consensus       163 M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p-~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~  241 (442)
                      ... -++.|.....-|-+.|-+.|+-..|++++-+-  ....| +..|...|-..|  ...       ...+.++..+..
T Consensus       584 ~~s-lip~dp~ilskl~dlydqegdksqafq~~yds--yryfp~nie~iewl~ayy--idt-------qf~ekai~y~ek  651 (840)
T KOG2003|consen  584 ANS-LIPNDPAILSKLADLYDQEGDKSQAFQCHYDS--YRYFPCNIETIEWLAAYY--IDT-------QFSEKAINYFEK  651 (840)
T ss_pred             hcc-cCCCCHHHHHHHHHHhhcccchhhhhhhhhhc--ccccCcchHHHHHHHHHH--Hhh-------HHHHHHHHHHHH
Confidence            432 23446677788888888899988888876543  22233 445555555555  322       223333333220


Q ss_pred             cccCCccccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHH-hHHHHHHhhHHHHHHHHHHc
Q 013497          242 GWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAAL-AMEREVKANFSEFQDWLEKN  314 (442)
Q Consensus       242 ~~~~~~~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~-~~~g~~~~a~~~F~~m~~~~  314 (442)
                                           ..-.-|              +...|.-||..| -+.|....||+++++...+-
T Consensus       652 ---------------------aaliqp--------------~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkf  690 (840)
T KOG2003|consen  652 ---------------------AALIQP--------------NQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKF  690 (840)
T ss_pred             ---------------------HHhcCc--------------cHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhC
Confidence                                 001113              777899898764 46888999999999876644

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

Probab=97.40  E-value=0.052  Score=48.68  Aligned_cols=172  Identities=11%  Similarity=0.012  Sum_probs=131.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      +.--|=-+|...|+...|..-+++..+.. +-+..+|.++-..|...|        ..+.|.+-|+........ +--..
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~G--------e~~~A~e~YrkAlsl~p~-~GdVL  106 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLG--------ENDLADESYRKALSLAPN-NGDVL  106 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcC--------ChhhHHHHHHHHHhcCCC-ccchh
Confidence            55566678999999999999999988753 223456666666899888        899999999987664322 33455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE  184 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~  184 (442)
                      |..=.-+|..|++++|...|++-......---..||..+--+..+.|+.+.|.+.|+.-.+..-. ...+.-.+.+...+
T Consensus       107 NNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~-~~~~~l~~a~~~~~  185 (250)
T COG3063         107 NNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQ-FPPALLELARLHYK  185 (250)
T ss_pred             hhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcC-CChHHHHHHHHHHh
Confidence            66666789999999999999998722222223478999888899999999999999998876422 23456788888889


Q ss_pred             cCCHHHHHHHHHHHHhccCCCChH
Q 013497          185 TGRVEKVYQYLQKLRSTVRCVNEE  208 (442)
Q Consensus       185 ~g~~~~a~~ll~~m~~~~~~p~~~  208 (442)
                      .|++-.|..+++.....+. ++..
T Consensus       186 ~~~y~~Ar~~~~~~~~~~~-~~A~  208 (250)
T COG3063         186 AGDYAPARLYLERYQQRGG-AQAE  208 (250)
T ss_pred             cccchHHHHHHHHHHhccc-ccHH
Confidence            9999999999988877654 4443

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

Probab=97.39  E-value=0.022  Score=55.77  Aligned_cols=160  Identities=15%  Similarity=-0.035  Sum_probs=107.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC-HHHHHHHH
Q 013497           30 LQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN-EASVTSVA  108 (442)
Q Consensus        30 i~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~-~~ty~~li  108 (442)
                      -..+...|++++|.+++++..+.. +-|...++.-+..+..+..     .+..+.+.+.++.  .....|+ ......+-
T Consensus        50 a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~~~~~~~-----~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a  121 (355)
T cd05804          50 ALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLGAFGLGDF-----SGMRDHVARVLPL--WAPENPDYWYLLGMLA  121 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHHHHhccc-----ccCchhHHHHHhc--cCcCCCCcHHHHHHHH
Confidence            334567899999999999987652 2233344421111111110     1144555555554  2223344 34555666


Q ss_pred             HHHHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCCH--HHHHHHHHHHHh
Q 013497          109 RLAASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLMGL-SLEQ--QEIAALLKVSAE  184 (442)
Q Consensus       109 ~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~-~p~~--~ty~~li~~~~~  184 (442)
                      ..+...|++++|...+++.. ..  .|+ ...+..+-..|...|++++|...++......- .|+.  ..|..+...+..
T Consensus       122 ~~~~~~G~~~~A~~~~~~al-~~--~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~  198 (355)
T cd05804         122 FGLEEAGQYDRAEEAARRAL-EL--NPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLE  198 (355)
T ss_pred             HHHHHcCCHHHHHHHHHHHH-hh--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHH
Confidence            78899999999999999988 43  454 55677888899999999999999998776422 2333  345678888999


Q ss_pred             cCCHHHHHHHHHHHHh
Q 013497          185 TGRVEKVYQYLQKLRS  200 (442)
Q Consensus       185 ~g~~~~a~~ll~~m~~  200 (442)
                      .|+.++|..++++...
T Consensus       199 ~G~~~~A~~~~~~~~~  214 (355)
T cd05804         199 RGDYEAALAIYDTHIA  214 (355)
T ss_pred             CCCHHHHHHHHHHHhc
Confidence            9999999999999854

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.

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

Probab=97.28  E-value=0.014  Score=64.06  Aligned_cols=130  Identities=16%  Similarity=0.097  Sum_probs=68.9

Q ss_pred             CHH--HHHHHHHHHHhcCCHHHHHHHHHHHHh-CCCCCCH---HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC
Q 013497           22 PET--NFLINLQSCTKSKDLTTAISLYESAHS-QNLRLSL---HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN   95 (442)
Q Consensus        22 p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~-~g~~p~~---~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~   95 (442)
                      |+.  .|-.-|.-....+++++|.++++++.. -+++-..   ..|.+++++-..-|        .-+...++|++..+.
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG--------~eesl~kVFeRAcqy 1526 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYG--------TEESLKKVFERACQY 1526 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhC--------cHHHHHHHHHHHHHh
Confidence            555  688888888888888888888888652 2222111   34555555433333        233345555555432


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Q 013497           96 NVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHM  163 (442)
Q Consensus        96 g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M  163 (442)
                      .-  --..|..|...|.+.+..++|-++++.|..++|  -....|...+..+.+..+.+.|.+++.+.
T Consensus      1527 cd--~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rA 1590 (1710)
T KOG1070|consen 1527 CD--AYTVHLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRA 1590 (1710)
T ss_pred             cc--hHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            11  123455555555555566666666665553333  23344555555555555555555544443

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

Probab=97.25  E-value=0.066  Score=50.34  Aligned_cols=139  Identities=11%  Similarity=0.101  Sum_probs=74.9

Q ss_pred             chhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc----ccHHHHHHHHHHcCCH
Q 013497           78 KDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL----RTYDPALFCFCENLEA  153 (442)
Q Consensus        78 ~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~----~ty~~li~~~~~~g~~  153 (442)
                      ..|-+|+|+++|..+.+.|. .-....--|+..|-+..+|++|.++-++.. +.+=.+..    ..|.-|-..+....+.
T Consensus       119 ~aGl~DRAE~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~-k~~~q~~~~eIAqfyCELAq~~~~~~~~  196 (389)
T COG2956         119 AAGLLDRAEDIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLV-KLGGQTYRVEIAQFYCELAQQALASSDV  196 (389)
T ss_pred             HhhhhhHHHHHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHH-HcCCccchhHHHHHHHHHHHHHhhhhhH
Confidence            34466666666666654332 233455566666666667777776666665 33211111    1122222223345566


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccC
Q 013497          154 EKAYEVEEHMGLMGLSLEQQEI-AALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKV  222 (442)
Q Consensus       154 ~~A~~l~~~M~~~g~~p~~~ty-~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~  222 (442)
                      +.|.+++....+.+  |+.+-- -.+-+.....|++++|.+.++...+.....-+.+...|..+|  ...
T Consensus       197 d~A~~~l~kAlqa~--~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y--~~l  262 (389)
T COG2956         197 DRARELLKKALQAD--KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECY--AQL  262 (389)
T ss_pred             HHHHHHHHHHHhhC--ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHH--HHh
Confidence            66666666655442  222221 223344566777888887777777664444455666677777  444

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

Probab=97.25  E-value=0.0093  Score=60.71  Aligned_cols=151  Identities=15%  Similarity=0.065  Sum_probs=90.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCCCCCchhhH-HHHHHHHHHHHhCCCCCCHHHHHH
Q 013497           30 LQSCTKSKDLTTAISLYESAHSQN--LRLSLHHFNALLYLCSDSATDPSSKDSAL-RHGFRVFDQMLSNNVIPNEASVTS  106 (442)
Q Consensus        30 i~~~~k~g~~~~A~~lf~~m~~~g--~~p~~~ty~~ll~~~~~~~~~~~~~~~~~-~~a~~l~~~M~~~g~~p~~~ty~~  106 (442)
                      =.+|...++.++|.++|+..++..  ..-+...|++.|.-..+.-        .+ -.|.++.+.+     +-...||-+
T Consensus       360 GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v--------~Ls~Laq~Li~~~-----~~sPesWca  426 (638)
T KOG1126|consen  360 GRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEV--------ALSYLAQDLIDTD-----PNSPESWCA  426 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhH--------HHHHHHHHHHhhC-----CCCcHHHHH
Confidence            345555566666666666665431  1224456666665222211        00 0123333332     123467777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH---HHH
Q 013497          107 VARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALL---KVS  182 (442)
Q Consensus       107 li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li---~~~  182 (442)
                      +=++|.-.++.+.|++.|+.-.   .+.| ...+|+.+=+-+....++|+|..-|+.-.    ..|..-||++-   -.|
T Consensus       427 ~GNcfSLQkdh~~Aik~f~RAi---Qldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al----~~~~rhYnAwYGlG~vy  499 (638)
T KOG1126|consen  427 LGNCFSLQKDHDTAIKCFKRAI---QLDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL----GVDPRHYNAWYGLGTVY  499 (638)
T ss_pred             hcchhhhhhHHHHHHHHHHHhh---ccCCccchhhhhcCChhhhhHHHHhHHHHHHhhh----cCCchhhHHHHhhhhhe
Confidence            7778888888888888887766   3455 55677777777777778888888877654    34555555543   457


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 013497          183 AETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       183 ~~~g~~~~a~~ll~~m~~  200 (442)
                      .|.++++.|.-.|++-.+
T Consensus       500 ~Kqek~e~Ae~~fqkA~~  517 (638)
T KOG1126|consen  500 LKQEKLEFAEFHFQKAVE  517 (638)
T ss_pred             eccchhhHHHHHHHhhhc
Confidence            778888888877776553

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

Probab=97.25  E-value=0.022  Score=57.81  Aligned_cols=170  Identities=12%  Similarity=0.124  Sum_probs=129.5

Q ss_pred             CCCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCC
Q 013497           19 NPNPET--NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNN   96 (442)
Q Consensus        19 ~~~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g   96 (442)
                      ...|.-  .||.|-.++-..|++.+|+..|.+.....- --..+.+.|-..+...+        .+++|.++|....+- 
T Consensus       314 ~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p-~hadam~NLgni~~E~~--------~~e~A~~ly~~al~v-  383 (966)
T KOG4626|consen  314 ELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCP-NHADAMNNLGNIYREQG--------KIEEATRLYLKALEV-  383 (966)
T ss_pred             hcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhc--------cchHHHHHHHHHHhh-
Confidence            344543  888888888889999999999988765421 12345666667777777        899999999877653 


Q ss_pred             CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc-ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HH
Q 013497           97 VIPN-EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL-RTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLE-QQ  173 (442)
Q Consensus        97 ~~p~-~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~-~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~-~~  173 (442)
                       -|. ...+|.|-..|-+.|++++|+.-+++..   .+.|+- -.|+.+=..|-..|+++.|...+.+....  .|. ..
T Consensus       384 -~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~--nPt~Ae  457 (966)
T KOG4626|consen  384 -FPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQI--NPTFAE  457 (966)
T ss_pred             -ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhc--CcHHHH
Confidence             343 4678889999999999999999998877   467764 46777778888889999999888777654  343 45


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC
Q 013497          174 EIAALLKVSAETGRVEKVYQYLQKLRSTVRCVN  206 (442)
Q Consensus       174 ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~  206 (442)
                      .++.|-..|-.+|++.+|..-+++-.+  +.||
T Consensus       458 AhsNLasi~kDsGni~~AI~sY~~aLk--lkPD  488 (966)
T KOG4626|consen  458 AHSNLASIYKDSGNIPEAIQSYRTALK--LKPD  488 (966)
T ss_pred             HHhhHHHHhhccCCcHHHHHHHHHHHc--cCCC
Confidence            678899999999999999998887654  3454

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

Probab=97.24  E-value=0.22  Score=48.14  Aligned_cols=123  Identities=7%  Similarity=0.002  Sum_probs=54.6

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc-------ccHHHHHHHHHHcCCH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL-------RTYDPALFCFCENLEA  153 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~-------~ty~~li~~~~~~g~~  153 (442)
                      +...|..-.++..+.+.. +........++|.+.|++.....++..|. +.|+--|.       .+|+.+++-....+..
T Consensus       168 d~~aA~~~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~-ka~~l~~~e~~~le~~a~~glL~q~~~~~~~  245 (400)
T COG3071         168 DYPAARENVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLR-KAGLLSDEEAARLEQQAWEGLLQQARDDNGS  245 (400)
T ss_pred             CchhHHHHHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHH-HccCCChHHHHHHHHHHHHHHHHHHhccccc
Confidence            344444444444433322 23334444455555555555555555554 43332222       3344444444444333


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC
Q 013497          154 EKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVN  206 (442)
Q Consensus       154 ~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~  206 (442)
                      +.-..-++....+ .+-+...-.+++.-+..+|+.++|.++..+-.+++..|.
T Consensus       246 ~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~  297 (400)
T COG3071         246 EGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR  297 (400)
T ss_pred             hHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh
Confidence            3333333333222 122233334455555556666666666665555554444

>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=97.21  E-value=0.022  Score=56.27  Aligned_cols=114  Identities=11%  Similarity=0.009  Sum_probs=90.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013497          101 EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLK  180 (442)
Q Consensus       101 ~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~  180 (442)
                      -..-.+|++.+...++++.|.++|+++. +.  .|+  ....|+..+...++-.+|.+++++.... .+-+......-.+
T Consensus       169 NyLv~~Ll~~l~~t~~~~~ai~lle~L~-~~--~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~-~p~d~~LL~~Qa~  242 (395)
T PF09295_consen  169 NYLVDTLLKYLSLTQRYDEAIELLEKLR-ER--DPE--VAVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAE  242 (395)
T ss_pred             hHHHHHHHHHHhhcccHHHHHHHHHHHH-hc--CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHH
Confidence            3445677888888999999999999999 54  355  4556888888889999999999988854 2336667777778


Q ss_pred             HHHhcCCHHHHHHHHHHHHhccCCCChH-HHHHHHHHhccccCCC
Q 013497          181 VSAETGRVEKVYQYLQKLRSTVRCVNEE-TGKIIEDWFSGQKVNG  224 (442)
Q Consensus       181 ~~~~~g~~~~a~~ll~~m~~~~~~p~~~-t~~~li~~~~~~~~~~  224 (442)
                      .|.+.++.+.|..+.++..+.  .|+.. +|..|...|  ...|.
T Consensus       243 fLl~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Y--i~~~d  283 (395)
T PF09295_consen  243 FLLSKKKYELALEIAKKAVEL--SPSEFETWYQLAECY--IQLGD  283 (395)
T ss_pred             HHHhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHH--HhcCC
Confidence            899999999999999999765  67765 899999988  55543

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

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

Probab=97.16  E-value=0.11  Score=50.04  Aligned_cols=196  Identities=11%  Similarity=0.019  Sum_probs=133.7

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-------HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHH
Q 013497           21 NPETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSL-------HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQML   93 (442)
Q Consensus        21 ~p~~~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~-------~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~   93 (442)
                      .+....+.....|.+.|++.+...+..+|.+.|+--++       .+|+.+|.=+...+        ..+.-...++...
T Consensus       185 r~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~--------~~~gL~~~W~~~p  256 (400)
T COG3071         185 RHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDN--------GSEGLKTWWKNQP  256 (400)
T ss_pred             CChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccc--------cchHHHHHHHhcc
Confidence            34447889999999999999999999999998864433       56777777444333        2222233343332


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHH-HHCCCCCCH
Q 013497           94 SNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHM-GLMGLSLEQ  172 (442)
Q Consensus        94 ~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M-~~~g~~p~~  172 (442)
                      .. .+-+...-.+++.-+.++|+.++|.+++++-. +.+..|++.+    .-.+.+-++.+.-.+..+.- ..++..|  
T Consensus       257 r~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~L-k~~~D~~L~~----~~~~l~~~d~~~l~k~~e~~l~~h~~~p--  328 (400)
T COG3071         257 RK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDAL-KRQWDPRLCR----LIPRLRPGDPEPLIKAAEKWLKQHPEDP--  328 (400)
T ss_pred             HH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHH-HhccChhHHH----HHhhcCCCCchHHHHHHHHHHHhCCCCh--
Confidence            21 23344555688888999999999999999988 7766676322    23345667766666665553 3446555  


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHH
Q 013497          173 QEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAV  236 (442)
Q Consensus       173 ~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~  236 (442)
                      ..+.+|=.-|.+.+.+.+|.+.|+.-.  ...|+..+|+.+-++|  .+.|...-....-.++.
T Consensus       329 ~L~~tLG~L~~k~~~w~kA~~~leaAl--~~~~s~~~~~~la~~~--~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         329 LLLSTLGRLALKNKLWGKASEALEAAL--KLRPSASDYAELADAL--DQLGEPEEAEQVRREAL  388 (400)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHH--hcCCChhhHHHHHHHH--HHcCChHHHHHHHHHHH
Confidence            567788888999999999999998444  4578999999999999  66644433333333444

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.07  E-value=0.011  Score=56.12  Aligned_cols=145  Identities=10%  Similarity=0.076  Sum_probs=86.3

Q ss_pred             HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc
Q 013497           59 HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNN-VIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL  137 (442)
Q Consensus        59 ~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g-~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~  137 (442)
                      .+|..++..+.+.+        .++.|..+|.+.++.+ +..++....++|.-+ ..++.+.|..+|+...+.  +..+.
T Consensus         2 ~v~i~~m~~~~r~~--------g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~-~~~d~~~A~~Ife~glk~--f~~~~   70 (280)
T PF05843_consen    2 LVWIQYMRFMRRTE--------GIEAARKVFKRARKDKRCTYHVYVAYALMEYY-CNKDPKRARKIFERGLKK--FPSDP   70 (280)
T ss_dssp             HHHHHHHHHHHHHH--------HHHHHHHHHHHHHCCCCS-THHHHHHHHHHHH-TCS-HHHHHHHHHHHHHH--HTT-H
T ss_pred             HHHHHHHHHHHHhC--------ChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHH--CCCCH
Confidence            45666677666665        6777777777776543 234444444444332 234566677777776622  33455


Q ss_pred             ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHH
Q 013497          138 RTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLE---QQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIE  214 (442)
Q Consensus       138 ~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~---~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li  214 (442)
                      ..|..-|..+.+.|+.+.|..||+..... +.++   ...|..+|+.=.+.|+++.+..+..++.+.  .|+..+...++
T Consensus        71 ~~~~~Y~~~l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~--~~~~~~~~~f~  147 (280)
T PF05843_consen   71 DFWLEYLDFLIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL--FPEDNSLELFS  147 (280)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH--TTTS-HHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhhhHHHHHH
Confidence            56667777777777777777777777654 2222   247778887777788888888888877764  45544444444


Q ss_pred             HHh
Q 013497          215 DWF  217 (442)
Q Consensus       215 ~~~  217 (442)
                      +-|
T Consensus       148 ~ry  150 (280)
T PF05843_consen  148 DRY  150 (280)
T ss_dssp             CCT
T ss_pred             HHh
Confidence            444

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.

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

Probab=97.06  E-value=0.042  Score=58.45  Aligned_cols=138  Identities=12%  Similarity=0.073  Sum_probs=109.0

Q ss_pred             chhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHH
Q 013497           78 KDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAY  157 (442)
Q Consensus        78 ~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~  157 (442)
                      ..+..++|+++|.+...... -|..+-|-+--.++.+|++.+|..+|.+.. +... -+.-+|-.+-++|...|++..|.
T Consensus       624 ~kk~~~KAlq~y~kvL~~dp-kN~yAANGIgiVLA~kg~~~~A~dIFsqVr-Ea~~-~~~dv~lNlah~~~e~~qy~~AI  700 (1018)
T KOG2002|consen  624 EKKHQEKALQLYGKVLRNDP-KNMYAANGIGIVLAEKGRFSEARDIFSQVR-EATS-DFEDVWLNLAHCYVEQGQYRLAI  700 (1018)
T ss_pred             HHHHHHHHHHHHHHHHhcCc-chhhhccchhhhhhhccCchHHHHHHHHHH-HHHh-hCCceeeeHHHHHHHHHHHHHHH
Confidence            34578899999999877643 478888888889999999999999999998 5432 34567889999999999999999


Q ss_pred             HHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhc
Q 013497          158 EVEEHMGLM-GLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFS  218 (442)
Q Consensus       158 ~l~~~M~~~-g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~  218 (442)
                      ++|+..... .-.-+....+.|-+++-++|.+.+|.+.+..-+.....-....+|..+-.+.
T Consensus       701 qmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kk  762 (1018)
T KOG2002|consen  701 QMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKK  762 (1018)
T ss_pred             HHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHH
Confidence            999986554 5566778889999999999999999998877765533333345566655553

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

Probab=97.05  E-value=0.031  Score=47.21  Aligned_cols=125  Identities=13%  Similarity=0.059  Sum_probs=70.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH-HHHHH--HHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHH-FNALL--YLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNE  101 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~t-y~~ll--~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~  101 (442)
                      .|..++..+. .++...+...++.+.+..- -+... ...|.  ..+...|        ++++|...|+........|+.
T Consensus        14 ~y~~~~~~~~-~~~~~~~~~~~~~l~~~~~-~s~ya~~A~l~lA~~~~~~g--------~~~~A~~~l~~~~~~~~d~~l   83 (145)
T PF09976_consen   14 LYEQALQALQ-AGDPAKAEAAAEQLAKDYP-SSPYAALAALQLAKAAYEQG--------DYDEAKAALEKALANAPDPEL   83 (145)
T ss_pred             HHHHHHHHHH-CCCHHHHHHHHHHHHHHCC-CChHHHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHhhCCCHHH
Confidence            5666666664 6677777777777665422 11122 22221  1344445        677777777777666533321


Q ss_pred             --HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHH
Q 013497          102 --ASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEH  162 (442)
Q Consensus       102 --~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~  162 (442)
                        ...-.|...+...|++++|+..++... ....  ....+...=..|.+.|+.++|...|+.
T Consensus        84 ~~~a~l~LA~~~~~~~~~d~Al~~L~~~~-~~~~--~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   84 KPLARLRLARILLQQGQYDEALATLQQIP-DEAF--KALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHhcc-Ccch--HHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence              233345566677777777777776644 3322  223444555667777777777776654

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

Probab=97.03  E-value=0.25  Score=48.49  Aligned_cols=166  Identities=16%  Similarity=0.164  Sum_probs=110.7

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHh
Q 013497           35 KSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI-PNEASVTSVARLAAS  113 (442)
Q Consensus        35 k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~-p~~~ty~~li~~~~~  113 (442)
                      -+|++++|.+.|++.....-.-....||.=|.+ ...+        ++++|++.|-.+..  +. -++...-.+.+.|-.
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfniglt~-e~~~--------~ldeald~f~klh~--il~nn~evl~qianiye~  570 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFNIGLTA-EALG--------NLDEALDCFLKLHA--ILLNNAEVLVQIANIYEL  570 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHHhcccH-HHhc--------CHHHHHHHHHHHHH--HHHhhHHHHHHHHHHHHH
Confidence            378999999999988866543344445544433 2233        68888888876532  22 245556667777777


Q ss_pred             cCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 013497          114 KNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVY  192 (442)
Q Consensus       114 ~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~  192 (442)
                      ..+...|.+++.+..   .+.| |....+-|-..|-+.|+-..|++.+.+--. -++-+..|..-|-..|......+++.
T Consensus       571 led~aqaie~~~q~~---slip~dp~ilskl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai  646 (840)
T KOG2003|consen  571 LEDPAQAIELLMQAN---SLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAI  646 (840)
T ss_pred             hhCHHHHHHHHHHhc---ccCCCCHHHHHHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHH
Confidence            888888888886554   3344 556777788888888888888876554322 12334556566666777777788888


Q ss_pred             HHHHHHHhccCCCChHHHHHHHHHh
Q 013497          193 QYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       193 ~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      .+|++-  .-++|+.+-|..++..|
T Consensus       647 ~y~eka--aliqp~~~kwqlmiasc  669 (840)
T KOG2003|consen  647 NYFEKA--ALIQPNQSKWQLMIASC  669 (840)
T ss_pred             HHHHHH--HhcCccHHHHHHHHHHH
Confidence            887754  34578888887777666

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

Probab=97.00  E-value=0.059  Score=48.19  Aligned_cols=130  Identities=9%  Similarity=0.091  Sum_probs=101.0

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHH-HHHcCC--HHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFC-FCENLE--AEKA  156 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~-~~~~g~--~~~A  156 (442)
                      ..+++...++...+.. +.|...|..+-..|...|++++|...|+... .  +.| +...+..+-.+ |...|+  .++|
T Consensus        54 ~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al-~--l~P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         54 TPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQAL-Q--LRGENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             hHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH-H--hCCCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            6777888887766654 4588999999999999999999999999887 4  345 45666666665 467777  5999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          157 YEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       157 ~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      .+++++..+..-. +...+..+-..+.+.|++++|...++++.+. ..|+...+..| ...
T Consensus       130 ~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l-~~~~~~r~~~i-~~i  187 (198)
T PRK10370        130 REMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDL-NSPRVNRTQLV-ESI  187 (198)
T ss_pred             HHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh-CCCCccHHHHH-HHH
Confidence            9999999887543 6677888888899999999999999999765 34555555544 444

>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=97.00  E-value=0.32  Score=50.06  Aligned_cols=111  Identities=14%  Similarity=0.107  Sum_probs=75.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013497          103 SVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKV  181 (442)
Q Consensus       103 ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~  181 (442)
                      ++.-+...|-..|+.++|++++++.. ..  .|+ +-.|..--..|-+.|++++|.+..+........ |...=+-....
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI-~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~-DRyiNsK~aKy  271 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAI-EH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLA-DRYINSKCAKY  271 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHH-hc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChh-hHHHHHHHHHH
Confidence            33444566777888888888888776 33  555 345666667777888888888888877765543 55555566677


Q ss_pred             HHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          182 SAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       182 ~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      +.++|++++|.+++...-+.+..|-......=.-||
T Consensus       272 ~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf  307 (517)
T PF12569_consen  272 LLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWF  307 (517)
T ss_pred             HHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHH
Confidence            778888888888887776665544444555555555

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 [], [].

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=96.99  E-value=0.12  Score=51.30  Aligned_cols=160  Identities=13%  Similarity=0.086  Sum_probs=85.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC-HH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLY-LCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN-EA  102 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~-~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~-~~  102 (442)
                      -|..-|.-| ..|..++|+..++.+...  .|+-.-|..+.. .+...+        +..+|.+.++.+...  .|+ ..
T Consensus       309 ~YG~A~~~~-~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~n--------k~~~A~e~~~kal~l--~P~~~~  375 (484)
T COG4783         309 QYGRALQTY-LAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEAN--------KAKEAIERLKKALAL--DPNSPL  375 (484)
T ss_pred             HHHHHHHHH-HhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcC--------ChHHHHHHHHHHHhc--CCCccH
Confidence            444444433 245666666666665433  455555555544 555555        566666666665543  233 33


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 013497          103 SVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVS  182 (442)
Q Consensus       103 ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~  182 (442)
                      ..-.+-.+|.+.|++.+|..++..-. . ..+-|...|..|-.+|...|+..+|..-..+                  +|
T Consensus       376 l~~~~a~all~~g~~~eai~~L~~~~-~-~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE------------------~~  435 (484)
T COG4783         376 LQLNLAQALLKGGKPQEAIRILNRYL-F-NDPEDPNGWDLLAQAYAELGNRAEALLARAE------------------GY  435 (484)
T ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHh-h-cCCCCchHHHHHHHHHHHhCchHHHHHHHHH------------------HH
Confidence            34444556666666666666666554 2 2344556666666666666666555443332                  33


Q ss_pred             HhcCCHHHHHHHHHHHHhc--cCCCChHHHHHHHHHh
Q 013497          183 AETGRVEKVYQYLQKLRST--VRCVNEETGKIIEDWF  217 (442)
Q Consensus       183 ~~~g~~~~a~~ll~~m~~~--~~~p~~~t~~~li~~~  217 (442)
                      .-.|+++.|...+..-.+.  ...|+-.-+...|+..
T Consensus       436 ~~~G~~~~A~~~l~~A~~~~~~~~~~~aR~dari~~~  472 (484)
T COG4783         436 ALAGRLEQAIIFLMRASQQVKLGFPDWARADARIDQL  472 (484)
T ss_pred             HhCCCHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHH
Confidence            4466666666666655543  2334444555555555

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

Probab=96.96  E-value=0.13  Score=50.91  Aligned_cols=150  Identities=9%  Similarity=0.017  Sum_probs=107.4

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 013497           36 SKDLTTAISLYESAHSQNLRLSL-HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASK  114 (442)
Q Consensus        36 ~g~~~~A~~lf~~m~~~g~~p~~-~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~  114 (442)
                      .|+..+|..-|+......-.++. +.+-++  +|....        +.++.+..|+........ |.-+|--=-..+.-.
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~~lyI~~a~--~y~d~~--------~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL  407 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFNSLYIKRAA--AYADEN--------QSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLL  407 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccchHHHHHHH--HHhhhh--------ccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHH
Confidence            58888999999988766544443 222222  444444        677888889887765543 344455444555556


Q ss_pred             CCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 013497          115 NDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQ  193 (442)
Q Consensus       115 g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~  193 (442)
                      +++++|..=|++.. .  +.| +...|--+--+.-+.+.+++++..|++...+ ++.....||..-..+...+++++|.+
T Consensus       408 ~q~e~A~aDF~Kai-~--L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k  483 (606)
T KOG0547|consen  408 QQYEEAIADFQKAI-S--LDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVK  483 (606)
T ss_pred             HHHHHHHHHHHHHh-h--cChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHH
Confidence            78999999999887 3  345 3445555555556888999999999998765 45567789999999999999999999


Q ss_pred             HHHHHHh
Q 013497          194 YLQKLRS  200 (442)
Q Consensus       194 ll~~m~~  200 (442)
                      .++.-++
T Consensus       484 ~YD~ai~  490 (606)
T KOG0547|consen  484 QYDKAIE  490 (606)
T ss_pred             HHHHHHh
Confidence            9987654

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

Probab=96.95  E-value=0.042  Score=50.23  Aligned_cols=85  Identities=13%  Similarity=0.071  Sum_probs=39.6

Q ss_pred             HhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHH----HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 013497          112 ASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFC----ENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGR  187 (442)
Q Consensus       112 ~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~----~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~  187 (442)
                      .+..+++-|.+.++.|. .-   -+-.|.+-|..++.    ..+.+.+|+-+|++|.++ ..|+..+.|.+..++...|+
T Consensus       148 lk~~r~d~A~~~lk~mq-~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~  222 (299)
T KOG3081|consen  148 LKMHRFDLAEKELKKMQ-QI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGR  222 (299)
T ss_pred             HHHHHHHHHHHHHHHHH-cc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcC
Confidence            34445555555555555 21   12233333333322    233455555555555432 34555555555555555555


Q ss_pred             HHHHHHHHHHHHhc
Q 013497          188 VEKVYQYLQKLRST  201 (442)
Q Consensus       188 ~~~a~~ll~~m~~~  201 (442)
                      +++|..++++...+
T Consensus       223 ~eeAe~lL~eaL~k  236 (299)
T KOG3081|consen  223 YEEAESLLEEALDK  236 (299)
T ss_pred             HHHHHHHHHHHHhc
Confidence            55555555555443

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=96.94  E-value=0.039  Score=45.59  Aligned_cols=107  Identities=12%  Similarity=0.048  Sum_probs=84.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALL  179 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li  179 (442)
                      +......+...+.+.|+.++|.+.|+... ..+ ..+...|..+-..|.+.|++++|..+++.....+ ..+...+..+-
T Consensus        16 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~-~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la   92 (135)
T TIGR02552        16 QLEQIYALAYNLYQQGRYDEALKLFQLLA-AYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAA   92 (135)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHH-HhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHH
Confidence            34556677788899999999999999987 432 3366788888899999999999999999887664 33567777788


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhccCCCChHHHH
Q 013497          180 KVSAETGRVEKVYQYLQKLRSTVRCVNEETGK  211 (442)
Q Consensus       180 ~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~  211 (442)
                      ..+...|+.++|...|++..+.  .|+...+.
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~  122 (135)
T TIGR02552        93 ECLLALGEPESALKALDLAIEI--CGENPEYS  122 (135)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--ccccchHH
Confidence            8899999999999999888765  45554443

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=96.90  E-value=0.038  Score=46.64  Aligned_cols=116  Identities=12%  Similarity=-0.021  Sum_probs=89.3

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 013497           86 FRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGL  165 (442)
Q Consensus        86 ~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~  165 (442)
                      ..+|++-.+  ..|+.  +..+-..+...|++++|...|.... ... ..+...|..+-..+.+.|++++|...|+....
T Consensus        13 ~~~~~~al~--~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al-~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~   86 (144)
T PRK15359         13 EDILKQLLS--VDPET--VYASGYASWQEGDYSRAVIDFSWLV-MAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALM   86 (144)
T ss_pred             HHHHHHHHH--cCHHH--HHHHHHHHHHcCCHHHHHHHHHHHH-HcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            445555443  23443  5566778899999999999999987 432 33667888888999999999999999999987


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHH
Q 013497          166 MGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETG  210 (442)
Q Consensus       166 ~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~  210 (442)
                      .. +.+...+..+-.++...|+.++|...|+.....  .|+...+
T Consensus        87 l~-p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~--~p~~~~~  128 (144)
T PRK15359         87 LD-ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKM--SYADASW  128 (144)
T ss_pred             cC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHH
Confidence            53 336778888889999999999999999988764  4554433

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=96.86  E-value=0.062  Score=44.36  Aligned_cols=82  Identities=13%  Similarity=0.048  Sum_probs=44.5

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVE  160 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~  160 (442)
                      ++++|.+.|+.....+ +.+...+..+-..+.+.|++++|..+++... ... ..+..++..+-..|...|+.++|...|
T Consensus        32 ~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~-~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~  108 (135)
T TIGR02552        32 RYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAA-ALD-PDDPRPYFHAAECLLALGEPESALKAL  108 (135)
T ss_pred             cHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hcC-CCChHHHHHHHHHHHHcCCHHHHHHHH
Confidence            5666666666555433 2244555555556666666666666666554 221 223344445555566666666666666


Q ss_pred             HHHHH
Q 013497          161 EHMGL  165 (442)
Q Consensus       161 ~~M~~  165 (442)
                      +...+
T Consensus       109 ~~al~  113 (135)
T TIGR02552       109 DLAIE  113 (135)
T ss_pred             HHHHH
Confidence            55554

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=96.85  E-value=0.039  Score=52.28  Aligned_cols=98  Identities=9%  Similarity=0.011  Sum_probs=74.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhC-CCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013497          101 EASVTSVARLAASKNDGDYAFVLIKRMNNEF-NVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALL  179 (442)
Q Consensus       101 ~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~-g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li  179 (442)
                      +.+|..+++..-+.+..+.|..+|.+.. .. .+...+....++|. |...++.+.|..||+..... +..+...|...|
T Consensus         1 t~v~i~~m~~~~r~~g~~~aR~vF~~a~-~~~~~~~~vy~~~A~~E-~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~   77 (280)
T PF05843_consen    1 TLVWIQYMRFMRRTEGIEAARKVFKRAR-KDKRCTYHVYVAYALME-YYCNKDPKRARKIFERGLKK-FPSDPDFWLEYL   77 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-CCCCS-THHHHHHHHHH-HHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCChHHHHHHHHHHH-cCCCCCHHHHHHHHHHH-HHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHH
Confidence            3578899999999999999999999988 43 34455555555554 33457788899999998865 455778889999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhc
Q 013497          180 KVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       180 ~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      +.+.+.++.+.|..+|++....
T Consensus        78 ~~l~~~~d~~~aR~lfer~i~~   99 (280)
T PF05843_consen   78 DFLIKLNDINNARALFERAISS   99 (280)
T ss_dssp             HHHHHTT-HHHHHHHHHHHCCT
T ss_pred             HHHHHhCcHHHHHHHHHHHHHh
Confidence            9999999999999999988765

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.

>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=96.82  E-value=0.013  Score=48.23  Aligned_cols=97  Identities=9%  Similarity=0.055  Sum_probs=73.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALL  179 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li  179 (442)
                      |+.++.++|-++++.|+++....+++..   .|+.++...         ..+.         .-....+.|+..+..+++
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~---WgI~~~~~~---------~~~~---------~~~~spl~Pt~~lL~AIv   59 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSV---WGIDVNGKK---------KEGD---------YPPSSPLYPTSRLLIAIV   59 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHh---cCCCCCCcc---------ccCc---------cCCCCCCCCCHHHHHHHH
Confidence            5678889999999999999998888653   355543311         0000         123457889999999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHh-ccCCCChHHHHHHHHHh
Q 013497          180 KVSAETGRVEKVYQYLQKLRS-TVRCVNEETGKIIEDWF  217 (442)
Q Consensus       180 ~~~~~~g~~~~a~~ll~~m~~-~~~~p~~~t~~~li~~~  217 (442)
                      .+|+..|++..|.++++...+ .++..+..+|..|+.|.
T Consensus        60 ~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   60 HSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             HHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            999999999999999988754 57888888999998887

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

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

Probab=96.80  E-value=0.056  Score=45.59  Aligned_cols=127  Identities=11%  Similarity=0.020  Sum_probs=88.3

Q ss_pred             HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC
Q 013497           59 HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN--EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR  136 (442)
Q Consensus        59 ~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~--~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~  136 (442)
                      ..|..++.....+         ....+.+.++.+......-.  ....-.+-..+...|++++|...|+... ...-.|.
T Consensus        13 ~~y~~~~~~~~~~---------~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~-~~~~d~~   82 (145)
T PF09976_consen   13 ALYEQALQALQAG---------DPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKAL-ANAPDPE   82 (145)
T ss_pred             HHHHHHHHHHHCC---------CHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH-hhCCCHH
Confidence            4556666655533         57888888998887643211  2222334477889999999999999998 5542232


Q ss_pred             c--ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 013497          137 L--RTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQK  197 (442)
Q Consensus       137 ~--~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~  197 (442)
                      .  ...-.|...+...|++++|...++.......  ....+..+-+.|.+.|+.++|...|+.
T Consensus        83 l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~~~--~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   83 LKPLARLRLARILLQQGQYDEALATLQQIPDEAF--KALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHhccCcch--HHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            2  2344466778899999999999977544333  334556677789999999999998864

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

Probab=96.75  E-value=0.1  Score=46.60  Aligned_cols=129  Identities=9%  Similarity=-0.020  Sum_probs=93.7

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhcCC
Q 013497           38 DLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARL-AASKND  116 (442)
Q Consensus        38 ~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~-~~~~g~  116 (442)
                      +.+++...+....+.. +.|...|..|-.++...+        ++++|...|+...+... -|...+..+-.+ +...|+
T Consensus        54 ~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g--------~~~~A~~a~~~Al~l~P-~~~~~~~~lA~aL~~~~g~  123 (198)
T PRK10370         54 TPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRN--------DYDNALLAYRQALQLRG-ENAELYAALATVLYYQAGQ  123 (198)
T ss_pred             hHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCC
Confidence            3344555555444332 346667777766787777        99999999999887653 367778888776 467777


Q ss_pred             --HHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013497          117 --GDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKV  181 (442)
Q Consensus       117 --~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~  181 (442)
                        .++|.+++++.. +.  .| +..++..+-..+.+.|++++|...|+.+.+.. .|+..-+ .+|+.
T Consensus       124 ~~~~~A~~~l~~al-~~--dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~-~~~~~r~-~~i~~  186 (198)
T PRK10370        124 HMTPQTREMIDKAL-AL--DANEVTALMLLASDAFMQADYAQAIELWQKVLDLN-SPRVNRT-QLVES  186 (198)
T ss_pred             CCcHHHHHHHHHHH-Hh--CCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCccHH-HHHHH
Confidence              599999999988 43  44 66888888899999999999999999998753 4455444 34454

>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=96.72  E-value=0.025  Score=42.14  Aligned_cols=93  Identities=16%  Similarity=0.069  Sum_probs=69.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 013497          104 VTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVS  182 (442)
Q Consensus       104 y~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~  182 (442)
                      +..+...+...|++++|..++++.. ..  .| +...+..+...+...|++++|.+.++....... .+..++..+...+
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~-~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~   78 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKAL-EL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDP-DNAKAYYNLGLAY   78 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHH-hc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC-cchhHHHHHHHHH
Confidence            4556677788889999999998877 33  33 336677778888888999999998888776532 2345777788888


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 013497          183 AETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       183 ~~~g~~~~a~~ll~~m~~  200 (442)
                      ...|+.++|...+.+..+
T Consensus        79 ~~~~~~~~a~~~~~~~~~   96 (100)
T cd00189          79 YKLGKYEEALEAYEKALE   96 (100)
T ss_pred             HHHHhHHHHHHHHHHHHc
Confidence            888899998888877654

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

Probab=96.71  E-value=0.26  Score=48.58  Aligned_cols=178  Identities=12%  Similarity=0.060  Sum_probs=137.7

Q ss_pred             hcCCHHHHHHHHHHHHhCC-CC-CCHHHHHHHHHHHHhcC-----------C------------CCCCchhhHHHHHHHH
Q 013497           35 KSKDLTTAISLYESAHSQN-LR-LSLHHFNALLYLCSDSA-----------T------------DPSSKDSALRHGFRVF   89 (442)
Q Consensus        35 k~g~~~~A~~lf~~m~~~g-~~-p~~~ty~~ll~~~~~~~-----------~------------~~~~~~~~~~~a~~l~   89 (442)
                      ...|+++|+++|+++++.. .+ -|..+|+.+|..-....           +            +=|+-.+..++|...|
T Consensus       274 ~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YF  353 (559)
T KOG1155|consen  274 NQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYF  353 (559)
T ss_pred             hhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHH
Confidence            4578999999999999774 12 26688888875332211           1            1234556889999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 013497           90 DQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLS  169 (442)
Q Consensus        90 ~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~  169 (442)
                      +...+.+.. -...||.+=+-|....+...|.+-++... +- .+-|-+.|=.|=++|.-.+...=|+-.|++..... +
T Consensus       354 kRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAv-di-~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-P  429 (559)
T KOG1155|consen  354 KRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAV-DI-NPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-P  429 (559)
T ss_pred             HHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHH-hc-CchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-C
Confidence            998776543 46788888899999999999999999887 43 24477899999999999999999998888876542 3


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          170 LEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       170 p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      -|...|.+|-++|.+.++.++|.+.|..-...+.. +...+..|-..+
T Consensus       430 nDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~LakLy  476 (559)
T KOG1155|consen  430 NDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLAKLY  476 (559)
T ss_pred             CchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHHHHH
Confidence            37889999999999999999999999988876543 556667777777

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=96.70  E-value=0.065  Score=45.20  Aligned_cols=91  Identities=10%  Similarity=-0.068  Sum_probs=76.0

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVE  160 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~  160 (442)
                      ++++|...|+....... .+..+|..+-.++.+.|++++|...|+... ... ..+...+..+-.++.+.|+.++|...|
T Consensus        39 ~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al-~l~-p~~~~a~~~lg~~l~~~g~~~eAi~~~  115 (144)
T PRK15359         39 DYSRAVIDFSWLVMAQP-WSWRAHIALAGTWMMLKEYTTAINFYGHAL-MLD-ASHPEPVYQTGVCLKMMGEPGLAREAF  115 (144)
T ss_pred             CHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHH-hcC-CCCcHHHHHHHHHHHHcCCHHHHHHHH
Confidence            89999999999877643 478889999999999999999999999998 532 336688888889999999999999999


Q ss_pred             HHHHHCCCCCCHHHHH
Q 013497          161 EHMGLMGLSLEQQEIA  176 (442)
Q Consensus       161 ~~M~~~g~~p~~~ty~  176 (442)
                      +.....  .|+...|.
T Consensus       116 ~~Al~~--~p~~~~~~  129 (144)
T PRK15359        116 QTAIKM--SYADASWS  129 (144)
T ss_pred             HHHHHh--CCCChHHH
Confidence            998764  46554444

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

Probab=96.64  E-value=0.16  Score=56.17  Aligned_cols=168  Identities=12%  Similarity=0.048  Sum_probs=135.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|.++++.-.-.|.-+...++|+++.+..-  .-..|..|+..|.+..        ..++|-++|+.|.++-- -....|
T Consensus      1499 iWiA~lNlEn~yG~eesl~kVFeRAcqycd--~~~V~~~L~~iy~k~e--------k~~~A~ell~~m~KKF~-q~~~vW 1567 (1710)
T KOG1070|consen 1499 IWIAYLNLENAYGTEESLKKVFERACQYCD--AYTVHLKLLGIYEKSE--------KNDEADELLRLMLKKFG-QTRKVW 1567 (1710)
T ss_pred             HHHHHHhHHHhhCcHHHHHHHHHHHHHhcc--hHHHHHHHHHHHHHhh--------cchhHHHHHHHHHHHhc-chhhHH
Confidence            788888888888988999999999986532  2256777777888888        89999999999987643 466789


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc---ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL---RTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKV  181 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~---~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~  181 (442)
                      ...+..+.+..+-+.|..++.+.. .  +.|..   ....-.+..-.+.|+.+.+..+|+.....--+ -...|+.+|+.
T Consensus      1568 ~~y~~fLl~~ne~~aa~~lL~rAL-~--~lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~ 1643 (1710)
T KOG1070|consen 1568 IMYADFLLRQNEAEAARELLKRAL-K--SLPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDM 1643 (1710)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHH-h--hcchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHH
Confidence            999999999999999999998876 3  46652   23344445556899999999999998875322 45689999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhccCCCCh
Q 013497          182 SAETGRVEKVYQYLQKLRSTVRCVNE  207 (442)
Q Consensus       182 ~~~~g~~~~a~~ll~~m~~~~~~p~~  207 (442)
                      =.+.|+.+.+.++|++....++.|-.
T Consensus      1644 eik~~~~~~vR~lfeRvi~l~l~~kk 1669 (1710)
T KOG1070|consen 1644 EIKHGDIKYVRDLFERVIELKLSIKK 1669 (1710)
T ss_pred             HHccCCHHHHHHHHHHHHhcCCChhH
Confidence            99999999999999999988877664

>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=96.63  E-value=0.026  Score=46.34  Aligned_cols=54  Identities=13%  Similarity=0.072  Sum_probs=43.9

Q ss_pred             CCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHh
Q 013497          131 FNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLM-GLSLEQQEIAALLKVSAE  184 (442)
Q Consensus       131 ~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~-g~~p~~~ty~~li~~~~~  184 (442)
                      ..+.|+..+-.+++.+|+..|++..|+++.+...+. ++..+..+|..|++-+..
T Consensus        46 spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   46 SPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             CCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            456788888899999999999999999988887655 788788888888886544

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=96.62  E-value=0.16  Score=54.17  Aligned_cols=131  Identities=9%  Similarity=-0.078  Sum_probs=98.3

Q ss_pred             CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC
Q 013497           57 SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR  136 (442)
Q Consensus        57 ~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~  136 (442)
                      ++..+-.|-.+-...|        .+++|..+++...+.. +-++.....+...+.+.+++++|+..++... ..  .|+
T Consensus        85 ~~~~~~~La~i~~~~g--------~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l-~~--~p~  152 (694)
T PRK15179         85 TELFQVLVARALEAAH--------RSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYF-SG--GSS  152 (694)
T ss_pred             cHHHHHHHHHHHHHcC--------CcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHh-hc--CCC
Confidence            3444444444555555        8999999999887653 2256777888889999999999999998887 43  565


Q ss_pred             c-ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          137 L-RTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       137 ~-~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      . .....+-.++.+.|++++|.++|++....+ .-+..++..+-.++-+.|+.++|...|++-.+
T Consensus       153 ~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        153 SAREILLEAKSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             CHHHHHHHHHHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4 455666677888999999999999998733 22477888888888889999999888887754

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

Probab=96.57  E-value=0.46  Score=46.33  Aligned_cols=168  Identities=8%  Similarity=-0.038  Sum_probs=103.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCC-CCCH--
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNV-IPNE--  101 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~-~p~~--  101 (442)
                      .+..+-..+...|++++|...+++..+.. +.+...+..+-..+...|        ++++|.+.++....... .|+.  
T Consensus       116 ~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g--------~~~eA~~~l~~~l~~~~~~~~~~~  186 (355)
T cd05804         116 LLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQG--------RFKEGIAFMESWRDTWDCSSMLRG  186 (355)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcC--------CHHHHHHHHHhhhhccCCCcchhH
Confidence            33445567788999999999999988754 233455555555777777        89999999998766432 2333  


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCC-CCCcccH-H--HHHHHHHHcCCHHHHHHH--HHHHHHCCCCCCHHHH
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMNNEFNV-VPRLRTY-D--PALFCFCENLEAEKAYEV--EEHMGLMGLSLEQQEI  175 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~-~p~~~ty-~--~li~~~~~~g~~~~A~~l--~~~M~~~g~~p~~~ty  175 (442)
                      ..|..+...+...|+.++|..++++.. .... .+..... +  .++.-+-..|..+.+.+.  ...............+
T Consensus       187 ~~~~~la~~~~~~G~~~~A~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~  265 (355)
T cd05804         187 HNWWHLALFYLERGDYEAALAIYDTHI-APSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAF  265 (355)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHh-ccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchH
Confidence            345678888999999999999999976 3221 1222111 1  333334445543333332  1111111111111222


Q ss_pred             H--HHHHHHHhcCCHHHHHHHHHHHHhcc
Q 013497          176 A--ALLKVSAETGRVEKVYQYLQKLRSTV  202 (442)
Q Consensus       176 ~--~li~~~~~~g~~~~a~~ll~~m~~~~  202 (442)
                      +  ....++...|+.++|..++..++...
T Consensus       266 ~~~~~a~~~~~~~~~~~a~~~L~~l~~~~  294 (355)
T cd05804         266 NDLHAALALAGAGDKDALDKLLAALKGRA  294 (355)
T ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHHHH
Confidence            3  45666778999999999999987743

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.

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

Probab=96.54  E-value=1  Score=47.98  Aligned_cols=185  Identities=12%  Similarity=0.023  Sum_probs=119.9

Q ss_pred             CCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCC
Q 013497           20 PNPET--NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNV   97 (442)
Q Consensus        20 ~~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~   97 (442)
                      ..|+.  .+.---..+++ |++++|.+++.+..+.. +.+...|-+|=..|...|        +.+++...+-..--. .
T Consensus       135 l~~~l~~ll~eAN~lfar-g~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrG--------d~eK~l~~~llAAHL-~  203 (895)
T KOG2076|consen  135 LAPELRQLLGEANNLFAR-GDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRG--------DIEKALNFWLLAAHL-N  203 (895)
T ss_pred             cCHHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcc--------cHHHHHHHHHHHHhc-C
Confidence            44544  45555555666 99999999999987654 346678888887888887        777777655433222 2


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 013497           98 IPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAA  177 (442)
Q Consensus        98 ~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~  177 (442)
                      +-|---|-.+-....+.|+++.|.-.|.+.. +.. .++...+--=...|-+.|+...|.+-|.+|....-.-|..-+..
T Consensus       204 p~d~e~W~~ladls~~~~~i~qA~~cy~rAI-~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d  281 (895)
T KOG2076|consen  204 PKDYELWKRLADLSEQLGNINQARYCYSRAI-QAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIED  281 (895)
T ss_pred             CCChHHHHHHHHHHHhcccHHHHHHHHHHHH-hcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHH
Confidence            3356778888888888888888888888877 432 34544445556677788888888888888876532222222223


Q ss_pred             H----HHHHHhcCCHHHHHHHHHHHHh-ccCCCChHHHHHHHHHh
Q 013497          178 L----LKVSAETGRVEKVYQYLQKLRS-TVRCVNEETGKIIEDWF  217 (442)
Q Consensus       178 l----i~~~~~~g~~~~a~~ll~~m~~-~~~~p~~~t~~~li~~~  217 (442)
                      +    +..+...++.+.|.+.|..-.. .+-..+...++++...|
T Consensus       282 ~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~  326 (895)
T KOG2076|consen  282 LIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELF  326 (895)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHH
Confidence            3    4445556666777777765544 23334444555555555

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

Probab=96.43  E-value=0.25  Score=45.33  Aligned_cols=118  Identities=16%  Similarity=0.168  Sum_probs=85.9

Q ss_pred             chhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCH
Q 013497           78 KDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAAS----KNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEA  153 (442)
Q Consensus        78 ~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~----~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~  153 (442)
                      +..+++-|.+.++.|.+-   -+..|.+-|..++.+    .+.+.+|+-+|++|. + +..|+.-+-|-...++...|++
T Consensus       149 k~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s-~-k~~~T~~llnG~Av~~l~~~~~  223 (299)
T KOG3081|consen  149 KMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELS-E-KTPPTPLLLNGQAVCHLQLGRY  223 (299)
T ss_pred             HHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHh-c-ccCCChHHHccHHHHHHHhcCH
Confidence            445778888888888653   356777756555544    567899999999998 3 3688899999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHhc
Q 013497          154 EKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRV-EKVYQYLQKLRST  201 (442)
Q Consensus       154 ~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~-~~a~~ll~~m~~~  201 (442)
                      ++|..++++...+.-. +..|...+|-.-...|.. +-..+.+.+++..
T Consensus       224 eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  224 EEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             HHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence            9999999999877543 566666666666566654 3345566666543

>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=96.42  E-value=0.095  Score=38.85  Aligned_cols=91  Identities=11%  Similarity=0.016  Sum_probs=43.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 013497           28 INLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSV  107 (442)
Q Consensus        28 ~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~l  107 (442)
                      .+...+...|++++|+.+|.++.+..- .+...+..+-..+...+        ++++|.+.|+....... .+..++..+
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~--------~~~~a~~~~~~~~~~~~-~~~~~~~~~   74 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLG--------KYEEALEDYEKALELDP-DNAKAYYNL   74 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHhCCC-cchhHHHHH
Confidence            344445555666666666665544321 11223333333333333        55555555555444321 222445555


Q ss_pred             HHHHHhcCCHHHHHHHHHHhH
Q 013497          108 ARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus       108 i~~~~~~g~~~~A~~~~~~m~  128 (442)
                      ...+...|+.++|...+....
T Consensus        75 ~~~~~~~~~~~~a~~~~~~~~   95 (100)
T cd00189          75 GLAYYKLGKYEEALEAYEKAL   95 (100)
T ss_pred             HHHHHHHHhHHHHHHHHHHHH
Confidence            555555555555555555543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=96.36  E-value=0.093  Score=41.90  Aligned_cols=96  Identities=14%  Similarity=-0.057  Sum_probs=74.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc----ccHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCCHHHHH
Q 013497          103 SVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL----RTYDPALFCFCENLEAEKAYEVEEHMGLMG--LSLEQQEIA  176 (442)
Q Consensus       103 ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~----~ty~~li~~~~~~g~~~~A~~l~~~M~~~g--~~p~~~ty~  176 (442)
                      ++-.+...+.+.|++++|.+.|..+. ..  .|+.    ..+..+...+.+.|+++.|...|+......  .......+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~-~~--~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~   80 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFL-KK--YPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALL   80 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH-HH--CCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHH
Confidence            45667777888999999999999987 43  2332    355668888999999999999999987642  111245677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          177 ALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       177 ~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      .+...+.+.|+.++|...+.++...
T Consensus        81 ~~~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        81 KLGMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHHH
Confidence            7778888999999999999998876

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.

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

Probab=96.33  E-value=0.22  Score=49.15  Aligned_cols=162  Identities=14%  Similarity=0.122  Sum_probs=130.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      |..++-+-|+-.++.++|+..|++..+.+-+ ....|+.+=+=|..-.        +...|.+-|+...+-. +.|-..|
T Consensus       332 TCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmK--------Nt~AAi~sYRrAvdi~-p~DyRAW  401 (559)
T KOG1155|consen  332 TCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMK--------NTHAAIESYRRAVDIN-PRDYRAW  401 (559)
T ss_pred             ceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhc--------ccHHHHHHHHHHHhcC-chhHHHH
Confidence            3444555677788999999999998865421 2244544444677666        7888999999887654 3488899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      -.|=.+|.-.+.+.-|+-.|++..   .++| |.+.|.+|=.+|.+.+++++|.+-|......|-. +...|..|-+.|-
T Consensus       402 YGLGQaYeim~Mh~YaLyYfqkA~---~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~LakLye  477 (559)
T KOG1155|consen  402 YGLGQAYEIMKMHFYALYYFQKAL---ELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLAKLYE  477 (559)
T ss_pred             hhhhHHHHHhcchHHHHHHHHHHH---hcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHHHHHH
Confidence            999999999999999999999877   3466 6799999999999999999999999998877644 5578999999999


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 013497          184 ETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       184 ~~g~~~~a~~ll~~m~~  200 (442)
                      +.++.++|...+.+-.+
T Consensus       478 ~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  478 ELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHhHHHHHHHHHHHHH
Confidence            99999999998877655

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=96.27  E-value=0.31  Score=52.04  Aligned_cols=140  Identities=9%  Similarity=0.009  Sum_probs=109.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALL-YLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEAS  103 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll-~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~t  103 (442)
                      .+-.|-....+.|..++|..+++...+.  .|+....-... ..+.+.+        ++++|+..+++....... +...
T Consensus        88 ~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~--------~~eeA~~~~~~~l~~~p~-~~~~  156 (694)
T PRK15179         88 FQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQ--------GIEAGRAEIELYFSGGSS-SARE  156 (694)
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhc--------cHHHHHHHHHHHhhcCCC-CHHH
Confidence            6777778888899999999999998764  67665544444 4777777        999999999998876432 5667


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013497          104 VTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALL  179 (442)
Q Consensus       104 y~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li  179 (442)
                      .+.+-.++.+.|+.++|..+|++.. ..  .|+ ..++..+-.++-..|+.++|...|+...+. ..|...-|+.++
T Consensus       157 ~~~~a~~l~~~g~~~~A~~~y~~~~-~~--~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~-~~~~~~~~~~~~  229 (694)
T PRK15179        157 ILLEAKSWDEIGQSEQADACFERLS-RQ--HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDA-IGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHH-hc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-hCcchHHHHHHH
Confidence            7788889999999999999999998 53  344 678888888899999999999999998754 233445555444

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

Probab=96.22  E-value=1.7  Score=46.44  Aligned_cols=158  Identities=13%  Similarity=0.067  Sum_probs=113.2

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 013497           32 SCTKSKDLTTAISLYESAHSQNL--RLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVAR  109 (442)
Q Consensus        32 ~~~k~g~~~~A~~lf~~m~~~g~--~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~  109 (442)
                      ++......+.+..+.....+.++  .-++..|--+-.++...+        ++..|.++|..+...-.--+.+.|--+-+
T Consensus       386 cL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~--------~~~~Al~~l~~i~~~~~~~~~~vw~~~a~  457 (895)
T KOG2076|consen  386 CLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIG--------KYKEALRLLSPITNREGYQNAFVWYKLAR  457 (895)
T ss_pred             hhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcc--------cHHHHHHHHHHHhcCccccchhhhHHHHH
Confidence            34444444445555555555553  334455666666888888        99999999999988766667889999999


Q ss_pred             HHHhcCCHHHHHHHHHHhHhhCCCCCCc-ccHHHHHHHHHHcCCHHHHHHHHHHHH--------HCCCCCCHHHHHHHHH
Q 013497          110 LAASKNDGDYAFVLIKRMNNEFNVVPRL-RTYDPALFCFCENLEAEKAYEVEEHMG--------LMGLSLEQQEIAALLK  180 (442)
Q Consensus       110 ~~~~~g~~~~A~~~~~~m~~~~g~~p~~-~ty~~li~~~~~~g~~~~A~~l~~~M~--------~~g~~p~~~ty~~li~  180 (442)
                      +|-..|..++|.+.++... .  ..|+. -.=-+|-..+-+.|+.++|.++++.|.        ..+..|+...---..+
T Consensus       458 c~~~l~e~e~A~e~y~kvl-~--~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d  534 (895)
T KOG2076|consen  458 CYMELGEYEEAIEFYEKVL-I--LAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCD  534 (895)
T ss_pred             HHHHHhhHHHHHHHHHHHH-h--cCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHH
Confidence            9999999999999999988 3  35543 233445566778999999999999964        2234555555555666


Q ss_pred             HHHhcCCHHHHHHHHHHHHh
Q 013497          181 VSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       181 ~~~~~g~~~~a~~ll~~m~~  200 (442)
                      .+...|+.++-......|..
T Consensus       535 ~l~~~gk~E~fi~t~~~Lv~  554 (895)
T KOG2076|consen  535 ILFQVGKREEFINTASTLVD  554 (895)
T ss_pred             HHHHhhhHHHHHHHHHHHHH
Confidence            77788888887666666654

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=96.17  E-value=0.22  Score=43.22  Aligned_cols=111  Identities=11%  Similarity=0.083  Sum_probs=76.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC--cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHH
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR--LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSL-EQQEIA  176 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~--~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p-~~~ty~  176 (442)
                      ....|..+-..+...|++++|...|++.. ...-.|.  ...+..+-..|.+.|+.++|.+.+++....  .| +...+.
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al-~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~  110 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEAL-KLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALN  110 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHH
Confidence            34567777788888999999999999887 4322221  357888888899999999999999888764  23 345555


Q ss_pred             HHHHHHHhcCC--------------HHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          177 ALLKVSAETGR--------------VEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       177 ~li~~~~~~g~--------------~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      .+...+...|+              +++|.+++.+...    .++..|..++.|+
T Consensus       111 ~lg~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~----~~p~~~~~~~~~~  161 (172)
T PRK02603        111 NIAVIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIR----LAPNNYIEAQNWL  161 (172)
T ss_pred             HHHHHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHh----hCchhHHHHHHHH
Confidence            66666666655              3455555555443    4555577888888

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=96.15  E-value=0.13  Score=51.48  Aligned_cols=150  Identities=11%  Similarity=0.146  Sum_probs=111.5

Q ss_pred             HHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCC
Q 013497           39 LTTAISLYESAHS-QNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIP-NEASVTSVARLAASKND  116 (442)
Q Consensus        39 ~~~A~~lf~~m~~-~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p-~~~ty~~li~~~~~~g~  116 (442)
                      .+...+.++++.. ..+.|+ .+|..+|+.-.+..        .++.|..+|.+..+.+..+ +++.++++|.-||. ++
T Consensus       347 ~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~e--------GlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD  416 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAE--------GLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KD  416 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhh--------hHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CC
Confidence            5566666776653 345555 56777788555554        5888999999998888877 88899999988886 57


Q ss_pred             HHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCHHHHHHH
Q 013497          117 GDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQ--QEIAALLKVSAETGRVEKVYQY  194 (442)
Q Consensus       117 ~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~--~ty~~li~~~~~~g~~~~a~~l  194 (442)
                      .+-|.++|+--....|-.|  .--..-+.-+..-++=..|..+|+.....++.||.  ..|..+|+.=.+-|++..+.++
T Consensus       417 ~~~AfrIFeLGLkkf~d~p--~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~l  494 (656)
T KOG1914|consen  417 KETAFRIFELGLKKFGDSP--EYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKL  494 (656)
T ss_pred             hhHHHHHHHHHHHhcCCCh--HHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHH
Confidence            7889999987542444222  23345677777888888899999999888776654  6899999998899999998888


Q ss_pred             HHHHHh
Q 013497          195 LQKLRS  200 (442)
Q Consensus       195 l~~m~~  200 (442)
                      -+++..
T Consensus       495 ekR~~~  500 (656)
T KOG1914|consen  495 EKRRFT  500 (656)
T ss_pred             HHHHHH
Confidence            877754

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=96.09  E-value=0.6  Score=42.60  Aligned_cols=99  Identities=8%  Similarity=0.017  Sum_probs=65.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc----ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCH-H
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL----RTYDPALFCFCENLEAEKAYEVEEHMGLMGLS-LEQ-Q  173 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~----~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~-p~~-~  173 (442)
                      ....+-.+...+...|++++|...|++.. ..  .|+.    .++..+-.+|.+.|++++|...++.+.+..-. |.. .
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~-~~--~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~  108 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALE-SR--YPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADY  108 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hh--CCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHH
Confidence            45566677777888889999998888877 32  3432    35566677888889999999998888764321 111 1


Q ss_pred             HHHHHHHHHHhc--------CCHHHHHHHHHHHHhc
Q 013497          174 EIAALLKVSAET--------GRVEKVYQYLQKLRST  201 (442)
Q Consensus       174 ty~~li~~~~~~--------g~~~~a~~ll~~m~~~  201 (442)
                      ++..+-.++.+.        |+.++|.+.|++....
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  144 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR  144 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH
Confidence            233333334333        6778888888888654

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=96.08  E-value=0.15  Score=52.97  Aligned_cols=186  Identities=10%  Similarity=0.006  Sum_probs=131.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--------------------CCCCCchhhHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSA--------------------TDPSSKDSALRH   84 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~--------------------~~~~~~~~~~~~   84 (442)
                      .|.-+|.+|+..|+..+|..+..+-.+  -+||+.-|..|........                    .....+.+++++
T Consensus       426 mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~yEkawElsn~~sarA~r~~~~~~~~~~~fs~  503 (777)
T KOG1128|consen  426 MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSLYEKAWELSNYISARAQRSLALLILSNKDFSE  503 (777)
T ss_pred             HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHHHHHHHHHhhhhhHHHHHhhccccccchhHHH
Confidence            577789999999999999888877665  4688888888755332211                    011223456777


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc-ccHHHHHHHHHHcCCHHHHHHHHHHH
Q 013497           85 GFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL-RTYDPALFCFCENLEAEKAYEVEEHM  163 (442)
Q Consensus        85 a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~-~ty~~li~~~~~~g~~~~A~~l~~~M  163 (442)
                      +.+.|+.-.+... .-..||=.+=.+..+.+++..|.+-|..-.   ...||. ..||.+-.+|.+.|+-.+|+..+.+-
T Consensus       504 ~~~hle~sl~~np-lq~~~wf~~G~~ALqlek~q~av~aF~rcv---tL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EA  579 (777)
T KOG1128|consen  504 ADKHLERSLEINP-LQLGTWFGLGCAALQLEKEQAAVKAFHRCV---TLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEA  579 (777)
T ss_pred             HHHHHHHHhhcCc-cchhHHHhccHHHHHHhhhHHHHHHHHHHh---hcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHH
Confidence            7777765433221 123455555556677889999999998877   346765 67999999999999999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC-CCChHHHHHHHHHh
Q 013497          164 GLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVR-CVNEETGKIIEDWF  217 (442)
Q Consensus       164 ~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~-~p~~~t~~~li~~~  217 (442)
                      .+.+ .-+...|...+-...+.|.+++|.+.+++|..... .-+...-..++...
T Consensus       580 lKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~~d~~vl~~iv~~~  633 (777)
T KOG1128|consen  580 LKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKYKDDEVLLIIVRTV  633 (777)
T ss_pred             hhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhcccchhhHHHHHHH
Confidence            9888 44667788888889999999999999998865321 12444444444443

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

Probab=96.07  E-value=0.16  Score=47.92  Aligned_cols=167  Identities=9%  Similarity=0.027  Sum_probs=130.7

Q ss_pred             CHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCC
Q 013497           22 PET-NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLY-LCSDSATDPSSKDSALRHGFRVFDQMLSNNVIP   99 (442)
Q Consensus        22 p~~-~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~-~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p   99 (442)
                      |-. ||-.|-..|.+....+.|+.+|.+-.+.  .|-.+||-.=+. .+..-+        ..++|.++|....+.- +-
T Consensus       254 ~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~eam~--------~~~~a~~lYk~vlk~~-~~  322 (478)
T KOG1129|consen  254 PHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEAME--------QQEDALQLYKLVLKLH-PI  322 (478)
T ss_pred             CchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHHHH--------hHHHHHHHHHHHHhcC-Cc
Confidence            444 8999999999999999999999987654  566677765554 555555        7899999999876642 34


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH--HHHHH
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQ--QEIAA  177 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~--~ty~~  177 (442)
                      |+.....+-.+|.-.++++.|+..++.+. .-|+. +...|+.+--+|.-.+++|-++--|......--.|+.  ..|-.
T Consensus       323 nvEaiAcia~~yfY~~~PE~AlryYRRiL-qmG~~-speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYN  400 (478)
T KOG1129|consen  323 NVEAIACIAVGYFYDNNPEMALRYYRRIL-QMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYN  400 (478)
T ss_pred             cceeeeeeeeccccCCChHHHHHHHHHHH-HhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhc
Confidence            67777788888999999999999999999 78865 5667888878888899999999988887765444443  35666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          178 LLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       178 li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      |-...+..|++..|.+.|+--..+
T Consensus       401 lg~vaV~iGD~nlA~rcfrlaL~~  424 (478)
T KOG1129|consen  401 LGFVAVTIGDFNLAKRCFRLALTS  424 (478)
T ss_pred             cceeEEeccchHHHHHHHHHHhcc
Confidence            666677899999999999876654

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=95.99  E-value=0.016  Score=43.87  Aligned_cols=76  Identities=16%  Similarity=0.155  Sum_probs=34.5

Q ss_pred             CCHHHHHHHHHHhHhhCCCCC---CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHH
Q 013497          115 NDGDYAFVLIKRMNNEFNVVP---RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQ-QEIAALLKVSAETGRVEK  190 (442)
Q Consensus       115 g~~~~A~~~~~~m~~~~g~~p---~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~-~ty~~li~~~~~~g~~~~  190 (442)
                      |+++.|+.+++.+. ..  .|   +...+-.+-.+|.+.|+.++|.++++. ..  ..|+. ...-.+-.++.+.|++++
T Consensus         3 ~~y~~Ai~~~~k~~-~~--~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~--~~~~~~~~~~l~a~~~~~l~~y~e   76 (84)
T PF12895_consen    3 GNYENAIKYYEKLL-EL--DPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LK--LDPSNPDIHYLLARCLLKLGKYEE   76 (84)
T ss_dssp             T-HHHHHHHHHHHH-HH--HCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HT--HHHCHHHHHHHHHHHHHHTT-HHH
T ss_pred             ccHHHHHHHHHHHH-HH--CCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hC--CCCCCHHHHHHHHHHHHHhCCHHH
Confidence            45555666665555 22  22   222233345555566666666666555 11  11111 222233444555666666


Q ss_pred             HHHHHH
Q 013497          191 VYQYLQ  196 (442)
Q Consensus       191 a~~ll~  196 (442)
                      |.++|.
T Consensus        77 Ai~~l~   82 (84)
T PF12895_consen   77 AIKALE   82 (84)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            665554

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=95.95  E-value=0.26  Score=39.27  Aligned_cols=84  Identities=10%  Similarity=-0.073  Sum_probs=67.3

Q ss_pred             hHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC----cccHHHHHHHHHHcCCHH
Q 013497           81 ALRHGFRVFDQMLSNNVI--PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR----LRTYDPALFCFCENLEAE  154 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~--p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~----~~ty~~li~~~~~~g~~~  154 (442)
                      ++++|.+.|+.+......  .....+..+...+.+.|++++|...|+... ..  .|+    ..++..+..++.+.|+.+
T Consensus        17 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~--~p~~~~~~~~~~~~~~~~~~~~~~~   93 (119)
T TIGR02795        17 DYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVV-KK--YPKSPKAPDALLKLGMSLQELGDKE   93 (119)
T ss_pred             CHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHH-HH--CCCCCcccHHHHHHHHHHHHhCChH
Confidence            899999999999865321  124466778999999999999999999987 32  243    345777778899999999


Q ss_pred             HHHHHHHHHHHCC
Q 013497          155 KAYEVEEHMGLMG  167 (442)
Q Consensus       155 ~A~~l~~~M~~~g  167 (442)
                      +|...++++....
T Consensus        94 ~A~~~~~~~~~~~  106 (119)
T TIGR02795        94 KAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHHHHHHHC
Confidence            9999999998764

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.

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

Probab=95.91  E-value=0.36  Score=44.17  Aligned_cols=160  Identities=8%  Similarity=-0.081  Sum_probs=119.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHH
Q 013497           27 LINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTS  106 (442)
Q Consensus        27 ~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~  106 (442)
                      .-+=..+--.|+-+.+..+........ .-|...-+.+...-.+.|        ++..|...|.+.... -++|..+||.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g--------~~~~A~~~~rkA~~l-~p~d~~~~~~  139 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNG--------NFGEAVSVLRKAARL-APTDWEAWNL  139 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhc--------chHHHHHHHHHHhcc-CCCChhhhhH
Confidence            444455666777777777766644221 224444555666666666        899999999987654 4678999999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 013497          107 VARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAET  185 (442)
Q Consensus       107 li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~  185 (442)
                      +=-+|-+.|+.++|..-|.+-. +  +.| +...+|.|--.|.-.|+.+.|..++..-...+.. |...-..|.-.....
T Consensus       140 lgaaldq~Gr~~~Ar~ay~qAl-~--L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~  215 (257)
T COG5010         140 LGAALDQLGRFDEARRAYRQAL-E--LAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQ  215 (257)
T ss_pred             HHHHHHHccChhHHHHHHHHHH-H--hccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhc
Confidence            9999999999999999998877 4  344 3467888888899999999999999998877654 455557777788889


Q ss_pred             CCHHHHHHHHHHHHh
Q 013497          186 GRVEKVYQYLQKLRS  200 (442)
Q Consensus       186 g~~~~a~~ll~~m~~  200 (442)
                      |++++|.++...-..
T Consensus       216 g~~~~A~~i~~~e~~  230 (257)
T COG5010         216 GDFREAEDIAVQELL  230 (257)
T ss_pred             CChHHHHhhcccccc
Confidence            999999988765543

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

Probab=95.79  E-value=0.33  Score=48.20  Aligned_cols=114  Identities=11%  Similarity=0.139  Sum_probs=55.5

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC----cccHHHHHHH----HHHcCC
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR----LRTYDPALFC----FCENLE  152 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~----~~ty~~li~~----~~~~g~  152 (442)
                      ++++++..|++.+++- +--...||-.-..+...++++.|.+.|+... +  +.|+    .+.-.++|+-    +--.++
T Consensus       443 k~~~~m~~Fee~kkkF-P~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai-~--LE~~~~~~~v~~~plV~Ka~l~~qwk~d  518 (606)
T KOG0547|consen  443 KIAESMKTFEEAKKKF-PNCPEVYNLFAEILTDQQQFDKAVKQYDKAI-E--LEPREHLIIVNAAPLVHKALLVLQWKED  518 (606)
T ss_pred             HHHHHHHHHHHHHHhC-CCCchHHHHHHHHHhhHHhHHHHHHHHHHHH-h--hccccccccccchhhhhhhHhhhchhhh
Confidence            4555555555554442 2233445555555555555555555555544 2  1222    0111111110    001255


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 013497          153 AEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLR  199 (442)
Q Consensus       153 ~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~  199 (442)
                      +..|.++++...+..-+ ....|.+|-..-.+.|++++|.++|++-.
T Consensus       519 ~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  519 INQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             HHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            55555555555443221 34456666666667777777777776544

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=95.77  E-value=1.6  Score=43.47  Aligned_cols=159  Identities=8%  Similarity=-0.011  Sum_probs=111.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+...+.+.-....-..+-.++.+-.+.  .-...-|..-+..+..+         .++.|+..++.+... .+-|..-.
T Consensus       276 ~~~~r~~~~~~~~~~~~~~~~~~~~~~~--~~~aa~YG~A~~~~~~~---------~~d~A~~~l~~L~~~-~P~N~~~~  343 (484)
T COG4783         276 LARARIRAKYEALPNQQAADLLAKRSKR--GGLAAQYGRALQTYLAG---------QYDEALKLLQPLIAA-QPDNPYYL  343 (484)
T ss_pred             HHHHHHHHHhccccccchHHHHHHHhCc--cchHHHHHHHHHHHHhc---------ccchHHHHHHHHHHh-CCCCHHHH
Confidence            5555555544444333343333332221  22345566666655444         688899999997655 33466667


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc-ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL-RTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~-~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      ......+.+.++.++|.+.++.+. .  ..|+. ...-.+-.+|.+.|+..+|..+++.-... .+-|...|..|-.+|.
T Consensus       344 ~~~~~i~~~~nk~~~A~e~~~kal-~--l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~-~p~dp~~w~~LAqay~  419 (484)
T COG4783         344 ELAGDILLEANKAKEAIERLKKAL-A--LDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFN-DPEDPNGWDLLAQAYA  419 (484)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHH-h--cCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhc-CCCCchHHHHHHHHHH
Confidence            777789999999999999999988 4  36763 44555668889999999999999887654 3457889999999999


Q ss_pred             hcCCHHHHHHHHHHHH
Q 013497          184 ETGRVEKVYQYLQKLR  199 (442)
Q Consensus       184 ~~g~~~~a~~ll~~m~  199 (442)
                      ..|+..++..-.-+.-
T Consensus       420 ~~g~~~~a~~A~AE~~  435 (484)
T COG4783         420 ELGNRAEALLARAEGY  435 (484)
T ss_pred             HhCchHHHHHHHHHHH
Confidence            9999988877665553

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

Probab=95.71  E-value=0.95  Score=41.46  Aligned_cols=124  Identities=6%  Similarity=-0.050  Sum_probs=93.0

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVE  160 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~  160 (442)
                      .-+.+..+...... ...-|....++.+....+.|++.+|...|.+.. . .-.||..+||.+=-+|-+.|+.+.|..-|
T Consensus        81 ~a~~~l~~~~~~~~-~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~-~-l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay  157 (257)
T COG5010          81 DADSSLAVLQKSAI-AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAA-R-LAPTDWEAWNLLGAALDQLGRFDEARRAY  157 (257)
T ss_pred             cccchHHHHhhhhc-cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHh-c-cCCCChhhhhHHHHHHHHccChhHHHHHH
Confidence            34445555444322 123355566779999999999999999999987 4 34789999999999999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChH
Q 013497          161 EHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEE  208 (442)
Q Consensus       161 ~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~  208 (442)
                      .+..+.-.. +...+|.|--.|.-.|+.+.|..++..-...+-..+.+
T Consensus       158 ~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v  204 (257)
T COG5010         158 RQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRV  204 (257)
T ss_pred             HHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHH
Confidence            887765221 34456777777778999999999999888765443333

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.69  E-value=0.31  Score=47.95  Aligned_cols=144  Identities=14%  Similarity=0.137  Sum_probs=111.1

Q ss_pred             HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc
Q 013497           59 HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNN-VIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL  137 (442)
Q Consensus        59 ~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g-~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~  137 (442)
                      .+|.++|+.-.+..        .++.|..+|-+..+.| +.+++..++++|.-+|. |+..-|..+|+--. ..  -||.
T Consensus       398 ~v~C~~~N~v~r~~--------Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl-~~--f~d~  465 (660)
T COG5107         398 FVFCVHLNYVLRKR--------GLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGL-LK--FPDS  465 (660)
T ss_pred             hHHHHHHHHHHHHh--------hHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHH-Hh--CCCc
Confidence            56777888555544        5999999999999999 67999999999999886 67888999998754 22  3555


Q ss_pred             ccH-HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHH
Q 013497          138 RTY-DPALFCFCENLEAEKAYEVEEHMGLMGLSLE--QQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIE  214 (442)
Q Consensus       138 ~ty-~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~--~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li  214 (442)
                      ..| +-.+.-+..-++-+.|..+|+.-.+. +.-+  ...|..+|+.=.+-|++..|..+=++|+..  .|...+..+..
T Consensus       466 ~~y~~kyl~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~  542 (660)
T COG5107         466 TLYKEKYLLFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFT  542 (660)
T ss_pred             hHHHHHHHHHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHH
Confidence            444 45677778899999999999944332 1112  357999999999999999999999988765  67777777766


Q ss_pred             HHh
Q 013497          215 DWF  217 (442)
Q Consensus       215 ~~~  217 (442)
                      +-|
T Consensus       543 Sry  545 (660)
T COG5107         543 SRY  545 (660)
T ss_pred             HHH
Confidence            666

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=95.69  E-value=0.57  Score=47.19  Aligned_cols=170  Identities=14%  Similarity=0.138  Sum_probs=124.8

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 013497           39 LTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGD  118 (442)
Q Consensus        39 ~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~  118 (442)
                      .++|.++++...+.-.+-+..+|..+-. +.....+..    ..+.....++.....-..--+.+|-.+|+.--+..-+.
T Consensus       309 t~e~~~~yEr~I~~l~~~~~~Ly~~~a~-~eE~~~~~n----~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlk  383 (656)
T KOG1914|consen  309 TDEAASIYERAIEGLLKENKLLYFALAD-YEESRYDDN----KEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLK  383 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHh-hHHHhcccc----hhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHH
Confidence            6888888888665444557778877755 222211111    46667777777765433333467888999999999999


Q ss_pred             HHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHH-HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 013497          119 YAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEH-MGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQ  196 (442)
Q Consensus       119 ~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~-M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~  196 (442)
                      .|..+|.+.. +.+..+ +++.++++|.-||. ++.+.|+++|+- |...|-.|  .--...++.+...++-..+.-+|+
T Consensus       384 aaR~iF~kaR-~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkkf~d~p--~yv~~YldfL~~lNdd~N~R~LFE  459 (656)
T KOG1914|consen  384 AARKIFKKAR-EDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKKFGDSP--EYVLKYLDFLSHLNDDNNARALFE  459 (656)
T ss_pred             HHHHHHHHHh-hccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHhcCCCh--HHHHHHHHHHHHhCcchhHHHHHH
Confidence            9999999999 777777 88999999998875 778999999987 44444332  223578888999999999999999


Q ss_pred             HHHhccCCCCh--HHHHHHHHHh
Q 013497          197 KLRSTVRCVNE--ETGKIIEDWF  217 (442)
Q Consensus       197 ~m~~~~~~p~~--~t~~~li~~~  217 (442)
                      +....++.|+.  ..|..+++.=
T Consensus       460 r~l~s~l~~~ks~~Iw~r~l~yE  482 (656)
T KOG1914|consen  460 RVLTSVLSADKSKEIWDRMLEYE  482 (656)
T ss_pred             HHHhccCChhhhHHHHHHHHHHH
Confidence            99998777665  4787777644

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

Probab=95.64  E-value=0.19  Score=53.66  Aligned_cols=158  Identities=12%  Similarity=0.072  Sum_probs=109.4

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 013497           37 KDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKND  116 (442)
Q Consensus        37 g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~  116 (442)
                      +..+.|+++|.+..+..- -|.+.=|-+=-.++..|        ++.+|.+||.+..+.... +.-+|-.+-++|...|+
T Consensus       626 k~~~KAlq~y~kvL~~dp-kN~yAANGIgiVLA~kg--------~~~~A~dIFsqVrEa~~~-~~dv~lNlah~~~e~~q  695 (1018)
T KOG2002|consen  626 KHQEKALQLYGKVLRNDP-KNMYAANGIGIVLAEKG--------RFSEARDIFSQVREATSD-FEDVWLNLAHCYVEQGQ  695 (1018)
T ss_pred             HHHHHHHHHHHHHHhcCc-chhhhccchhhhhhhcc--------CchHHHHHHHHHHHHHhh-CCceeeeHHHHHHHHHH
Confidence            345677778777665431 23333333322334444        899999999999887652 34467789999999999


Q ss_pred             HHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH--------------
Q 013497          117 GDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVS--------------  182 (442)
Q Consensus       117 ~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~--------------  182 (442)
                      +..|.++|+...+.+.-.-+...-+.|-.++.++|.+.+|.+..-........-..+-||..+-..              
T Consensus       696 y~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~  775 (1018)
T KOG2002|consen  696 YRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTL  775 (1018)
T ss_pred             HHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccH
Confidence            999999999876455545566778888899999999999988766655444433455566544321              


Q ss_pred             ----HhcCCHHHHHHHHHHHHhccCC
Q 013497          183 ----AETGRVEKVYQYLQKLRSTVRC  204 (442)
Q Consensus       183 ----~~~g~~~~a~~ll~~m~~~~~~  204 (442)
                          ...+..+.|.++|.+|...+-.
T Consensus       776 eev~~a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  776 EEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence                1234578899999999887665

>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=95.61  E-value=1.3  Score=45.70  Aligned_cols=163  Identities=9%  Similarity=-0.006  Sum_probs=114.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC----C----------CCCCHHHHHHHHH--HHHhcCCCCCCchhhHHHHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQ----N----------LRLSLHHFNALLY--LCSDSATDPSSKDSALRHGFRV   88 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~----g----------~~p~~~ty~~ll~--~~~~~~~~~~~~~~~~~~a~~l   88 (442)
                      +|+.|-..|.......-..+++......    +          -.|+...|...+-  .|...|        ..++|+++
T Consensus       145 lF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g--------~~~~Al~~  216 (517)
T PF12569_consen  145 LFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLG--------DYEKALEY  216 (517)
T ss_pred             HHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhC--------CHHHHHHH
Confidence            4555555566555555555666665422    1          1345545544432  565666        89999999


Q ss_pred             HHHHHhCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 013497           89 FDQMLSNNVIPN-EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMG  167 (442)
Q Consensus        89 ~~~M~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g  167 (442)
                      .+.-.+..  |+ +-.|.+-.+.|-+.|++++|.+.+++.+ ... .-|...=+-.+..+.++|++++|.+++......+
T Consensus       217 Id~aI~ht--Pt~~ely~~KarilKh~G~~~~Aa~~~~~Ar-~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~  292 (517)
T PF12569_consen  217 IDKAIEHT--PTLVELYMTKARILKHAGDLKEAAEAMDEAR-ELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTRED  292 (517)
T ss_pred             HHHHHhcC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH-hCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCC
Confidence            99887753  54 6788888999999999999999999988 543 2366667778888899999999999999998777


Q ss_pred             CCCCHHH--------HHHHHHHHHhcCCHHHHHHHHHHHH
Q 013497          168 LSLEQQE--------IAALLKVSAETGRVEKVYQYLQKLR  199 (442)
Q Consensus       168 ~~p~~~t--------y~~li~~~~~~g~~~~a~~ll~~m~  199 (442)
                      ..|-...        ....-.+|.+.|++..|++.|....
T Consensus       293 ~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~  332 (517)
T PF12569_consen  293 VDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVL  332 (517)
T ss_pred             CCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            6443321        1344567888999888877666553

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 [], [].

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=95.61  E-value=0.014  Score=44.14  Aligned_cols=80  Identities=14%  Similarity=0.172  Sum_probs=58.7

Q ss_pred             hhHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHH
Q 013497           80 SALRHGFRVFDQMLSNNVI-PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYE  158 (442)
Q Consensus        80 ~~~~~a~~l~~~M~~~g~~-p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~  158 (442)
                      |.++.|..+|+.+.+.... |+...+-.+..+|.+.|++++|..+++. . ..+- .+....-.+-.+|.+.|+.++|.+
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~-~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-L-KLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-H-THHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-h-CCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            4899999999999886542 3455555689999999999999999988 3 2221 122333345678889999999999


Q ss_pred             HHHH
Q 013497          159 VEEH  162 (442)
Q Consensus       159 l~~~  162 (442)
                      ++++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            9875

>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=95.59  E-value=0.065  Score=38.36  Aligned_cols=52  Identities=13%  Similarity=0.136  Sum_probs=24.3

Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          149 ENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       149 ~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      +.|++++|.++|+.+....-. +...+-.|..+|.+.|++++|..++.++...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            345555555555555433211 3334444555555555555555555554443

...

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.56  E-value=0.099  Score=48.26  Aligned_cols=48  Identities=10%  Similarity=0.205  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 013497           25 NFLINLQSCTKS-----KDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSA   72 (442)
Q Consensus        25 ~~~~li~~~~k~-----g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~   72 (442)
                      +|-+.+..+...     +.++=-...++.|++-|+.-|..+|+.||+.+-++.
T Consensus        69 sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgk  121 (406)
T KOG3941|consen   69 SFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGK  121 (406)
T ss_pred             HHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccc
Confidence            788888777653     667777777889999999999999999999887765

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=95.51  E-value=0.24  Score=51.38  Aligned_cols=133  Identities=11%  Similarity=0.137  Sum_probs=72.6

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 013497           34 TKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAAS  113 (442)
Q Consensus        34 ~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~  113 (442)
                      .....+.+|+.+++.+++....  ..-|..+-.-|+..+        .++.|.++|-+-         -.++-.|.+|.+
T Consensus       743 i~akew~kai~ildniqdqk~~--s~yy~~iadhyan~~--------dfe~ae~lf~e~---------~~~~dai~my~k  803 (1636)
T KOG3616|consen  743 IGAKEWKKAISILDNIQDQKTA--SGYYGEIADHYANKG--------DFEIAEELFTEA---------DLFKDAIDMYGK  803 (1636)
T ss_pred             hhhhhhhhhHhHHHHhhhhccc--cccchHHHHHhccch--------hHHHHHHHHHhc---------chhHHHHHHHhc
Confidence            3344455555555555544331  112333333555555        777777777543         125566777777


Q ss_pred             cCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 013497          114 KNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQ  193 (442)
Q Consensus       114 ~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~  193 (442)
                      +|+|++|.++-++..   |-......|-+-..-+-++|.+.+|.+++--+.    .|+     --|..|-+.|..+...+
T Consensus       804 ~~kw~da~kla~e~~---~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmir  871 (1636)
T KOG3616|consen  804 AGKWEDAFKLAEECH---GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIR  871 (1636)
T ss_pred             cccHHHHHHHHHHhc---CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHH
Confidence            777777777765544   223334455555555566666666666653321    132     23556667777666666


Q ss_pred             HHHH
Q 013497          194 YLQK  197 (442)
Q Consensus       194 ll~~  197 (442)
                      +..+
T Consensus       872 lv~k  875 (1636)
T KOG3616|consen  872 LVEK  875 (1636)
T ss_pred             HHHH
Confidence            6554

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.46  E-value=0.56  Score=43.79  Aligned_cols=154  Identities=10%  Similarity=0.058  Sum_probs=108.3

Q ss_pred             HHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC-------------
Q 013497           33 CTKSKDLTTAISLYESAHSQ-NLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI-------------   98 (442)
Q Consensus        33 ~~k~g~~~~A~~lf~~m~~~-g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~-------------   98 (442)
                      .-|.|+.++|++-|....+. |..| ...||.-|.-|.+.         ..+.|++...+..++|++             
T Consensus       154 lykegqyEaAvqkFqaAlqvsGyqp-llAYniALaHy~~~---------qyasALk~iSEIieRG~r~HPElgIGm~teg  223 (459)
T KOG4340|consen  154 LYKEGQYEAAVQKFQAALQVSGYQP-LLAYNLALAHYSSR---------QYASALKHISEIIERGIRQHPELGIGMTTEG  223 (459)
T ss_pred             eeccccHHHHHHHHHHHHhhcCCCc-hhHHHHHHHHHhhh---------hHHHHHHHHHHHHHhhhhcCCccCccceecc
Confidence            35789999999999998765 5544 57899998877776         589999999999988864             


Q ss_pred             CCHH--------HHHHHHH-------HHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Q 013497           99 PNEA--------SVTSVAR-------LAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHM  163 (442)
Q Consensus        99 p~~~--------ty~~li~-------~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M  163 (442)
                      ||+.        .-+.++.       .+.+.|+.+.|.+-+-.|.-+..-..|.+|...+.-.= -.+++.+..+-+.-+
T Consensus       224 iDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFL  302 (459)
T KOG4340|consen  224 IDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFL  302 (459)
T ss_pred             CchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHH
Confidence            2321        1233333       35678899999999999962333455677766543322 234455555555555


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 013497          164 GLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKL  198 (442)
Q Consensus       164 ~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m  198 (442)
                      .+.+-.| ..||..++-.|||+.-++.|-+++-+-
T Consensus       303 L~~nPfP-~ETFANlLllyCKNeyf~lAADvLAEn  336 (459)
T KOG4340|consen  303 LQQNPFP-PETFANLLLLYCKNEYFDLAADVLAEN  336 (459)
T ss_pred             HhcCCCC-hHHHHHHHHHHhhhHHHhHHHHHHhhC
Confidence            5554333 468899999999999999999988764

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.43  E-value=0.14  Score=47.21  Aligned_cols=100  Identities=19%  Similarity=0.192  Sum_probs=74.7

Q ss_pred             CCCHHHHHHHHHHHHhc-----CCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCC----------------HHHH
Q 013497           98 IPNEASVTSVARLAASK-----NDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLE----------------AEKA  156 (442)
Q Consensus        98 ~p~~~ty~~li~~~~~~-----g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~----------------~~~A  156 (442)
                      ..|-.+|-+.+.-+...     +.++-....++.|+ ++|+.-|+.+|+.||+.+-+..-                -.=+
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~-eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~  142 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMK-EYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCA  142 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHH-HhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHH
Confidence            45666777777666543     56777777788899 99999999999999988765332                2346


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHH
Q 013497          157 YEVEEHMGLMGLSLEQQEIAALLKVSAETGR-VEKVYQYLQKL  198 (442)
Q Consensus       157 ~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~-~~~a~~ll~~m  198 (442)
                      ..|+++|..+|+.||-.+--.||+++.+.+. ..+..+++--|
T Consensus       143 I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  143 IKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             HHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhh
Confidence            7899999999999999999999999988664 33444444444

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.40  E-value=0.3  Score=46.58  Aligned_cols=169  Identities=9%  Similarity=0.054  Sum_probs=111.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCH
Q 013497           22 PETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNE  101 (442)
Q Consensus        22 p~~~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~  101 (442)
                      |+.-.|. |--|.+.+++.+|..+.+++.  -..|-.+..-.+..  ...|.. ......+.-|.+.|+-.-+.+..-|+
T Consensus       285 PEARlNL-~iYyL~q~dVqeA~~L~Kdl~--PttP~EyilKgvv~--aalGQe-~gSreHlKiAqqffqlVG~Sa~ecDT  358 (557)
T KOG3785|consen  285 PEARLNL-IIYYLNQNDVQEAISLCKDLD--PTTPYEYILKGVVF--AALGQE-TGSREHLKIAQQFFQLVGESALECDT  358 (557)
T ss_pred             hHhhhhh-eeeecccccHHHHHHHHhhcC--CCChHHHHHHHHHH--HHhhhh-cCcHHHHHHHHHHHHHhccccccccc
Confidence            4444443 345788999999998887653  12232222222322  222211 11222677788888877666665444


Q ss_pred             HH-HHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH-HH
Q 013497          102 AS-VTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAA-LL  179 (442)
Q Consensus       102 ~t-y~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~-li  179 (442)
                      .. --++.+.+.-.-++|+++-.+..++ ..=..-|.+.|| +.++++..|...+|+++|-.+....++ |..+|.+ |.
T Consensus       359 IpGRQsmAs~fFL~~qFddVl~YlnSi~-sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LA  435 (557)
T KOG3785|consen  359 IPGRQSMASYFFLSFQFDDVLTYLNSIE-SYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLA  435 (557)
T ss_pred             ccchHHHHHHHHHHHHHHHHHHHHHHHH-HHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHH
Confidence            32 3455566666778999999999888 654455666666 578899999999999999776555444 5667765 45


Q ss_pred             HHHHhcCCHHHHHHHHHHHH
Q 013497          180 KVSAETGRVEKVYQYLQKLR  199 (442)
Q Consensus       180 ~~~~~~g~~~~a~~ll~~m~  199 (442)
                      ++|.+++..+.|++++-.+.
T Consensus       436 rCyi~nkkP~lAW~~~lk~~  455 (557)
T KOG3785|consen  436 RCYIRNKKPQLAWDMMLKTN  455 (557)
T ss_pred             HHHHhcCCchHHHHHHHhcC
Confidence            68899999999999887664

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

Probab=95.26  E-value=3.1  Score=45.56  Aligned_cols=145  Identities=12%  Similarity=0.051  Sum_probs=90.2

Q ss_pred             cccCCCCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcC----------CCCCCchhh
Q 013497           15 KRKTNPNPET--NFLINLQSCTKSKDLTTAISLYESAHSQ-NLRLSLHHFNALLYLCSDSA----------TDPSSKDSA   81 (442)
Q Consensus        15 ~~~~~~~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~-g~~p~~~ty~~ll~~~~~~~----------~~~~~~~~~   81 (442)
                      .-.....|+.  .+-.||+.+-..+++++|.++.++..+. .-.+...-|..+  ++...+          ++.......
T Consensus        21 ~~~~~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~--l~~q~~~~~~~~lv~~l~~~~~~~~   98 (906)
T PRK14720         21 ADANNYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGI--LSLSRRPLNDSNLLNLIDSFSQNLK   98 (906)
T ss_pred             cccccCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHH--HHHhhcchhhhhhhhhhhhcccccc
Confidence            3445566665  8999999999999999999999976543 233444444444  333322          111112223


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHH
Q 013497           82 LRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEE  161 (442)
Q Consensus        82 ~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~  161 (442)
                      ...+..++..|...+  -+...+-++..+|-+.|+.++|..+++++. +.. .-|...-|.+-..|... ++++|.+++.
T Consensus        99 ~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L-~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~  173 (906)
T PRK14720         99 WAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLV-KAD-RDNPEIVKKLATSYEEE-DKEKAITYLK  173 (906)
T ss_pred             hhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHH-hcC-cccHHHHHHHHHHHHHh-hHHHHHHHHH
Confidence            333344444444322  233466677777777788888888888877 554 33566777777777777 8888887776


Q ss_pred             HHHHC
Q 013497          162 HMGLM  166 (442)
Q Consensus       162 ~M~~~  166 (442)
                      .....
T Consensus       174 KAV~~  178 (906)
T PRK14720        174 KAIYR  178 (906)
T ss_pred             HHHHH
Confidence            65543

>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=95.24  E-value=0.066  Score=38.32  Aligned_cols=48  Identities=17%  Similarity=0.154  Sum_probs=28.2

Q ss_pred             hhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhH
Q 013497           80 SALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus        80 ~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      |++++|.++|+.+...... |...+-.+..+|.+.|++++|..+++.+.
T Consensus         5 ~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~   52 (68)
T PF14559_consen    5 GDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLL   52 (68)
T ss_dssp             THHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCH
T ss_pred             cCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3666666666666554322 45555566666666666666666666665

...

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=95.14  E-value=1.1  Score=38.88  Aligned_cols=82  Identities=12%  Similarity=0.126  Sum_probs=60.7

Q ss_pred             HHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-
Q 013497           60 HFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN--EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-  136 (442)
Q Consensus        60 ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~--~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-  136 (442)
                      .|..+-..+...+        ++++|...|++..+....+.  ...+..+...+.+.|++++|...+.+.. ..  .|+ 
T Consensus        37 ~~~~lg~~~~~~g--------~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al-~~--~p~~  105 (172)
T PRK02603         37 VYYRDGMSAQADG--------EYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQAL-EL--NPKQ  105 (172)
T ss_pred             HHHHHHHHHHHcC--------CHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hh--Cccc
Confidence            3444444666667        89999999999887554432  4688899999999999999999999987 43  453 


Q ss_pred             cccHHHHHHHHHHcCC
Q 013497          137 LRTYDPALFCFCENLE  152 (442)
Q Consensus       137 ~~ty~~li~~~~~~g~  152 (442)
                      ...+..+-..|...|+
T Consensus       106 ~~~~~~lg~~~~~~g~  121 (172)
T PRK02603        106 PSALNNIAVIYHKRGE  121 (172)
T ss_pred             HHHHHHHHHHHHHcCC
Confidence            4556666667777666

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.10  E-value=1.6  Score=36.22  Aligned_cols=126  Identities=20%  Similarity=0.117  Sum_probs=71.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHH
Q 013497           26 FLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVT  105 (442)
Q Consensus        26 ~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~  105 (442)
                      ...+|..+.+.+....+..+++.+...+. .+...+|.+|.++.+..         ..+..+.+..      .++.+...
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~---------~~~ll~~l~~------~~~~yd~~   73 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYD---------PQKEIERLDN------KSNHYDIE   73 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC---------HHHHHHHHHh------ccccCCHH
Confidence            34566666666777777777777766653 56667777777666553         3333444331      12233344


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHc-CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          106 SVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCEN-LEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       106 ~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~-g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      -+++.|-+.+.++++..++..+. .         |...+..+... ++++.|.+.+.+-      .+...|..++..+.
T Consensus        74 ~~~~~c~~~~l~~~~~~l~~k~~-~---------~~~Al~~~l~~~~d~~~a~~~~~~~------~~~~lw~~~~~~~l  136 (140)
T smart00299       74 KVGKLCEKAKLYEEAVELYKKDG-N---------FKDAIVTLIEHLGNYEKAIEYFVKQ------NNPELWAEVLKALL  136 (140)
T ss_pred             HHHHHHHHcCcHHHHHHHHHhhc-C---------HHHHHHHHHHcccCHHHHHHHHHhC------CCHHHHHHHHHHHH
Confidence            46666666666666666665554 1         33344444444 6666666665541      14455666665554

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.10  E-value=2.7  Score=38.58  Aligned_cols=159  Identities=10%  Similarity=-0.003  Sum_probs=114.0

Q ss_pred             hcCCHHHHHHHHHHHH---hCC-CCCCHHHHHHH-HHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC-CCHHHHHHHH
Q 013497           35 KSKDLTTAISLYESAH---SQN-LRLSLHHFNAL-LYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI-PNEASVTSVA  108 (442)
Q Consensus        35 k~g~~~~A~~lf~~m~---~~g-~~p~~~ty~~l-l~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~-p~~~ty~~li  108 (442)
                      ...+.++.++++.++.   ..| ..|+..+..-. +-+....+        +.+.|..+++++...-.. +-+.-..++ 
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~--------~~~lAq~C~~~L~~~fp~S~RV~~lkam-   94 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTG--------RDDLAQKCINQLRDRFPGSKRVGKLKAM-   94 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhc--------chHHHHHHHHHHHHhCCCChhHHHHHHH-
Confidence            3567888899988876   344 55665443332 22444444        788999999998876522 222222222 


Q ss_pred             HHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 013497          109 RLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRV  188 (442)
Q Consensus       109 ~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~  188 (442)
                       .+-..|++++|.++++... +.. +.|.++|--=|...-..|.--+|++-+.+-.+. +..|...|..|-+.|...|++
T Consensus        95 -~lEa~~~~~~A~e~y~~lL-~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f  170 (289)
T KOG3060|consen   95 -LLEATGNYKEAIEYYESLL-EDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDF  170 (289)
T ss_pred             -HHHHhhchhhHHHHHHHHh-ccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHH
Confidence             2345789999999999998 443 557788887777777788888888877777654 566999999999999999999


Q ss_pred             HHHHHHHHHHHhccCCCChH
Q 013497          189 EKVYQYLQKLRSTVRCVNEE  208 (442)
Q Consensus       189 ~~a~~ll~~m~~~~~~p~~~  208 (442)
                      ++|.-.+++|.-.  +|-..
T Consensus       171 ~kA~fClEE~ll~--~P~n~  188 (289)
T KOG3060|consen  171 EKAAFCLEELLLI--QPFNP  188 (289)
T ss_pred             HHHHHHHHHHHHc--CCCcH
Confidence            9999999999764  45443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=95.07  E-value=0.29  Score=48.08  Aligned_cols=95  Identities=13%  Similarity=0.044  Sum_probs=73.3

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEV  159 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l  159 (442)
                      ++++|.++|++..+... -+...|..+-.+|.+.|++++|+..++... ..  .| +...|..+-.+|...|++++|...
T Consensus        17 ~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al-~l--~P~~~~a~~~lg~~~~~lg~~~eA~~~   92 (356)
T PLN03088         17 DFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAI-EL--DPSLAKAYLRKGTACMKLEEYQTAKAA   92 (356)
T ss_pred             CHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hh--CcCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            78999999999887643 367788888889999999999999998887 43  45 456777788888899999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHH
Q 013497          160 EEHMGLMGLSLEQQEIAALLKV  181 (442)
Q Consensus       160 ~~~M~~~g~~p~~~ty~~li~~  181 (442)
                      |+.....  .|+......++.-
T Consensus        93 ~~~al~l--~P~~~~~~~~l~~  112 (356)
T PLN03088         93 LEKGASL--APGDSRFTKLIKE  112 (356)
T ss_pred             HHHHHHh--CCCCHHHHHHHHH
Confidence            9888764  4555555555433

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=95.06  E-value=1.7  Score=44.92  Aligned_cols=149  Identities=11%  Similarity=-0.018  Sum_probs=92.9

Q ss_pred             CCCCHH-HHHHHHHHHHhcC-----CHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHH-HhcCCCCCCchhhHHHHHHHHH
Q 013497           19 NPNPET-NFLINLQSCTKSK-----DLTTAISLYESAHSQNLRLS-LHHFNALLYLC-SDSATDPSSKDSALRHGFRVFD   90 (442)
Q Consensus        19 ~~~p~~-~~~~li~~~~k~g-----~~~~A~~lf~~m~~~g~~p~-~~ty~~ll~~~-~~~~~~~~~~~~~~~~a~~l~~   90 (442)
                      ..+++. .|...+.+.....     +...|..+|++..+.  .|+ ...|..+-.++ .....+. .....+..+.+..+
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~-~~~~~l~~a~~~~~  408 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQP-LDEKQLAALSTELD  408 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHH
Confidence            334444 8888888855432     377999999998865  344 34454442222 2221111 11224455555555


Q ss_pred             HHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 013497           91 QMLSN-NVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLS  169 (442)
Q Consensus        91 ~M~~~-g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~  169 (442)
                      ..... ....+..+|.++--.+...|++++|...+++.. ..  .|+...|..+-..|...|+.++|.+.+++-...  .
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl-~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~  483 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAI-DL--EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--R  483 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHH-Hc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--C
Confidence            43332 233345677777666666789999999998887 44  578888888888888899999998888876543  3


Q ss_pred             CCHHHH
Q 013497          170 LEQQEI  175 (442)
Q Consensus       170 p~~~ty  175 (442)
                      |...||
T Consensus       484 P~~pt~  489 (517)
T PRK10153        484 PGENTL  489 (517)
T ss_pred             CCCchH
Confidence            444443

>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=95.00  E-value=0.16  Score=42.81  Aligned_cols=69  Identities=14%  Similarity=0.146  Sum_probs=32.4

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----ccCCCChHH
Q 013497          140 YDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRS-----TVRCVNEET  209 (442)
Q Consensus       140 y~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~-----~~~~p~~~t  209 (442)
                      ...++..+...|+.++|..+...+.... +.|+..|..+|.+|...|+...|.+.|++++.     .|+.|++.|
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            3344444555555555555555555432 12455555666666666666666555555422     355555544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>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=94.97  E-value=0.13  Score=43.37  Aligned_cols=72  Identities=14%  Similarity=0.141  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHH-----HCCCCCCHHHH
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMG-----LMGLSLEQQEI  175 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~-----~~g~~p~~~ty  175 (442)
                      .+...++..+...|++++|..+..... ... +-|...|..+|.+|...|+...|.++|+.+.     +.|+.|+..+-
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l-~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRAL-ALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHH-HHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHH-hcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            456678888889999999999999988 432 4477899999999999999999999999884     34999987763

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=94.89  E-value=1.1  Score=43.25  Aligned_cols=96  Identities=11%  Similarity=0.046  Sum_probs=59.1

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVE  160 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~  160 (442)
                      ....|.++-.+.    -.||..-|-..|++|+..++|++-..+..+ + +     +..-|-+.+.+|.+.|...+|..+.
T Consensus       192 ~~k~A~kl~k~F----kv~dkrfw~lki~aLa~~~~w~eL~~fa~s-k-K-----sPIGyepFv~~~~~~~~~~eA~~yI  260 (319)
T PF04840_consen  192 QEKQAEKLKKEF----KVPDKRFWWLKIKALAENKDWDELEKFAKS-K-K-----SPIGYEPFVEACLKYGNKKEASKYI  260 (319)
T ss_pred             CHHHHHHHHHHc----CCcHHHHHHHHHHHHHhcCCHHHHHHHHhC-C-C-----CCCChHHHHHHHHHCCCHHHHHHHH
Confidence            455555554444    346777777777777777777766654322 1 1     2466777777777777777777666


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 013497          161 EHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQK  197 (442)
Q Consensus       161 ~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~  197 (442)
                      ..+          ++..-+..|.++|++.+|.+.-.+
T Consensus       261 ~k~----------~~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  261 PKI----------PDEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HhC----------ChHHHHHHHHHCCCHHHHHHHHHH
Confidence            552          235556667777777777655433

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

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=94.86  E-value=2.2  Score=39.95  Aligned_cols=167  Identities=12%  Similarity=0.158  Sum_probs=117.6

Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCC-CC---C---C-chhhHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcC--CHHH
Q 013497           51 SQNLRLSLHHFNALLYLCSDSAT-DP---S---S-KDSALRHGFRVFDQMLS-NNVIPNEASVTSVARLAASKN--DGDY  119 (442)
Q Consensus        51 ~~g~~p~~~ty~~ll~~~~~~~~-~~---~---~-~~~~~~~a~~l~~~M~~-~g~~p~~~ty~~li~~~~~~g--~~~~  119 (442)
                      ..|.+++..-+-.++..+...-. +.   |   . ++..+.+|+++|+.... ..+--|..+...+++......  ....
T Consensus       105 s~g~~Lt~~Dli~FL~~~i~~~~~~k~~~Y~~LVk~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~a  184 (292)
T PF13929_consen  105 SMGCELTKEDLISFLKLVIINLSSNKSFNYWDLVKRNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNA  184 (292)
T ss_pred             HcCCCCcHHHHHHHHHHHHhccccccchHHHHHHHhhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhh
Confidence            45666666555555554433221 00   0   0 22356677888874322 346678888888888877622  3344


Q ss_pred             HHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH-
Q 013497          120 AFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLM-GLSLEQQEIAALLKVSAETGRVEKVYQYLQK-  197 (442)
Q Consensus       120 A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~-g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~-  197 (442)
                      -.++.+-+.+..+-.++.-+...+|..+++.+++.+-+++++.-... +..-|...|..+|+.-.+.|+..-...+..+ 
T Consensus       185 lYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~G  264 (292)
T PF13929_consen  185 LYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDG  264 (292)
T ss_pred             HHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCC
Confidence            45555555545566788899999999999999999999999887655 6667889999999999999999887777765 


Q ss_pred             ----HHhccCCCChHHHHHHHHHh
Q 013497          198 ----LRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       198 ----m~~~~~~p~~~t~~~li~~~  217 (442)
                          +++.++..++..-..|-..|
T Consensus       265 hLLwikR~~V~v~~~L~~~L~~LF  288 (292)
T PF13929_consen  265 HLLWIKRNNVDVTDELRSQLSELF  288 (292)
T ss_pred             CeEEeeecCCcCCHHHHHHHHHHH
Confidence                45677788888888888777

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.83  E-value=1.2  Score=42.45  Aligned_cols=135  Identities=10%  Similarity=0.209  Sum_probs=89.0

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCC---CCCHHHHHHHHHHHHhcC
Q 013497           39 LTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNV---IPNEASVTSVARLAASKN  115 (442)
Q Consensus        39 ~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~---~p~~~ty~~li~~~~~~g  115 (442)
                      +.+.+.+++.|.+.|++-+.++|-+...+....  +..-..-...+|.++|+.|++.-.   .++-.++.+|+..  ...
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~--~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~  153 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEE--EKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSE  153 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccc
Confidence            445667889999999998888887755544431  111122268889999999998543   3677888888776  334


Q ss_pred             CH----HHHHHHHHHhHhhCCCCCCc-ccHHHHHHHHHHcCC---HHHHHHHHHHHHHCCCCCCHHHHHHH
Q 013497          116 DG----DYAFVLIKRMNNEFNVVPRL-RTYDPALFCFCENLE---AEKAYEVEEHMGLMGLSLEQQEIAAL  178 (442)
Q Consensus       116 ~~----~~A~~~~~~m~~~~g~~p~~-~ty~~li~~~~~~g~---~~~A~~l~~~M~~~g~~p~~~ty~~l  178 (442)
                      ++    +.++..++.+. ..|+..+- .-+-+-|-+++..-.   +.++.++++.+.+.|+++....|.++
T Consensus       154 ~~e~l~~~~E~~Y~~L~-~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  154 DVEELAERMEQCYQKLA-DAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             cHHHHHHHHHHHHHHHH-HhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence            43    56777788888 66776533 233333333333222   34678899999999998887776543

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=94.82  E-value=0.63  Score=45.71  Aligned_cols=103  Identities=10%  Similarity=-0.088  Sum_probs=81.1

Q ss_pred             HHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 013497          109 RLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGR  187 (442)
Q Consensus       109 ~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~  187 (442)
                      ..+...|++++|++.|++.. ..  .| +...|..+-.+|.+.|++++|...++......- .+...|..+-.+|...|+
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al-~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P-~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAI-DL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELDP-SLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhCC
Confidence            45667899999999999998 43  34 456788888899999999999999999987532 256678888889999999


Q ss_pred             HHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          188 VEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       188 ~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      +++|...|++....  .|+.......+..+
T Consensus        86 ~~eA~~~~~~al~l--~P~~~~~~~~l~~~  113 (356)
T PLN03088         86 YQTAKAALEKGASL--APGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            99999999998764  56655554444444

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=94.74  E-value=1.1  Score=38.66  Aligned_cols=93  Identities=11%  Similarity=0.110  Sum_probs=64.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRL--SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEA  102 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p--~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~  102 (442)
                      .|..+...+...|++++|+..|++.......|  ...+|..+=.++...+        .+++|...|+...... +....
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g--------~~~eA~~~~~~Al~~~-~~~~~  107 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNG--------EHTKALEYYFQALERN-PFLPQ  107 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHhC-cCcHH
Confidence            67778888888999999999999987553222  2245666555777777        8999999999887642 22345


Q ss_pred             HHHHHHHHHH-------hcCCHHHHHHHHHH
Q 013497          103 SVTSVARLAA-------SKNDGDYAFVLIKR  126 (442)
Q Consensus       103 ty~~li~~~~-------~~g~~~~A~~~~~~  126 (442)
                      ++..+...+.       +.|++++|...+++
T Consensus       108 ~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        108 ALNNMAVICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHHHHHHHhhHHHHHcccHHHHHHHHHH
Confidence            5666666666       66676655544443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=94.72  E-value=0.92  Score=36.87  Aligned_cols=104  Identities=15%  Similarity=0.085  Sum_probs=61.2

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH---HHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC--CCHHHHHH
Q 013497           32 SCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLY---LCSDSATDPSSKDSALRHGFRVFDQMLSNNVI--PNEASVTS  106 (442)
Q Consensus        32 ~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~---~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~--p~~~ty~~  106 (442)
                      ++-..|+.++|+.+|++..+.|..... .-..+|.   .+..-|        ++++|..+|++.......  .+......
T Consensus        10 a~d~~G~~~~Ai~~Y~~Al~~gL~~~~-~~~a~i~lastlr~LG--------~~deA~~~L~~~~~~~p~~~~~~~l~~f   80 (120)
T PF12688_consen   10 AHDSLGREEEAIPLYRRALAAGLSGAD-RRRALIQLASTLRNLG--------RYDEALALLEEALEEFPDDELNAALRVF   80 (120)
T ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCchH-HHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHHCCCccccHHHHHH
Confidence            345568888888888888777765432 2234443   455555        788888888877654321  01111122


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHH
Q 013497          107 VARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCE  149 (442)
Q Consensus       107 li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~  149 (442)
                      +.-++...|+.++|++.+-...     .+++..|.--|..|..
T Consensus        81 ~Al~L~~~gr~~eAl~~~l~~l-----a~~~~~y~ra~~~ya~  118 (120)
T PF12688_consen   81 LALALYNLGRPKEALEWLLEAL-----AETLPRYRRAIRFYAD  118 (120)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHHh
Confidence            3346667788888887776544     2333366666666643

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=94.71  E-value=3  Score=43.11  Aligned_cols=151  Identities=11%  Similarity=0.011  Sum_probs=100.0

Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcC--------CHHHHHH
Q 013497           52 QNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN-EASVTSVARLAASKN--------DGDYAFV  122 (442)
Q Consensus        52 ~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~-~~ty~~li~~~~~~g--------~~~~A~~  122 (442)
                      .+...|...|...+.+.....  . ...+..++|.++|++..+..  || ...|..+..+|....        ++..+.+
T Consensus       331 ~~~~~~~~Ay~~~lrg~~~~~--~-~~~~~~~~A~~lle~Ai~ld--P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~  405 (517)
T PRK10153        331 QGLPHQGAALTLFYQAHHYLN--S-GDAKSLNKASDLLEEILKSE--PDFTYAQAEKALADIVRHSQQPLDEKQLAALST  405 (517)
T ss_pred             ccCCCCHHHHHHHHHHHHHHh--c-CCHHHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHH
Confidence            445678899999998533211  0 01236889999999987753  54 345554444333221        2233444


Q ss_pred             HHHHhHhhC-CCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          123 LIKRMNNEF-NVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       123 ~~~~m~~~~-g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      ...... .. ....+...|.++--.+...|++++|...++.....+  |+...|..+-..+...|+.++|.+.+++-...
T Consensus       406 ~~~~a~-al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        406 ELDNIV-ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             HHHHhh-hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            443332 21 123344678877666667899999999999998876  78889999999999999999999999876543


Q ss_pred             cCCCChHHHHH
Q 013497          202 VRCVNEETGKI  212 (442)
Q Consensus       202 ~~~p~~~t~~~  212 (442)
                        .|...||-.
T Consensus       483 --~P~~pt~~~  491 (517)
T PRK10153        483 --RPGENTLYW  491 (517)
T ss_pred             --CCCCchHHH
Confidence              566555543

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=94.64  E-value=0.62  Score=40.20  Aligned_cols=48  Identities=6%  Similarity=0.089  Sum_probs=21.2

Q ss_pred             hHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHhH
Q 013497           81 ALRHGFRVFDQMLSNNVIP--NEASVTSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p--~~~ty~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      .+++|...|+........|  ...+|..+-..|...|+.++|...++...
T Consensus        50 ~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al   99 (168)
T CHL00033         50 EYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQAL   99 (168)
T ss_pred             CHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4555555555443322111  11244444444555555555555554443

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.34  E-value=9.5  Score=41.79  Aligned_cols=82  Identities=11%  Similarity=-0.068  Sum_probs=39.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKV  181 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~  181 (442)
                      ..|+.+..+-.+.|.+.+|.+-|-...       |...|.-+|....+.|.+++-.+.+....++.-.|...  +.||-+
T Consensus      1105 ~vWsqlakAQL~~~~v~dAieSyikad-------Dps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~A 1175 (1666)
T KOG0985|consen 1105 AVWSQLAKAQLQGGLVKDAIESYIKAD-------DPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFA 1175 (1666)
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHHhcC-------CcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHH
Confidence            345555555555555555554442211       44445555555555555555555544444444444433  345555


Q ss_pred             HHhcCCHHHHH
Q 013497          182 SAETGRVEKVY  192 (442)
Q Consensus       182 ~~~~g~~~~a~  192 (442)
                      |++.+++.+..
T Consensus      1176 yAkt~rl~elE 1186 (1666)
T KOG0985|consen 1176 YAKTNRLTELE 1186 (1666)
T ss_pred             HHHhchHHHHH
Confidence            55555544433

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

Probab=94.33  E-value=2  Score=44.99  Aligned_cols=180  Identities=9%  Similarity=0.002  Sum_probs=118.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHH
Q 013497           27 LINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTS  106 (442)
Q Consensus        27 ~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~  106 (442)
                      ..+-..+.+.|-...|+.+|++.         ..|.-+|..|...|        ...+|..+..+-.+  -+||...|..
T Consensus       402 ~~laell~slGitksAl~I~Erl---------emw~~vi~CY~~lg--------~~~kaeei~~q~le--k~~d~~lyc~  462 (777)
T KOG1128|consen  402 RLLAELLLSLGITKSALVIFERL---------EMWDPVILCYLLLG--------QHGKAEEINRQELE--KDPDPRLYCL  462 (777)
T ss_pred             HHHHHHHHHcchHHHHHHHHHhH---------HHHHHHHHHHHHhc--------ccchHHHHHHHHhc--CCCcchhHHH
Confidence            34455667778888888888875         34555566555555        66777777776655  4678888888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 013497          107 VARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETG  186 (442)
Q Consensus       107 li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g  186 (442)
                      +-+..-...-+++|.++++... ..    --+.++.++   .+.++++++.+.|+.-.+.+ ..-..+|-.+=.+..+.+
T Consensus       463 LGDv~~d~s~yEkawElsn~~s-ar----A~r~~~~~~---~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqle  533 (777)
T KOG1128|consen  463 LGDVLHDPSLYEKAWELSNYIS-AR----AQRSLALLI---LSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLE  533 (777)
T ss_pred             hhhhccChHHHHHHHHHhhhhh-HH----HHHhhcccc---ccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHh
Confidence            8887777777888888887765 21    011222222   12677888888777654432 113345555555666789


Q ss_pred             CHHHHHHHHHHHHhccCCCCh-HHHHHHHHHhccccCCCcccchhhHHHHHHh
Q 013497          187 RVEKVYQYLQKLRSTVRCVNE-ETGKIIEDWFSGQKVNGVSCDLGLVKNAVLK  238 (442)
Q Consensus       187 ~~~~a~~ll~~m~~~~~~p~~-~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~  238 (442)
                      ++..|.+.|+.-..  ..|+. ..||.+-.+|  .+.+...-+.....||...
T Consensus       534 k~q~av~aF~rcvt--L~Pd~~eaWnNls~ay--i~~~~k~ra~~~l~EAlKc  582 (777)
T KOG1128|consen  534 KEQAAVKAFHRCVT--LEPDNAEAWNNLSTAY--IRLKKKKRAFRKLKEALKC  582 (777)
T ss_pred             hhHHHHHHHHHHhh--cCCCchhhhhhhhHHH--HHHhhhHHHHHHHHHHhhc
Confidence            99999999987654  35665 4789999999  7776665566667777664

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

Probab=94.30  E-value=4.4  Score=40.46  Aligned_cols=80  Identities=14%  Similarity=0.084  Sum_probs=45.4

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVE  160 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~  160 (442)
                      ++.-|.++|+.-.+  ..|++..|.+.|+.=.+-..++.|..+++...   -+.|++.+|---...=-++|.+..|..+|
T Consensus       156 Ni~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV---~~HP~v~~wikyarFE~k~g~~~~aR~Vy  230 (677)
T KOG1915|consen  156 NIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFV---LVHPKVSNWIKYARFEEKHGNVALARSVY  230 (677)
T ss_pred             ccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHh---eecccHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            44555555554322  45666666666666666666666666666555   23466666655555555666666666666


Q ss_pred             HHHHH
Q 013497          161 EHMGL  165 (442)
Q Consensus       161 ~~M~~  165 (442)
                      +...+
T Consensus       231 erAie  235 (677)
T KOG1915|consen  231 ERAIE  235 (677)
T ss_pred             HHHHH
Confidence            55443

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=93.97  E-value=2.4  Score=36.05  Aligned_cols=92  Identities=10%  Similarity=-0.134  Sum_probs=65.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcc-cHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 013497          106 SVARLAASKNDGDYAFVLIKRMNNEFNVVPRLR-TYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE  184 (442)
Q Consensus       106 ~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~-ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~  184 (442)
                      ++-.-+...|++++|..+|+-.. .  +.|... -|-.|=.++-..|++++|...|........ -|...+-.+-.++..
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~-~--~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~  115 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLT-I--YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLA  115 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHH-H--hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHH
Confidence            44455677888888888888776 3  345443 344455555567888888888888877663 366777777888888


Q ss_pred             cCCHHHHHHHHHHHHhc
Q 013497          185 TGRVEKVYQYLQKLRST  201 (442)
Q Consensus       185 ~g~~~~a~~ll~~m~~~  201 (442)
                      .|+.+.|.+.|+.-...
T Consensus       116 lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        116 CDNVCYAIKALKAVVRI  132 (157)
T ss_pred             cCCHHHHHHHHHHHHHH
Confidence            88888888888765543

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

Probab=93.88  E-value=4.7  Score=41.77  Aligned_cols=173  Identities=14%  Similarity=0.047  Sum_probs=104.7

Q ss_pred             HHHHhcCCHHHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 013497           31 QSCTKSKDLTTAISLYESAH-SQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVAR  109 (442)
Q Consensus        31 ~~~~k~g~~~~A~~lf~~m~-~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~  109 (442)
                      ....+.|++..-...|+... ..-+.-....|...|......+        -++-+.++|+.-.+.    +...-+-.|.
T Consensus       110 q~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~--------lPets~rvyrRYLk~----~P~~~eeyie  177 (835)
T KOG2047|consen  110 QFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHG--------LPETSIRVYRRYLKV----APEAREEYIE  177 (835)
T ss_pred             HHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCC--------ChHHHHHHHHHHHhc----CHHHHHHHHH
Confidence            34455677777777777744 3334334456777777666666        577788888877542    3334678888


Q ss_pred             HHHhcCCHHHHHHHHHHhHhh-----CCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCCH--HHHHHHHHH
Q 013497          110 LAASKNDGDYAFVLIKRMNNE-----FNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLM-GLSLEQ--QEIAALLKV  181 (442)
Q Consensus       110 ~~~~~g~~~~A~~~~~~m~~~-----~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~-g~~p~~--~ty~~li~~  181 (442)
                      -+++.+++++|-+.+......     ..-+.+...|.-+-+-.+++-+.-.-..+-.-|..- +..||.  ..|++|.+.
T Consensus       178 ~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdY  257 (835)
T KOG2047|consen  178 YLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADY  257 (835)
T ss_pred             HHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHH
Confidence            899999999999988876510     011233344555555555544433333322222211 234444  368888888


Q ss_pred             HHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          182 SAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       182 ~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      |.+.|.+++|.+++.+-.........  ++.+-++|
T Consensus       258 YIr~g~~ekarDvyeeai~~v~tvrD--Ft~ifd~Y  291 (835)
T KOG2047|consen  258 YIRSGLFEKARDVYEEAIQTVMTVRD--FTQIFDAY  291 (835)
T ss_pred             HHHhhhhHHHHHHHHHHHHhheehhh--HHHHHHHH
Confidence            99999999999998887766444333  34444444

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=93.88  E-value=5.3  Score=36.89  Aligned_cols=165  Identities=10%  Similarity=-0.009  Sum_probs=105.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH---HHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC
Q 013497           22 PETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLY---LCSDSATDPSSKDSALRHGFRVFDQMLSNNVI   98 (442)
Q Consensus        22 p~~~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~---~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~   98 (442)
                      |+..|..-... .+.|++++|.+.|+++...--.+ ...-.+.+.   ++-+.+        ++++|...|++..+.-..
T Consensus        32 ~~~~Y~~A~~~-~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~--------~y~~A~~~~e~fi~~~P~  101 (243)
T PRK10866         32 PSEIYATAQQK-LQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNA--------DLPLAQAAIDRFIRLNPT  101 (243)
T ss_pred             HHHHHHHHHHH-HHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcC--------CHHHHHHHHHHHHHhCcC
Confidence            33366655554 55899999999999998753222 333333322   555666        899999999999887655


Q ss_pred             CCHHHHHHHHHHHHh--cC---------------C---HHHHHHHHHHhHhhCCCCCCccc------H------------
Q 013497           99 PNEASVTSVARLAAS--KN---------------D---GDYAFVLIKRMNNEFNVVPRLRT------Y------------  140 (442)
Q Consensus        99 p~~~ty~~li~~~~~--~g---------------~---~~~A~~~~~~m~~~~g~~p~~~t------y------------  140 (442)
                      -..+-|.-.+.+.+.  .+               +   ..+|+..|++.. +.  -|+..-      .            
T Consensus       102 ~~~~~~a~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li-~~--yP~S~ya~~A~~rl~~l~~~la~~e  178 (243)
T PRK10866        102 HPNIDYVLYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLV-RG--YPNSQYTTDATKRLVFLKDRLAKYE  178 (243)
T ss_pred             CCchHHHHHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHH-HH--CcCChhHHHHHHHHHHHHHHHHHHH
Confidence            455666667766652  11               1   245667777766 22  344311      1            


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 013497          141 DPALFCFCENLEAEKAYEVEEHMGLM--GLSLEQQEIAALLKVSAETGRVEKVYQYLQKLR  199 (442)
Q Consensus       141 ~~li~~~~~~g~~~~A~~l~~~M~~~--g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~  199 (442)
                      -.+..-|.+.|.+..|..=++.+.+.  +........-.|+.+|.+.|..++|..+..-+.
T Consensus       179 ~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        179 LSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            02223367778887788777777765  444455566677788888888888877665543

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.86  E-value=1.3  Score=42.31  Aligned_cols=131  Identities=11%  Similarity=0.127  Sum_probs=92.2

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--cC----CHHHHHHHHHHhHhhCCC--CCCcccHHHHHHHHHHcCC
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAAS--KN----DGDYAFVLIKRMNNEFNV--VPRLRTYDPALFCFCENLE  152 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~--~g----~~~~A~~~~~~m~~~~g~--~p~~~ty~~li~~~~~~g~  152 (442)
                      .+++..++++.|++.|+.-+..+|-+..-....  ..    ....|..+++.|++...+  .++-.++..|+..  ...+
T Consensus        77 ~~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~  154 (297)
T PF13170_consen   77 AFKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSED  154 (297)
T ss_pred             HHHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--cccc
Confidence            688899999999999999998888774443333  22    356799999999943332  3566778888766  3343


Q ss_pred             ----HHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcC---CHHHHHHHHHHHHhccCCCChHHHHHH
Q 013497          153 ----AEKAYEVEEHMGLMGLSLEQQ-EIAALLKVSAETG---RVEKVYQYLQKLRSTVRCVNEETGKII  213 (442)
Q Consensus       153 ----~~~A~~l~~~M~~~g~~p~~~-ty~~li~~~~~~g---~~~~a~~ll~~m~~~~~~p~~~t~~~l  213 (442)
                          ++.++..|+.+...|+..+.. -+.+-|-+++...   .+.++.++++.+++.++.+....|..|
T Consensus       155 ~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  155 VEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence                456778888998888877543 3333333333321   256789999999999999998887654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=93.84  E-value=11  Score=42.10  Aligned_cols=167  Identities=12%  Similarity=0.027  Sum_probs=103.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCC--C-CCC--HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHh----C
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQN--L-RLS--LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLS----N   95 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g--~-~p~--~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~----~   95 (442)
                      .++.+-..+...|++++|...+.+.....  . .+.  ..+++.+-..+...|        +++.|.+.+++...    .
T Consensus       493 a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G--------~~~~A~~~~~~al~~~~~~  564 (903)
T PRK04841        493 ATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQG--------FLQAAYETQEKAFQLIEEQ  564 (903)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHHHHHHh
Confidence            45556666778999999999999876321  1 111  122333333555666        89999988887554    2


Q ss_pred             CCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhC--CCCC--CcccHHHHHHHHHHcCCHHHHHHHHHHHHHC--
Q 013497           96 NVI--P-NEASVTSVARLAASKNDGDYAFVLIKRMNNEF--NVVP--RLRTYDPALFCFCENLEAEKAYEVEEHMGLM--  166 (442)
Q Consensus        96 g~~--p-~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~--g~~p--~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~--  166 (442)
                      |..  | ...++..+-..+...|++++|...+.+.. ..  ...|  ...++..+...+...|+.++|.+.++.....  
T Consensus       565 ~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al-~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~  643 (903)
T PRK04841        565 HLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGL-EVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLG  643 (903)
T ss_pred             ccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhH-HhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHh
Confidence            321  1 23445556667778899999999998875 21  1112  2334455566778899999999998887542  


Q ss_pred             --CCCCCHHHH--HHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          167 --GLSLEQQEI--AALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       167 --g~~p~~~ty--~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                        +..+.....  ...+..+...|..+.|.+++.....
T Consensus       644 ~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~  681 (903)
T PRK04841        644 NGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPK  681 (903)
T ss_pred             cccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCC
Confidence              111111011  1122445568999999999877544

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=93.70  E-value=4  Score=35.20  Aligned_cols=135  Identities=14%  Similarity=0.186  Sum_probs=90.2

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 013497           43 ISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFV  122 (442)
Q Consensus        43 ~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~  122 (442)
                      ++....+.+.|+.|+...|..+|.++.+.+            -...+.++...++-||.......+-.+..  ....+.+
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~------------~~~~L~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Q   79 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNG------------QFSQLHQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQ   79 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcC------------CHHHHHHHHhhcccCCcHHHHHHHHHhHc--cChHHHH
Confidence            345555667889999999999999888887            35666677788888888777766644433  2233444


Q ss_pred             HHHHhHhhCCCCCCcc-cHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          123 LIKRMNNEFNVVPRLR-TYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       123 ~~~~m~~~~g~~p~~~-ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      +=-+|- .+     .. .+..++..+...|++-+|.++.+.....    +......++++-.+.++...-..+++-....
T Consensus        80 l~lDML-kR-----L~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   80 LGLDML-KR-----LGTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             HHHHHH-HH-----hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            434443 11     22 4778888899999999999887765322    1222356777777777777666666666554

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=93.64  E-value=2.2  Score=40.42  Aligned_cols=26  Identities=15%  Similarity=0.097  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhH
Q 013497          103 SVTSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus       103 ty~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      ++.-+...+++.|++++|.++|++..
T Consensus       157 ~~~~~A~l~~~l~~y~~A~~~~e~~~  182 (282)
T PF14938_consen  157 CLLKAADLYARLGRYEEAIEIYEEVA  182 (282)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            33444455555555555555555544

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.56  E-value=2.4  Score=40.67  Aligned_cols=154  Identities=11%  Similarity=0.096  Sum_probs=101.9

Q ss_pred             CHHHHHHHHHHHHhCCCC----CCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 013497           38 DLTTAISLYESAHSQNLR----LSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAAS  113 (442)
Q Consensus        38 ~~~~A~~lf~~m~~~g~~----p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~  113 (442)
                      .+.-|..+|.-.-+++..    |...+..+-+-++-           ++++++-.+...+..-..-|.+.|| +..+++.
T Consensus       338 HlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~-----------qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~a  405 (557)
T KOG3785|consen  338 HLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSF-----------QFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLA  405 (557)
T ss_pred             HHHHHHHHHHHhcccccccccccchHHHHHHHHHHH-----------HHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHH
Confidence            355666666655455543    44444443333222           6888888888877766666666665 6788999


Q ss_pred             cCCHHHHHHHHHHhHhhCCCCCCcccHH-HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH-HHHHHhcCCHHHH
Q 013497          114 KNDGDYAFVLIKRMNNEFNVVPRLRTYD-PALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAAL-LKVSAETGRVEKV  191 (442)
Q Consensus       114 ~g~~~~A~~~~~~m~~~~g~~p~~~ty~-~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~l-i~~~~~~g~~~~a  191 (442)
                      .|...+|+++|-.+. ...++ |-.+|- .|..+|.+++..+.||+++-.+..   ..+..+.--| .+-|-+++.+--|
T Consensus       406 tgny~eaEelf~~is-~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t---~~e~fsLLqlIAn~CYk~~eFyya  480 (557)
T KOG3785|consen  406 TGNYVEAEELFIRIS-GPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNT---PSERFSLLQLIANDCYKANEFYYA  480 (557)
T ss_pred             hcChHHHHHHHhhhc-Chhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCC---chhHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999998776 44444 445555 455789999999999998766543   2233333333 3456678888778


Q ss_pred             HHHHHHHHhccCCCChHHH
Q 013497          192 YQYLQKLRSTVRCVNEETG  210 (442)
Q Consensus       192 ~~ll~~m~~~~~~p~~~t~  210 (442)
                      .+.|+++...  .|++.-|
T Consensus       481 aKAFd~lE~l--DP~pEnW  497 (557)
T KOG3785|consen  481 AKAFDELEIL--DPTPENW  497 (557)
T ss_pred             HHhhhHHHcc--CCCcccc
Confidence            8888877654  5776654

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

Probab=93.56  E-value=2.1  Score=42.72  Aligned_cols=158  Identities=12%  Similarity=0.124  Sum_probs=125.0

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 013497           35 KSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASK  114 (442)
Q Consensus        35 k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~  114 (442)
                      ...|++.+.++|....+ =|+-..+||.-+=-+|+.-.+    +..++..|.+++...  -|.-|-.-+|-..|..=.+.
T Consensus       378 e~ed~ertr~vyq~~l~-lIPHkkFtFaKiWlmyA~feI----Rq~~l~~ARkiLG~A--IG~cPK~KlFk~YIelElqL  450 (677)
T KOG1915|consen  378 EAEDVERTRQVYQACLD-LIPHKKFTFAKIWLMYAQFEI----RQLNLTGARKILGNA--IGKCPKDKLFKGYIELELQL  450 (677)
T ss_pred             HhhhHHHHHHHHHHHHh-hcCcccchHHHHHHHHHHHHH----HHcccHHHHHHHHHH--hccCCchhHHHHHHHHHHHH
Confidence            35788899999998877 456667888887555544221    112788899998865  57778899999999999999


Q ss_pred             CCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHHH
Q 013497          115 NDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMG-LSLEQQEIAALLKVSAETGRVEKVYQ  193 (442)
Q Consensus       115 g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g-~~p~~~ty~~li~~~~~~g~~~~a~~  193 (442)
                      +.+|.+..+++... ..+ +-|..+|.-.-..=...|+.|.|..+|+-..+.. +..-...|.+.|+.=...|.+++|..
T Consensus       451 ~efDRcRkLYEkfl-e~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~  528 (677)
T KOG1915|consen  451 REFDRCRKLYEKFL-EFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARA  528 (677)
T ss_pred             hhHHHHHHHHHHHH-hcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHH
Confidence            99999999999998 653 3366778777777778999999999999887763 44456778888888888999999999


Q ss_pred             HHHHHHhc
Q 013497          194 YLQKLRST  201 (442)
Q Consensus       194 ll~~m~~~  201 (442)
                      +++++.+.
T Consensus       529 LYerlL~r  536 (677)
T KOG1915|consen  529 LYERLLDR  536 (677)
T ss_pred             HHHHHHHh
Confidence            99998765

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

Probab=93.54  E-value=5.6  Score=36.03  Aligned_cols=176  Identities=15%  Similarity=0.083  Sum_probs=132.8

Q ss_pred             CCCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHhcCCCCCCchhhHHHHHHHHHHHHhC
Q 013497           19 NPNPET--NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLY-LCSDSATDPSSKDSALRHGFRVFDQMLSN   95 (442)
Q Consensus        19 ~~~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~-~~~~~~~~~~~~~~~~~~a~~l~~~M~~~   95 (442)
                      ...|+.  +|..+-..|-+.|+.+.|.+-|++..+..- -+..+.|..=. +|..+         ++++|...|++....
T Consensus        63 ~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p-~~GdVLNNYG~FLC~qg---------~~~eA~q~F~~Al~~  132 (250)
T COG3063          63 EHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAP-NNGDVLNNYGAFLCAQG---------RPEEAMQQFERALAD  132 (250)
T ss_pred             HhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCC-CccchhhhhhHHHHhCC---------ChHHHHHHHHHHHhC
Confidence            345666  999999999999999999999999775421 12233333333 56555         699999999997764


Q ss_pred             CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH
Q 013497           96 NV-IPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQ  173 (442)
Q Consensus        96 g~-~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~  173 (442)
                      -- .--..||..+--+..+.|+.+.|.+.|+.-. +.  .| ...+.-.+.....+.|+.-.|...++.....+. ++..
T Consensus       133 P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL-~~--dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~-~~A~  208 (250)
T COG3063         133 PAYGEPSDTLENLGLCALKAGQFDQAEEYLKRAL-EL--DPQFPPALLELARLHYKAGDYAPARLYLERYQQRGG-AQAE  208 (250)
T ss_pred             CCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHH-Hh--CcCCChHHHHHHHHHHhcccchHHHHHHHHHHhccc-ccHH
Confidence            22 1234678888888889999999999999877 43  33 335677788888899999999999988877765 8999


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHH
Q 013497          174 EIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETG  210 (442)
Q Consensus       174 ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~  210 (442)
                      +.-..|+.-...|+.+.+.+.=.++...  .|...-|
T Consensus       209 sL~L~iriak~~gd~~~a~~Y~~qL~r~--fP~s~e~  243 (250)
T COG3063         209 SLLLGIRIAKRLGDRAAAQRYQAQLQRL--FPYSEEY  243 (250)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHH
Confidence            9888999888899999988877776554  4554433

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=93.52  E-value=1.9  Score=40.34  Aligned_cols=103  Identities=10%  Similarity=-0.031  Sum_probs=76.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc----ccHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCCHHH
Q 013497          101 EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL----RTYDPALFCFCENLEAEKAYEVEEHMGLMG--LSLEQQE  174 (442)
Q Consensus       101 ~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~----~ty~~li~~~~~~g~~~~A~~l~~~M~~~g--~~p~~~t  174 (442)
                      ...|...+..+.+.|++++|...|+.+. ..  -|+.    ..+--+-..|...|+.++|...|+.+...-  -......
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl-~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dA  219 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFV-KK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADA  219 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHH-HH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHH
Confidence            4567777777677899999999999998 43  4654    356667788899999999999999998641  1112334


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChH
Q 013497          175 IAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEE  208 (442)
Q Consensus       175 y~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~  208 (442)
                      +--+...+...|+.++|..+|+++.+.  .|+..
T Consensus       220 l~klg~~~~~~g~~~~A~~~~~~vi~~--yP~s~  251 (263)
T PRK10803        220 MFKVGVIMQDKGDTAKAKAVYQQVIKK--YPGTD  251 (263)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCCH
Confidence            444556677899999999999988765  45544

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=93.39  E-value=0.49  Score=33.40  Aligned_cols=53  Identities=11%  Similarity=0.105  Sum_probs=28.9

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 013497          145 FCFCENLEAEKAYEVEEHMGLMGLSL-EQQEIAALLKVSAETGRVEKVYQYLQKLR  199 (442)
Q Consensus       145 ~~~~~~g~~~~A~~l~~~M~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~ll~~m~  199 (442)
                      ..+.+.|++++|.++|+......  | +...+..+-.++...|++++|..+|++..
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~   58 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD--PDNPEAWYLLGRILYQQGRYDEALAYYERAL   58 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS--TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34555566666666666665543  2 34444555555556666666666665554

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.31  E-value=11  Score=38.74  Aligned_cols=231  Identities=13%  Similarity=0.098  Sum_probs=127.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHH
Q 013497           24 TNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEAS  103 (442)
Q Consensus        24 ~~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~t  103 (442)
                      ...-+-|+.+.+.|++++|+....++...+-.+....+.-++. .....        .+++|+.+.+.   .+.   ..+
T Consensus        13 ~~l~t~ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvVa-lIq~~--------ky~~ALk~ikk---~~~---~~~   77 (652)
T KOG2376|consen   13 EALLTDLNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVA-LIQLD--------KYEDALKLIKK---NGA---LLV   77 (652)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhh-hhhhh--------HHHHHHHHHHh---cch---hhh
Confidence            3445567889999999999999999987762222222333332 22333        78888855543   221   122


Q ss_pred             HHHH--HHHHH--hcCCHHHHHHHHHHhHhhCCCCCCc-ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 013497          104 VTSV--ARLAA--SKNDGDYAFVLIKRMNNEFNVVPRL-RTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAAL  178 (442)
Q Consensus       104 y~~l--i~~~~--~~g~~~~A~~~~~~m~~~~g~~p~~-~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~l  178 (442)
                      ++..  =.+||  +.+..|+|+..++-..      ++. .+-..=-.-+.+.|++++|+.+|+++.+++..    .+...
T Consensus        78 ~~~~~fEKAYc~Yrlnk~Dealk~~~~~~------~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~d----d~d~~  147 (652)
T KOG2376|consen   78 INSFFFEKAYCEYRLNKLDEALKTLKGLD------RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSD----DQDEE  147 (652)
T ss_pred             cchhhHHHHHHHHHcccHHHHHHHHhccc------ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCc----hHHHH
Confidence            3333  45554  6889999999887333      222 24444445677999999999999999877543    34444


Q ss_pred             HHHHHhc-CCHHHHHHHHHHHHhccCCCChHHHHHHH-HHhccccCCCcccchhhHHHHHHhcCCcccCCccccccceEE
Q 013497          179 LKVSAET-GRVEKVYQYLQKLRSTVRCVNEETGKIIE-DWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVV  256 (442)
Q Consensus       179 i~~~~~~-g~~~~a~~ll~~m~~~~~~p~~~t~~~li-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v  256 (442)
                      +.+-+.+ +..-.+    +.|......| ..||..+- .+|.-+..       +...+|++.+..               
T Consensus       148 ~r~nl~a~~a~l~~----~~~q~v~~v~-e~syel~yN~Ac~~i~~-------gky~qA~elL~k---------------  200 (652)
T KOG2376|consen  148 RRANLLAVAAALQV----QLLQSVPEVP-EDSYELLYNTACILIEN-------GKYNQAIELLEK---------------  200 (652)
T ss_pred             HHHHHHHHHHhhhH----HHHHhccCCC-cchHHHHHHHHHHHHhc-------ccHHHHHHHHHH---------------
Confidence            4432221 111111    1233333334 44665443 33311222       555666665431               


Q ss_pred             eeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHH-----HHhHHHHHHhhHHHHHHHHHHcC
Q 013497          257 KRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVA-----ALAMEREVKANFSEFQDWLEKNA  315 (442)
Q Consensus       257 ~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~-----~~~~~g~~~~a~~~F~~m~~~~~  315 (442)
                         .+.      -|.+.|..-+..++|...=...|.     .+-..|+..+|.+++...+.+..
T Consensus       201 ---A~~------~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~~  255 (652)
T KOG2376|consen  201 ---ALR------ICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRNP  255 (652)
T ss_pred             ---HHH------HHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhcC
Confidence               100      122333322333334444333442     24468899999999999887653

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

Probab=93.30  E-value=12  Score=39.10  Aligned_cols=162  Identities=15%  Similarity=0.073  Sum_probs=107.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      ||+.--+.|.+.+.++-|..+|....+.- .-+...|.-...+=...|        ..+.-..+|++.... ++-.+..|
T Consensus       518 tw~~da~~~~k~~~~~carAVya~alqvf-p~k~slWlra~~~ek~hg--------t~Esl~Allqkav~~-~pkae~lw  587 (913)
T KOG0495|consen  518 TWLDDAQSCEKRPAIECARAVYAHALQVF-PCKKSLWLRAAMFEKSHG--------TRESLEALLQKAVEQ-CPKAEILW  587 (913)
T ss_pred             HHhhhHHHHHhcchHHHHHHHHHHHHhhc-cchhHHHHHHHHHHHhcC--------cHHHHHHHHHHHHHh-CCcchhHH
Confidence            67777777777777777777777765431 223345555555444455        677777777777655 33456667


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      -...+.+-..|++..|..++.+.- +.  .| +...|-+.+..-..+.+++.|..+|..-..  ..|+...|.--+..--
T Consensus       588 lM~ake~w~agdv~~ar~il~~af-~~--~pnseeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er  662 (913)
T KOG0495|consen  588 LMYAKEKWKAGDVPAARVILDQAF-EA--NPNSEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLER  662 (913)
T ss_pred             HHHHHHHHhcCCcHHHHHHHHHHH-Hh--CCCcHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHH
Confidence            677777777788888888887766 33  33 445677777777778888888888877654  4566666665555555


Q ss_pred             hcCCHHHHHHHHHHHHhc
Q 013497          184 ETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       184 ~~g~~~~a~~ll~~m~~~  201 (442)
                      -.++.++|.+++++-.+.
T Consensus       663 ~ld~~eeA~rllEe~lk~  680 (913)
T KOG0495|consen  663 YLDNVEEALRLLEEALKS  680 (913)
T ss_pred             HhhhHHHHHHHHHHHHHh
Confidence            577778888887665543

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

Probab=93.25  E-value=7.5  Score=39.67  Aligned_cols=133  Identities=11%  Similarity=0.032  Sum_probs=95.4

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHh-hCCCCCCc----ccHHHHHHHHHHcCCHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNN-EFNVVPRL----RTYDPALFCFCENLEAEK  155 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~-~~g~~p~~----~ty~~li~~~~~~g~~~~  155 (442)
                      .++.|.+.|.+..... +-|....+-+=-.....+.+.+|...|+.-.. ...+.+..    -+++.|=++|.+.+..++
T Consensus       395 n~kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~e  473 (611)
T KOG1173|consen  395 NLKLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEE  473 (611)
T ss_pred             cHHHHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHH
Confidence            7888999988765432 23556666665556667888999998887541 11112222    246666788889999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          156 AYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       156 A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      |...++.-.... .-|..+|.++--.|...|+++.|.+.|++-.  .+.|+..+...++.-.
T Consensus       474 AI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  474 AIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLKLA  532 (611)
T ss_pred             HHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHHHH
Confidence            999999877653 3378888888888889999999999998764  4578887776666544

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=93.16  E-value=1.8  Score=42.80  Aligned_cols=143  Identities=16%  Similarity=0.209  Sum_probs=111.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHH-HHhCCCCCCHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQN-LRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQ-MLSNNVIPNEA  102 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g-~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~-M~~~g~~p~~~  102 (442)
                      .|...|+...+..-++.|..+|-+.++.| +.++++.|+++|..+..+         ...-|.++|+- |+.   -||+.
T Consensus       399 v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~~---------d~~ta~~ifelGl~~---f~d~~  466 (660)
T COG5107         399 VFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYATG---------DRATAYNIFELGLLK---FPDST  466 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhcC---------CcchHHHHHHHHHHh---CCCch
Confidence            78889999999888999999999999999 689999999999966555         36668899875 432   24544


Q ss_pred             HH-HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC--cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013497          103 SV-TSVARLAASKNDGDYAFVLIKRMNNEFNVVPR--LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALL  179 (442)
Q Consensus       103 ty-~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~--~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li  179 (442)
                      .| +-.+.-+..-++-..|..+|+.-. . .+.-+  ...|..+|.-=.+.|++..|..+-+.|.+  +.|...+...+.
T Consensus       467 ~y~~kyl~fLi~inde~naraLFetsv-~-r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQen~~evF~  542 (660)
T COG5107         467 LYKEKYLLFLIRINDEENARALFETSV-E-RLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIEVFT  542 (660)
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHhH-H-HHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHHHHH
Confidence            44 667788889999999999999544 1 12222  46899999999999999999999888876  467776666666


Q ss_pred             HHHH
Q 013497          180 KVSA  183 (442)
Q Consensus       180 ~~~~  183 (442)
                      .-|.
T Consensus       543 Sry~  546 (660)
T COG5107         543 SRYA  546 (660)
T ss_pred             HHHh
Confidence            6654

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

Probab=92.89  E-value=2.8  Score=42.66  Aligned_cols=99  Identities=14%  Similarity=0.097  Sum_probs=78.2

Q ss_pred             hHHHHHHHHHHHHh--CCCC----CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHH
Q 013497           81 ALRHGFRVFDQMLS--NNVI----PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAE  154 (442)
Q Consensus        81 ~~~~a~~l~~~M~~--~g~~----p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~  154 (442)
                      .+.+|...|+.-+.  ..+.    .-..+++.|=.+|.+.+..++|+..++.-. .. .+-|..||+++--.|...|+++
T Consensus       429 ~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL-~l-~~k~~~~~asig~iy~llgnld  506 (611)
T KOG1173|consen  429 EYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKAL-LL-SPKDASTHASIGYIYHLLGNLD  506 (611)
T ss_pred             hhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHH-Hc-CCCchhHHHHHHHHHHHhcChH
Confidence            68889988887652  1111    134567888899999999999999999877 33 3558899999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          155 KAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       155 ~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      .|.+.|..-.  .+.|+..+-..|+..+.
T Consensus       507 ~Aid~fhKaL--~l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  507 KAIDHFHKAL--ALKPDNIFISELLKLAI  533 (611)
T ss_pred             HHHHHHHHHH--hcCCccHHHHHHHHHHH
Confidence            9999998865  57898888788877543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=92.88  E-value=6.1  Score=37.34  Aligned_cols=197  Identities=11%  Similarity=0.086  Sum_probs=120.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHh----C
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHS----QNLRL-SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLS----N   95 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~----~g~~p-~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~----~   95 (442)
                      .|...-..|-..+++++|.+.|.+..+    .+-.. -...|.....+|.+.         ++++|.+.|++...    .
T Consensus        37 ~y~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~---------~~~~Ai~~~~~A~~~y~~~  107 (282)
T PF14938_consen   37 LYEKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG---------DPDEAIECYEKAIEIYREA  107 (282)
T ss_dssp             HHHHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT---------THHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh---------CHHHHHHHHHHHHHHHHhc
Confidence            788888899999999999999998642    22211 112333333345444         57777777776543    3


Q ss_pred             CCCCC--HHHHHHHHHHHHhc-CCHHHHHHHHHHhHh---hCCCCCC--cccHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 013497           96 NVIPN--EASVTSVARLAASK-NDGDYAFVLIKRMNN---EFNVVPR--LRTYDPALFCFCENLEAEKAYEVEEHMGLMG  167 (442)
Q Consensus        96 g~~p~--~~ty~~li~~~~~~-g~~~~A~~~~~~m~~---~~g~~p~--~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g  167 (442)
                      |- |+  ..++.-+-..|-.. |++++|.+.|++-..   ..+ .+.  ..++.-+...+.+.|++++|.++|++....-
T Consensus       108 G~-~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~  185 (282)
T PF14938_consen  108 GR-FSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKC  185 (282)
T ss_dssp             T--HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTC
T ss_pred             Cc-HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHh
Confidence            32 33  24666777777777 899999999987651   222 221  2567788888999999999999999987653


Q ss_pred             C-----CCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhc--cCCCCh--HHHHHHHHHhccccCCCcccchhhHHHHHH
Q 013497          168 L-----SLEQQ-EIAALLKVSAETGRVEKVYQYLQKLRST--VRCVNE--ETGKIIEDWFSGQKVNGVSCDLGLVKNAVL  237 (442)
Q Consensus       168 ~-----~p~~~-ty~~li~~~~~~g~~~~a~~ll~~m~~~--~~~p~~--~t~~~li~~~~~~~~~~~~~~~~~~~~a~~  237 (442)
                      +     ..+.. .|-..+-++...|+...|.+.|++....  ++..+.  .....|+.+|+.       .|.+.+.+++.
T Consensus       186 l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~-------~D~e~f~~av~  258 (282)
T PF14938_consen  186 LENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEE-------GDVEAFTEAVA  258 (282)
T ss_dssp             CCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHT-------T-CCCHHHHCH
T ss_pred             hcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHh-------CCHHHHHHHHH
Confidence            2     22222 2222333566689999999999988754  232332  255777888843       12255555554


Q ss_pred             hc
Q 013497          238 KN  239 (442)
Q Consensus       238 ~~  239 (442)
                      .+
T Consensus       259 ~~  260 (282)
T PF14938_consen  259 EY  260 (282)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.68  E-value=7.6  Score=36.53  Aligned_cols=170  Identities=11%  Similarity=-0.009  Sum_probs=110.8

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCC
Q 013497           21 NPETNFLINLQSCTKSKDLTTAISLYESAHSQNLRL-SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIP   99 (442)
Q Consensus        21 ~p~~~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p-~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p   99 (442)
                      .|+..+++.|..+.+..++..|++++..-.+..  | +....+.|=..|....        .+..|-+.|+++...-  |
T Consensus         8 i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~--p~~rAgLSlLgyCYY~~Q--------~f~~AA~CYeQL~ql~--P   75 (459)
T KOG4340|consen    8 IPEGEFTAVVYRLIRDARYADAIQLLGSELERS--PRSRAGLSLLGYCYYRLQ--------EFALAAECYEQLGQLH--P   75 (459)
T ss_pred             CCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHHH--------HHHHHHHHHHHHHhhC--h
Confidence            355578888888889999999999988766543  3 4444444444555555        7888888888876543  4


Q ss_pred             CHHHHHHH-HHHHHhcCCHHHHHHHHHHhHhhC------------------C----------CCCCcccHHHHHHH---H
Q 013497          100 NEASVTSV-ARLAASKNDGDYAFVLIKRMNNEF------------------N----------VVPRLRTYDPALFC---F  147 (442)
Q Consensus       100 ~~~ty~~l-i~~~~~~g~~~~A~~~~~~m~~~~------------------g----------~~p~~~ty~~li~~---~  147 (442)
                      ...-|... ...+.+.+.+.+|+++...|. ..                  +          -.|..-+-..+|+.   .
T Consensus        76 ~~~qYrlY~AQSLY~A~i~ADALrV~~~~~-D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCll  154 (459)
T KOG4340|consen   76 ELEQYRLYQAQSLYKACIYADALRVAFLLL-DNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLL  154 (459)
T ss_pred             HHHHHHHHHHHHHHHhcccHHHHHHHHHhc-CCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchhee
Confidence            44444322 234556677777777776665 21                  0          01222222233332   2


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC
Q 013497          148 CENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRC  204 (442)
Q Consensus       148 ~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~  204 (442)
                      .+.|+.+.|.+-|+...+-+-.-....||.-+.-| +.|+.+.|.+...++.+.|+.
T Consensus       155 ykegqyEaAvqkFqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r  210 (459)
T KOG4340|consen  155 YKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIR  210 (459)
T ss_pred             eccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhh
Confidence            37889999999999887764333466788777665 678899999999999887654

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=92.68  E-value=7.6  Score=37.44  Aligned_cols=86  Identities=15%  Similarity=0.157  Sum_probs=70.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013497          101 EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLK  180 (442)
Q Consensus       101 ~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~  180 (442)
                      ..+.+.-|.-+...|+...|.++-.+.+     .|+.+-|-.-|.+|+..+++++-..+-..    .  -.++-|..++.
T Consensus       177 ~~Sl~~Ti~~li~~~~~k~A~kl~k~Fk-----v~dkrfw~lki~aLa~~~~w~eL~~fa~s----k--KsPIGyepFv~  245 (319)
T PF04840_consen  177 GLSLNDTIRKLIEMGQEKQAEKLKKEFK-----VPDKRFWWLKIKALAENKDWDELEKFAKS----K--KSPIGYEPFVE  245 (319)
T ss_pred             cCCHHHHHHHHHHCCCHHHHHHHHHHcC-----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC----C--CCCCChHHHHH
Confidence            3455666778888999999999977766     68999999999999999999987765432    2  23477999999


Q ss_pred             HHHhcCCHHHHHHHHHH
Q 013497          181 VSAETGRVEKVYQYLQK  197 (442)
Q Consensus       181 ~~~~~g~~~~a~~ll~~  197 (442)
                      +|.+.|...+|..++.+
T Consensus       246 ~~~~~~~~~eA~~yI~k  262 (319)
T PF04840_consen  246 ACLKYGNKKEASKYIPK  262 (319)
T ss_pred             HHHHCCCHHHHHHHHHh
Confidence            99999999999988876

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

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=92.60  E-value=2.1  Score=34.74  Aligned_cols=95  Identities=9%  Similarity=-0.004  Sum_probs=51.8

Q ss_pred             hHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC---c-ccHHHHHHHHHHcCCHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPN--EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR---L-RTYDPALFCFCENLEAE  154 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~--~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~---~-~ty~~li~~~~~~g~~~  154 (442)
                      +.++|..+|+.-...|....  ...+-.+-+.|-..|++++|+.+|++.. ..  .|+   . .....+-.++...|+.+
T Consensus        16 ~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~-~~--~p~~~~~~~l~~f~Al~L~~~gr~~   92 (120)
T PF12688_consen   16 REEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEAL-EE--FPDDELNAALRVFLALALYNLGRPK   92 (120)
T ss_pred             CHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HH--CCCccccHHHHHHHHHHHHHCCCHH
Confidence            67777777777777665543  2344445566667777777777777665 32  233   1 11111223455667777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 013497          155 KAYEVEEHMGLMGLSLEQQEIAALLKVS  182 (442)
Q Consensus       155 ~A~~l~~~M~~~g~~p~~~ty~~li~~~  182 (442)
                      +|.+.+-....    ++...|.-=|..|
T Consensus        93 eAl~~~l~~la----~~~~~y~ra~~~y  116 (120)
T PF12688_consen   93 EALEWLLEALA----ETLPRYRRAIRFY  116 (120)
T ss_pred             HHHHHHHHHHH----HHHHHHHHHHHHH
Confidence            77766544332    2333444444444

>PRK04841 transcriptional regulator MalT; Provisional

Probab=92.38  E-value=5.2  Score=44.52  Aligned_cols=162  Identities=15%  Similarity=0.052  Sum_probs=103.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC----CCC-CCH
Q 013497           31 QSCTKSKDLTTAISLYESAHSQNLRLSL----HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN----NVI-PNE  101 (442)
Q Consensus        31 ~~~~k~g~~~~A~~lf~~m~~~g~~p~~----~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~----g~~-p~~  101 (442)
                      ..+...|++++|...+++..+.--..+.    ...+.+-..+...|        ++++|...+++....    |-. +-.
T Consensus       460 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G--------~~~~A~~~~~~al~~~~~~g~~~~~~  531 (903)
T PRK04841        460 QVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKG--------ELARALAMMQQTEQMARQHDVYHYAL  531 (903)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHHHhhhcchHHHH
Confidence            3456789999999999987653111121    12232222445555        899999999887642    211 123


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhHh---hCCCC--C-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCCCC--
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMNN---EFNVV--P-RLRTYDPALFCFCENLEAEKAYEVEEHMGLM--GLSLE--  171 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~~---~~g~~--p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~--g~~p~--  171 (442)
                      .++..+-..+...|++++|...+++...   ..+..  | ....+..+-..+...|++++|...+++....  ...+.  
T Consensus       532 ~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~  611 (903)
T PRK04841        532 WSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQ  611 (903)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHH
Confidence            4556667778899999999999887651   12211  1 1223444555677789999999998887543  11122  


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          172 QQEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       172 ~~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      ...+..+...+...|+.+.|.+.+.+...
T Consensus       612 ~~~~~~la~~~~~~G~~~~A~~~l~~a~~  640 (903)
T PRK04841        612 LQCLAMLAKISLARGDLDNARRYLNRLEN  640 (903)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            33444555677789999999999988754

>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=92.32  E-value=10  Score=35.79  Aligned_cols=172  Identities=15%  Similarity=0.072  Sum_probs=103.1

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCc-------hhhHHHHHHHHHH---HHhCCCCC---C
Q 013497           34 TKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSK-------DSALRHGFRVFDQ---MLSNNVIP---N  100 (442)
Q Consensus        34 ~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~-------~~~~~~a~~l~~~---M~~~g~~p---~  100 (442)
                      .+.|+.+.|..++.+....-...++...-.|-..|...|.+.+.+       ...+++|.++++.   |...+..+   -
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            578999999999999875431223333333323333322111111       1235556666644   32222221   2


Q ss_pred             HHHHHHHHHHHHhcCCHH---HHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 013497          101 EASVTSVARLAASKNDGD---YAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAA  177 (442)
Q Consensus       101 ~~ty~~li~~~~~~g~~~---~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~  177 (442)
                      ..++..++.+|...+..+   +|..+++.+.++.+-.  ..+|-.-|..+.+.++.+.+.+++..|...-.. ....+..
T Consensus        84 ~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~--~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~-~e~~~~~  160 (278)
T PF08631_consen   84 LSILRLLANAYLEWDTYESVEKALNALRLLESEYGNK--PEVFLLKLEILLKSFDEEEYEEILMRMIRSVDH-SESNFDS  160 (278)
T ss_pred             HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCC--cHHHHHHHHHHhccCChhHHHHHHHHHHHhccc-ccchHHH
Confidence            357778888888887654   5777777776344322  445556677777789999999999999876321 3344565


Q ss_pred             HHHHHHh--cCCHHHHHHHHHHHHhccCCCChH
Q 013497          178 LLKVSAE--TGRVEKVYQYLQKLRSTVRCVNEE  208 (442)
Q Consensus       178 li~~~~~--~g~~~~a~~ll~~m~~~~~~p~~~  208 (442)
                      ++..+-.  ......|...+.++....+.|++.
T Consensus       161 ~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~  193 (278)
T PF08631_consen  161 ILHHIKQLAEKSPELAAFCLDYLLLNRFKSSED  193 (278)
T ss_pred             HHHHHHHHHhhCcHHHHHHHHHHHHHHhCCChh
Confidence            5555522  233456778888887777777775

It is also involved in sporulation [].

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=92.11  E-value=0.64  Score=32.76  Aligned_cols=54  Identities=13%  Similarity=-0.028  Sum_probs=31.5

Q ss_pred             HHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 013497          109 RLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGL  165 (442)
Q Consensus       109 ~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~  165 (442)
                      ..+.+.|++++|...|++.. +.  .| +...+..+-.++...|++++|..+|++..+
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l-~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQAL-KQ--DPDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHH-CC--STTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHH-HH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            45566666666666666666 33  23 344555555666666666666666666643

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=91.86  E-value=1.5  Score=31.52  Aligned_cols=54  Identities=17%  Similarity=0.151  Sum_probs=27.0

Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          146 CFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       146 ~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      .|.+.+++++|.++++.+...+-. +...|...-.++.+.|++++|.+.|++..+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            445555555555555555544211 333344444455555555555555555543

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

Probab=91.79  E-value=12  Score=39.72  Aligned_cols=109  Identities=8%  Similarity=-0.034  Sum_probs=75.0

Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 013497           90 DQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLS  169 (442)
Q Consensus        90 ~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~  169 (442)
                      .++....+.-|...|-.|--++..+|+++.+.+.|++.. . ++.-....|+.+-..|..+|.-..|..++++-....-.
T Consensus       312 ~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~-~-~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~  389 (799)
T KOG4162|consen  312 RKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQAL-P-FSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQ  389 (799)
T ss_pred             HHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHh-H-hhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccC
Confidence            344445566788899999999999999999999999876 3 33445667888888899999989999998876544323


Q ss_pred             CCHHHHHHHHH-HHH-hcCCHHHHHHHHHHHHh
Q 013497          170 LEQQEIAALLK-VSA-ETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       170 p~~~ty~~li~-~~~-~~g~~~~a~~ll~~m~~  200 (442)
                      |+..+--.|+. .|. +.+..+++.++-++...
T Consensus       390 ps~~s~~Lmasklc~e~l~~~eegldYA~kai~  422 (799)
T KOG4162|consen  390 PSDISVLLMASKLCIERLKLVEEGLDYAQKAIS  422 (799)
T ss_pred             CCcchHHHHHHHHHHhchhhhhhHHHHHHHHHH
Confidence            44333222332 232 35667777766666554

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

Probab=91.56  E-value=20  Score=37.50  Aligned_cols=174  Identities=11%  Similarity=0.144  Sum_probs=94.7

Q ss_pred             CHH---HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-------cCCC-----------------
Q 013497           22 PET---NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSD-------SATD-----------------   74 (442)
Q Consensus        22 p~~---~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~-------~~~~-----------------   74 (442)
                      ||.   .|++|-+-|.+.|+++.|..+|++....-  .++.-|+.+.++|+.       ..+.                 
T Consensus       244 tDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~  321 (835)
T KOG2047|consen  244 TDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLEL  321 (835)
T ss_pred             cHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHH
Confidence            565   89999999999999999999999966542  233334444433322       1000                 


Q ss_pred             ----------------------------------CCCchhhHHHHHHHHHHHHhCCCCC------CHHHHHHHHHHHHhc
Q 013497           75 ----------------------------------PSSKDSALRHGFRVFDQMLSNNVIP------NEASVTSVARLAASK  114 (442)
Q Consensus        75 ----------------------------------~~~~~~~~~~a~~l~~~M~~~g~~p------~~~ty~~li~~~~~~  114 (442)
                                                        .-+-.|+..+...+|.+.... +.|      --..|..+-+.|-.+
T Consensus       322 ~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~  400 (835)
T KOG2047|consen  322 HMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKLYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENN  400 (835)
T ss_pred             HHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhhhhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhc
Confidence                                              001123444445555554332 111      123456666777778


Q ss_pred             CCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHH-------HcCCHHHHHHHHHHHHHCCCC-----------C------
Q 013497          115 NDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFC-------ENLEAEKAYEVEEHMGLMGLS-----------L------  170 (442)
Q Consensus       115 g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~-------~~g~~~~A~~l~~~M~~~g~~-----------p------  170 (442)
                      |+++.|..+|+.-. +.    +-.+-+-|-..+|       ++.+++.|+++.+....-.-.           +      
T Consensus       401 ~~l~~aRvifeka~-~V----~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhr  475 (835)
T KOG2047|consen  401 GDLDDARVIFEKAT-KV----PYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHR  475 (835)
T ss_pred             CcHHHHHHHHHHhh-cC----CccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHH
Confidence            88888888887765 32    2333444444444       344455666655443221101           1      


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC
Q 013497          171 EQQEIAALLKVSAETGRVEKVYQYLQKLRSTVR  203 (442)
Q Consensus       171 ~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~  203 (442)
                      +...|.-+++.--..|-++....+++++.+..+
T Consensus       476 SlkiWs~y~DleEs~gtfestk~vYdriidLri  508 (835)
T KOG2047|consen  476 SLKIWSMYADLEESLGTFESTKAVYDRIIDLRI  508 (835)
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhc
Confidence            122344444444445666777777777766543

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=91.53  E-value=7  Score=32.32  Aligned_cols=125  Identities=17%  Similarity=0.074  Sum_probs=88.1

Q ss_pred             HHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccH
Q 013497           61 FNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTY  140 (442)
Q Consensus        61 y~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty  140 (442)
                      ...+|..+...+        .......+++.+...+. .+...+|.+|..|++.. ..+.++.+..       .++....
T Consensus        10 ~~~vv~~~~~~~--------~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~-~~~ll~~l~~-------~~~~yd~   72 (140)
T smart00299       10 VSEVVELFEKRN--------LLEELIPYLESALKLNS-ENPALQTKLIELYAKYD-PQKEIERLDN-------KSNHYDI   72 (140)
T ss_pred             HHHHHHHHHhCC--------cHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHC-HHHHHHHHHh-------ccccCCH
Confidence            345666666555        78889999999888774 68889999999999874 4444455442       2345566


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          141 DPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAET-GRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       141 ~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~-g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      ..++..|.+.+.++++..++..+..         |...++.+... ++.+.|.+++.+      .-++..|..++..+
T Consensus        73 ~~~~~~c~~~~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~------~~~~~lw~~~~~~~  135 (140)
T smart00299       73 EKVGKLCEKAKLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVK------QNNPELWAEVLKAL  135 (140)
T ss_pred             HHHHHHHHHcCcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHh------CCCHHHHHHHHHHH
Confidence            6789999999999999999888743         23344444444 788888888875      22666777777666

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=91.35  E-value=24  Score=38.15  Aligned_cols=88  Identities=11%  Similarity=0.094  Sum_probs=66.9

Q ss_pred             CCHHHHHHHHHHH--HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC
Q 013497           21 NPETNFLINLQSC--TKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI   98 (442)
Q Consensus        21 ~p~~~~~~li~~~--~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~   98 (442)
                      -|+..|...+.++  .+.|..++|..+++.....+.. |..|..++-..|...+        +.++|..+|++....  -
T Consensus        39 ~Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~--------~~d~~~~~Ye~~~~~--~  107 (932)
T KOG2053|consen   39 HPNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLG--------KLDEAVHLYERANQK--Y  107 (932)
T ss_pred             CCCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHh--------hhhHHHHHHHHHHhh--C
Confidence            4666667777665  4678888999888877766554 7788888877888888        899999999887543  4


Q ss_pred             CCHHHHHHHHHHHHhcCCHHH
Q 013497           99 PNEASVTSVARLAASKNDGDY  119 (442)
Q Consensus        99 p~~~ty~~li~~~~~~g~~~~  119 (442)
                      |+..-...+..+|++.+.+.+
T Consensus       108 P~eell~~lFmayvR~~~yk~  128 (932)
T KOG2053|consen  108 PSEELLYHLFMAYVREKSYKK  128 (932)
T ss_pred             CcHHHHHHHHHHHHHHHHHHH
Confidence            668888888888888877654

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=91.25  E-value=11  Score=38.44  Aligned_cols=143  Identities=12%  Similarity=0.003  Sum_probs=97.6

Q ss_pred             CHHHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 013497           38 DLTTAISLYESAH-SQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKND  116 (442)
Q Consensus        38 ~~~~A~~lf~~m~-~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~  116 (442)
                      .+....++|-++. ..+.++|+..++.|=-+|--.+        .+++|.+.|+....... -|..+||-|=..++...+
T Consensus       409 ~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~--------efdraiDcf~~AL~v~P-nd~~lWNRLGAtLAN~~~  479 (579)
T KOG1125|consen  409 HLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSG--------EFDRAVDCFEAALQVKP-NDYLLWNRLGATLANGNR  479 (579)
T ss_pred             HHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcch--------HHHHHHHHHHHHHhcCC-chHHHHHHhhHHhcCCcc
Confidence            3445556666654 5564566666666644555556        89999999999876532 378999999999999999


Q ss_pred             HHHHHHHHHHhHhhCCCCCCc-ccHHHHHHHHHHcCCHHHHHHHHHHHH---HC------CCCCCHHHHHHHHHHHHhcC
Q 013497          117 GDYAFVLIKRMNNEFNVVPRL-RTYDPALFCFCENLEAEKAYEVEEHMG---LM------GLSLEQQEIAALLKVSAETG  186 (442)
Q Consensus       117 ~~~A~~~~~~m~~~~g~~p~~-~ty~~li~~~~~~g~~~~A~~l~~~M~---~~------g~~p~~~ty~~li~~~~~~g  186 (442)
                      -++|..-+.+..   .++|+- ++.-.|--+|...|.+++|.+.|=...   .+      +-.++...|.+|=.++.-.+
T Consensus       480 s~EAIsAY~rAL---qLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~  556 (579)
T KOG1125|consen  480 SEEAISAYNRAL---QLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMN  556 (579)
T ss_pred             cHHHHHHHHHHH---hcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcC
Confidence            999999999987   457764 343344445779999999988765432   22      12234456777666666666


Q ss_pred             CHHHHH
Q 013497          187 RVEKVY  192 (442)
Q Consensus       187 ~~~~a~  192 (442)
                      +.|.+.
T Consensus       557 ~~D~l~  562 (579)
T KOG1125|consen  557 RSDLLQ  562 (579)
T ss_pred             CchHHH
Confidence            655443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=91.23  E-value=3  Score=41.62  Aligned_cols=65  Identities=15%  Similarity=0.068  Sum_probs=56.5

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcc----cHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 013497           99 PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLR----TYDPALFCFCENLEAEKAYEVEEHMGLM  166 (442)
Q Consensus        99 p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~----ty~~li~~~~~~g~~~~A~~l~~~M~~~  166 (442)
                      .+...++.+-.+|.+.|++++|+..|++-. +  +.|+..    +|..+-.+|.+.|+.++|.+.++...+.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rAL-e--L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETAL-E--LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-h--hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            457889999999999999999999999976 3  478754    5899999999999999999999988775

>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=90.77  E-value=0.97  Score=33.17  Aligned_cols=60  Identities=17%  Similarity=0.155  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhHh---hCC-CCCC-cccHHHHHHHHHHcCCHHHHHHHHHH
Q 013497          103 SVTSVARLAASKNDGDYAFVLIKRMNN---EFN-VVPR-LRTYDPALFCFCENLEAEKAYEVEEH  162 (442)
Q Consensus       103 ty~~li~~~~~~g~~~~A~~~~~~m~~---~~g-~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~  162 (442)
                      +|+.+-..|...|++++|+..|++...   ..| -.|+ ..+++.+-..|...|+.++|.+.+++
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~   71 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQK   71 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            445555555555555555555554431   011 0011 23444444444445555555444443

...

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.22  E-value=5.5  Score=43.50  Aligned_cols=89  Identities=12%  Similarity=-0.010  Sum_probs=68.1

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCC
Q 013497           20 PNPETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIP   99 (442)
Q Consensus        20 ~~p~~~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p   99 (442)
                      +.-+..|+.+-.+-.+.|.+.+|++-|-+.-      |+..|.-+|..+++.+        .+++-.+.+...++..-.|
T Consensus      1101 ~n~p~vWsqlakAQL~~~~v~dAieSyikad------Dps~y~eVi~~a~~~~--------~~edLv~yL~MaRkk~~E~ 1166 (1666)
T KOG0985|consen 1101 CNEPAVWSQLAKAQLQGGLVKDAIESYIKAD------DPSNYLEVIDVASRTG--------KYEDLVKYLLMARKKVREP 1166 (1666)
T ss_pred             hCChHHHHHHHHHHHhcCchHHHHHHHHhcC------CcHHHHHHHHHHHhcC--------cHHHHHHHHHHHHHhhcCc
Confidence            4444578888888888888888887775432      5578889999999888        8988888887777776667


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHH
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLI  124 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~  124 (442)
                      .+-+  .||-+|++.+++.+-++++
T Consensus      1167 ~id~--eLi~AyAkt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1167 YIDS--ELIFAYAKTNRLTELEEFI 1189 (1666)
T ss_pred             cchH--HHHHHHHHhchHHHHHHHh
Confidence            6554  8889999998887766654

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

Probab=90.11  E-value=9.6  Score=41.87  Aligned_cols=118  Identities=12%  Similarity=0.088  Sum_probs=81.5

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVE  160 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~  160 (442)
                      ..++|.++|+++.+.. +-|..+.|-+-..|+.. ++++|.+++.... ..               |....++.++.++|
T Consensus       131 ~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV-~~---------------~i~~kq~~~~~e~W  192 (906)
T PRK14720        131 ENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAI-YR---------------FIKKKQYVGIEEIW  192 (906)
T ss_pred             ChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHH-HH---------------HHhhhcchHHHHHH
Confidence            8999999999998877 45888999999999999 9999999998876 33               44444555555555


Q ss_pred             HHHHHC-------------------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          161 EHMGLM-------------------GLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       161 ~~M~~~-------------------g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      .++...                   |..--..++-.|-..|-+..+++++..+|+...+..-. +.-...-|+..|
T Consensus       193 ~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~-n~~a~~~l~~~y  267 (906)
T PRK14720        193 SKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNK-NNKAREELIRFY  267 (906)
T ss_pred             HHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCc-chhhHHHHHHHH
Confidence            555443                   22223345555667787888889999999888765221 223445555555

>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=89.97  E-value=1.3  Score=31.50  Aligned_cols=57  Identities=16%  Similarity=0.135  Sum_probs=24.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcC-CHHHHHHHHHH
Q 013497          103 SVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENL-EAEKAYEVEEH  162 (442)
Q Consensus       103 ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g-~~~~A~~l~~~  162 (442)
                      +|..+-..+...|++++|+..|++.. +.  .| +...|..+-.+|.+.| +.++|.+.++.
T Consensus         5 ~~~~~g~~~~~~~~~~~A~~~~~~ai-~~--~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~   63 (69)
T PF13414_consen    5 AWYNLGQIYFQQGDYEEAIEYFEKAI-EL--DPNNAEAYYNLGLAYMKLGKDYEEAIEDFEK   63 (69)
T ss_dssp             HHHHHHHHHHHTTHHHHHHHHHHHHH-HH--STTHHHHHHHHHHHHHHTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH-Hc--CCCCHHHHHHHHHHHHHhCccHHHHHHHHHH
Confidence            34444444444445555555544444 22  12 2233444444444444 34444444443

...

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=89.97  E-value=4.1  Score=34.66  Aligned_cols=83  Identities=8%  Similarity=-0.010  Sum_probs=67.7

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVE  160 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~  160 (442)
                      ++++|..+|+....... -+..-|-.|--++-..|++++|+..|...- ... .-|.+.|-.+=.++.+.|+.+.|.+-|
T Consensus        50 ~l~~A~~~f~~L~~~Dp-~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~-~L~-~ddp~~~~~ag~c~L~lG~~~~A~~aF  126 (157)
T PRK15363         50 EFAGAARLFQLLTIYDA-WSFDYWFRLGECCQAQKHWGEAIYAYGRAA-QIK-IDAPQAPWAAAECYLACDNVCYAIKAL  126 (157)
T ss_pred             CHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHHhhHHHHHHHHHHHH-hcC-CCCchHHHHHHHHHHHcCCHHHHHHHH
Confidence            79999999999876543 255666777778888999999999999887 543 236688888899999999999999999


Q ss_pred             HHHHHC
Q 013497          161 EHMGLM  166 (442)
Q Consensus       161 ~~M~~~  166 (442)
                      +.....
T Consensus       127 ~~Ai~~  132 (157)
T PRK15363        127 KAVVRI  132 (157)
T ss_pred             HHHHHH
Confidence            876654

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.87  E-value=1.4  Score=41.51  Aligned_cols=94  Identities=5%  Similarity=-0.004  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQN---LRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNE  101 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g---~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~  101 (442)
                      +-..++..-.....++.++..+-+++..-   ..|+... .+.+.+|-+.         ++++++.+...=.+.|+-||.
T Consensus        66 ~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~-~~~irlllky---------~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   66 TVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI-HTWIRLLLKY---------DPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             ehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH-HHHHHHHHcc---------ChHHHHHHHhCcchhccccch
Confidence            55555555555566666666665555321   2233222 2233444444         355666666665666666666


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhH
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      +|++.+|+.+.+.++..+|..+.-+|.
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~  162 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVM  162 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            666666666666666666666655554

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=89.86  E-value=3.5  Score=43.30  Aligned_cols=104  Identities=15%  Similarity=0.157  Sum_probs=75.7

Q ss_pred             chhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHH
Q 013497           78 KDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAY  157 (442)
Q Consensus        78 ~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~  157 (442)
                      ....+.+|+.+++.+......  +.-|.-+.+-|+..|+++-|.++|-+--          -++-.|..|.++|.++.|+
T Consensus       744 ~akew~kai~ildniqdqk~~--s~yy~~iadhyan~~dfe~ae~lf~e~~----------~~~dai~my~k~~kw~da~  811 (1636)
T KOG3616|consen  744 GAKEWKKAISILDNIQDQKTA--SGYYGEIADHYANKGDFEIAEELFTEAD----------LFKDAIDMYGKAGKWEDAF  811 (1636)
T ss_pred             hhhhhhhhHhHHHHhhhhccc--cccchHHHHHhccchhHHHHHHHHHhcc----------hhHHHHHHHhccccHHHHH
Confidence            334788899999888765432  3457778889999999999999996643          2677899999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 013497          158 EVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYL  195 (442)
Q Consensus       158 ~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll  195 (442)
                      ++-++.  +|-......|-+-..-+-+.|++.+|.+++
T Consensus       812 kla~e~--~~~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  812 KLAEEC--HGPEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             HHHHHh--cCchhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            997654  344445556655555566677666665543

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

Probab=89.72  E-value=29  Score=36.41  Aligned_cols=195  Identities=14%  Similarity=0.020  Sum_probs=113.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|-.....+-++||+..|..++...-+..-. +...|-.-+.+-....        .+++|..+|.+...  ..|++-.|
T Consensus       586 lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~--------e~eraR~llakar~--~sgTeRv~  654 (913)
T KOG0495|consen  586 LWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFEND--------ELERARDLLAKARS--ISGTERVW  654 (913)
T ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccc--------cHHHHHHHHHHHhc--cCCcchhh
Confidence            5655666677788888888888887765432 5556666666655565        78888888887654  55677777


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc-ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL-RTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQ-QEIAALLKVS  182 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~-~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~-~ty~~li~~~  182 (442)
                      .--++..--.+..++|.+++++.. +  .-|+- ..|-.+=+.+-+.++++.|.+.|..=..  ..|+. ..|-.|.+.=
T Consensus       655 mKs~~~er~ld~~eeA~rllEe~l-k--~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k--~cP~~ipLWllLakle  729 (913)
T KOG0495|consen  655 MKSANLERYLDNVEEALRLLEEAL-K--SFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK--KCPNSIPLWLLLAKLE  729 (913)
T ss_pred             HHHhHHHHHhhhHHHHHHHHHHHH-H--hCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc--cCCCCchHHHHHHHHH
Confidence            777777777788888888887765 2  23433 2344444555666677777666543221  23333 2333343433


Q ss_pred             HhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHh
Q 013497          183 AETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLK  238 (442)
Q Consensus       183 ~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~  238 (442)
                      -+.|.+-+|..+|++-+... .-+...|-..|..=  .++|........+..|++.
T Consensus       730 Ek~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~E--lR~gn~~~a~~lmakALQe  782 (913)
T KOG0495|consen  730 EKDGQLVRARSILDRARLKN-PKNALLWLESIRME--LRAGNKEQAELLMAKALQE  782 (913)
T ss_pred             HHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHH--HHcCCHHHHHHHHHHHHHh
Confidence            44666666776666655442 22333444444433  4443333333344444443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=89.66  E-value=6.5  Score=36.79  Aligned_cols=98  Identities=13%  Similarity=0.081  Sum_probs=71.0

Q ss_pred             HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC
Q 013497           58 LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN--EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP  135 (442)
Q Consensus        58 ~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~--~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p  135 (442)
                      ...|...+.+....+        ++++|...|+.+.+......  ..++--+-..|...|++++|...|+.+. ..  -|
T Consensus       143 ~~~Y~~A~~l~~~~~--------~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv-~~--yP  211 (263)
T PRK10803        143 NTDYNAAIALVQDKS--------RQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVV-KN--YP  211 (263)
T ss_pred             HHHHHHHHHHHHhcC--------CHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HH--CC
Confidence            355666666555555        79999999999987643311  2466678888999999999999999998 32  24


Q ss_pred             Cc-ccH---HHHHHHHHHcCCHHHHHHHHHHHHHC
Q 013497          136 RL-RTY---DPALFCFCENLEAEKAYEVEEHMGLM  166 (442)
Q Consensus       136 ~~-~ty---~~li~~~~~~g~~~~A~~l~~~M~~~  166 (442)
                      +. ...   --+...+...|+.++|..+|+...+.
T Consensus       212 ~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        212 KSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             CCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            32 222   23345677899999999999988764

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=89.58  E-value=1.6  Score=31.46  Aligned_cols=57  Identities=16%  Similarity=0.119  Sum_probs=42.9

Q ss_pred             HHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 013497          109 RLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMG  167 (442)
Q Consensus       109 ~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g  167 (442)
                      ..|.+.+++++|.++++.+. ... +.+...|...-..+.+.|++++|.+.|+...+.+
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l-~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERAL-ELD-PDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHH-HhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            46778888888888888887 432 2355666677778888888888888888887653

>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=89.48  E-value=1.6  Score=31.08  Aligned_cols=63  Identities=13%  Similarity=0.009  Sum_probs=51.7

Q ss_pred             cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHh
Q 013497          137 LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETG-RVEKVYQYLQKLRS  200 (442)
Q Consensus       137 ~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g-~~~~a~~ll~~m~~  200 (442)
                      ..+|..+=..+...|++++|...|++..+.. +-+...|..+-.++.+.| +.++|.+.+++-.+
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            4567788888999999999999999998764 225667888888899999 79999999887654

...

>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=89.34  E-value=1.4  Score=32.34  Aligned_cols=64  Identities=14%  Similarity=0.137  Sum_probs=47.1

Q ss_pred             CHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCC-HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHH
Q 013497           22 PET--NFLINLQSCTKSKDLTTAISLYESAHSQ----NL-RLS-LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQML   93 (442)
Q Consensus        22 p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~----g~-~p~-~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~   93 (442)
                      |+.  +|+.+=..|...|++++|+..|++..+-    |- .|+ ..+++.+=.++...|        ++++|.+.|++-.
T Consensus         2 ~~~a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g--------~~~~A~~~~~~al   73 (78)
T PF13424_consen    2 PDTANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLG--------DYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTT--------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcC--------CHHHHHHHHHHHH
Confidence            454  8999999999999999999999997632    21 122 344555555777788        9999999998754

...

>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=89.21  E-value=9.3  Score=38.68  Aligned_cols=82  Identities=13%  Similarity=0.127  Sum_probs=57.7

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 013497           99 PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAAL  178 (442)
Q Consensus        99 p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~l  178 (442)
                      .+...|..|-+...+.|+++-|.+.|....          -|..|+--|.-.|+.++-.++-+.....|-      +|.-
T Consensus       345 ~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~----------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~a  408 (443)
T PF04053_consen  345 DDPEKWKQLGDEALRQGNIELAEECYQKAK----------DFSGLLLLYSSTGDREKLSKLAKIAEERGD------INIA  408 (443)
T ss_dssp             STHHHHHHHHHHHHHTTBHHHHHHHHHHCT-----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHhhc----------CccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHH
Confidence            467788888888888888888888887765          267777778888888777777766665552      4666


Q ss_pred             HHHHHhcCCHHHHHHHHH
Q 013497          179 LKVSAETGRVEKVYQYLQ  196 (442)
Q Consensus       179 i~~~~~~g~~~~a~~ll~  196 (442)
                      ..++.-.|+.++..++|.
T Consensus       409 f~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  409 FQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             HHHHHHHT-HHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHH
Confidence            666666777777776664

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.09  E-value=2  Score=40.55  Aligned_cols=105  Identities=9%  Similarity=0.022  Sum_probs=61.5

Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhC---CCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC
Q 013497           95 NNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEF---NVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLE  171 (442)
Q Consensus        95 ~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~---g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~  171 (442)
                      .|....+.|...++..-....+++++...+-..+ ..   -..|+.. -.+.+.-+ -.=+..+++-+...=...|+.||
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlR-hs~~a~~~~~~~-~~~~irll-lky~pq~~i~~l~npIqYGiF~d  134 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLR-HSPNAWYLRNWT-IHTWIRLL-LKYDPQKAIYTLVNPIQYGIFPD  134 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHh-cCcchhhhcccc-HHHHHHHH-HccChHHHHHHHhCcchhccccc
Confidence            3444555666666666666667777777666655 21   1222222 22233333 33345567666666666677777


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 013497          172 QQEIAALLKVSAETGRVEKVYQYLQKLRSTV  202 (442)
Q Consensus       172 ~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~  202 (442)
                      ..+++.||+.+.+.+++.+|.++...|....
T Consensus       135 qf~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  135 QFTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             hhhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            7777777777777777777777666665443

>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=89.01  E-value=7.3  Score=32.13  Aligned_cols=18  Identities=11%  Similarity=0.231  Sum_probs=12.9

Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 013497           34 TKSKDLTTAISLYESAHS   51 (442)
Q Consensus        34 ~k~g~~~~A~~lf~~m~~   51 (442)
                      .-.|.+++..++..+...
T Consensus        13 ildG~V~qGveii~k~v~   30 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVN   30 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHH
T ss_pred             HHhchHHHHHHHHHHHcC
Confidence            346888888999888663

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=88.60  E-value=4.5  Score=37.98  Aligned_cols=80  Identities=11%  Similarity=0.070  Sum_probs=68.2

Q ss_pred             cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----ccCCCChHHHH
Q 013497          137 LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRS-----TVRCVNEETGK  211 (442)
Q Consensus       137 ~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~-----~~~~p~~~t~~  211 (442)
                      ..++..++..+...|+.+.+.+.++++....-. ++..|..||.+|.+.|+...|.+.++.+.+     .|+.|.+.+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~-~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPY-DEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            346778888999999999999999999876533 788999999999999999999999988765     68999998888


Q ss_pred             HHHHHh
Q 013497          212 IIEDWF  217 (442)
Q Consensus       212 ~li~~~  217 (442)
                      .....+
T Consensus       232 ~y~~~~  237 (280)
T COG3629         232 LYEEIL  237 (280)
T ss_pred             HHHHHh
Confidence            777776

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

Probab=88.55  E-value=34  Score=35.71  Aligned_cols=167  Identities=11%  Similarity=0.018  Sum_probs=103.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh---cC-------------------------CCCCCch
Q 013497           28 INLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSD---SA-------------------------TDPSSKD   79 (442)
Q Consensus        28 ~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~---~~-------------------------~~~~~~~   79 (442)
                      +--+-+.+.+++++|..+|..+...  -||-+-|.-.+..|..   ..                         ++-..-.
T Consensus       224 ~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~e  301 (700)
T KOG1156|consen  224 TKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGE  301 (700)
T ss_pred             hHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcc
Confidence            4455677889999999999998876  4777777777663321   11                         0000011


Q ss_pred             hhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHh---hCCC----------CCCcc--cHHHHH
Q 013497           80 SALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNN---EFNV----------VPRLR--TYDPAL  144 (442)
Q Consensus        80 ~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~---~~g~----------~p~~~--ty~~li  144 (442)
                      .-.+..-.++..+.+.|+++   ++..+.+.|=.-...+--.++.-++..   ..|.          .|...  |+--++
T Consensus       302 el~~~vdkyL~~~l~Kg~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~la  378 (700)
T KOG1156|consen  302 ELKEIVDKYLRPLLSKGVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLA  378 (700)
T ss_pred             hhHHHHHHHHHHHhhcCCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHH
Confidence            23444556667777888874   455555555443333322223322220   1111          34433  445677


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          145 FCFCENLEAEKAYEVEEHMGLMGLSLEQQE-IAALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       145 ~~~~~~g~~~~A~~l~~~M~~~g~~p~~~t-y~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      ..|-+.|+++.|.+..+....+  .|+.+. |-+=-+.+..+|++++|..++.+-++-
T Consensus       379 qh~D~~g~~~~A~~yId~AIdH--TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~el  434 (700)
T KOG1156|consen  379 QHYDKLGDYEVALEYIDLAIDH--TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQEL  434 (700)
T ss_pred             HHHHHcccHHHHHHHHHHHhcc--CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Confidence            8889999999999999987754  565443 333347788899999999999988753

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=88.34  E-value=26  Score=37.70  Aligned_cols=71  Identities=17%  Similarity=0.115  Sum_probs=47.1

Q ss_pred             hhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHH
Q 013497           80 SALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEV  159 (442)
Q Consensus        80 ~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l  159 (442)
                      |.+++|..+|.+-+.         |-.|=+.|-..|+|++|+++-+.=- +  +.. ..||-.-..-+-..+|++.|++.
T Consensus       814 gMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~D-R--iHL-r~Tyy~yA~~Lear~Di~~Aley  880 (1416)
T KOG3617|consen  814 GMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKD-R--IHL-RNTYYNYAKYLEARRDIEAALEY  880 (1416)
T ss_pred             hhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhcc-c--eeh-hhhHHHHHHHHHhhccHHHHHHH
Confidence            478888888887754         4456667778888999988865532 2  222 23555555556667778888777


Q ss_pred             HHHH
Q 013497          160 EEHM  163 (442)
Q Consensus       160 ~~~M  163 (442)
                      |+.-
T Consensus       881 yEK~  884 (1416)
T KOG3617|consen  881 YEKA  884 (1416)
T ss_pred             HHhc
Confidence            7654

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=87.78  E-value=29  Score=35.52  Aligned_cols=166  Identities=20%  Similarity=0.131  Sum_probs=104.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHh-CCCCCCH-----HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC
Q 013497           27 LINLQSCTKSKDLTTAISLYESAHS-QNLRLSL-----HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN  100 (442)
Q Consensus        27 ~~li~~~~k~g~~~~A~~lf~~m~~-~g~~p~~-----~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~  100 (442)
                      ..+++...=.||-+.+++++.+..+ .|++-..     ..|..++..+..  ++.  .....+.|.++++.+.++-  |+
T Consensus       192 ~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~--~~~--~~~~~~~a~~lL~~~~~~y--P~  265 (468)
T PF10300_consen  192 LKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLG--IDG--EDVPLEEAEELLEEMLKRY--PN  265 (468)
T ss_pred             HHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcC--Ccc--cCCCHHHHHHHHHHHHHhC--CC
Confidence            3455566667999999999988654 3443222     233333332111  111  2337899999999998753  67


Q ss_pred             HHHHHHHH-HHHHhcCCHHHHHHHHHHhHhhCC--C-CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 013497          101 EASVTSVA-RLAASKNDGDYAFVLIKRMNNEFN--V-VPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIA  176 (442)
Q Consensus       101 ~~ty~~li-~~~~~~g~~~~A~~~~~~m~~~~g--~-~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~  176 (442)
                      ...|.-.- +.+...|++++|.+.|++.. ...  . +.....|--+.-.+.-.+++++|.+.|..+.+..-- +..+|.
T Consensus       266 s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~-~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~W-Ska~Y~  343 (468)
T PF10300_consen  266 SALFLFFEGRLERLKGNLEEAIESFERAI-ESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKW-SKAFYA  343 (468)
T ss_pred             cHHHHHHHHHHHHHhcCHHHHHHHHHHhc-cchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcccc-HHHHHH
Confidence            77665554 56677899999999999654 211  0 112233444455577789999999999999875322 344454


Q ss_pred             HHHHHH-HhcCCH-------HHHHHHHHHHHh
Q 013497          177 ALLKVS-AETGRV-------EKVYQYLQKLRS  200 (442)
Q Consensus       177 ~li~~~-~~~g~~-------~~a~~ll~~m~~  200 (442)
                      -+..+| ...|+.       ++|.++|.+...
T Consensus       344 Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  344 YLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            444433 346766       788888877643

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.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.69  E-value=24  Score=32.84  Aligned_cols=128  Identities=7%  Similarity=-0.019  Sum_probs=93.6

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHH-----HHHcCCHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFC-----FCENLEAEK  155 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~-----~~~~g~~~~  155 (442)
                      .+.-...++.+..+...+.+.+....|.+.-.+.|+.+.|...|+... +..-+.|..+++.++..     |.-..++..
T Consensus       192 Ey~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~ve-k~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~  270 (366)
T KOG2796|consen  192 EYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVE-KVTQKLDGLQGKIMVLMNSAFLHLGQNNFAE  270 (366)
T ss_pred             hhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHH-HHHhhhhccchhHHHHhhhhhheecccchHH
Confidence            677788889998888777888999999999999999999999999887 44335667777766643     445667788


Q ss_pred             HHHHHHHHHHCCCCCCHHHHH--HHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHH
Q 013497          156 AYEVEEHMGLMGLSLEQQEIA--ALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIE  214 (442)
Q Consensus       156 A~~l~~~M~~~g~~p~~~ty~--~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li  214 (442)
                      |...|.++....-. |.+.-|  +|+..|  .|+..+|.+.+..|...  .|.+.+-++++
T Consensus       271 a~r~~~~i~~~D~~-~~~a~NnKALcllY--lg~l~DAiK~~e~~~~~--~P~~~l~es~~  326 (366)
T KOG2796|consen  271 AHRFFTEILRMDPR-NAVANNNKALCLLY--LGKLKDALKQLEAMVQQ--DPRHYLHESVL  326 (366)
T ss_pred             HHHHHhhccccCCC-chhhhchHHHHHHH--HHHHHHHHHHHHHHhcc--CCccchhhhHH
Confidence            88888887765322 233333  455555  78899999999999765  56665555443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.50  E-value=14  Score=34.23  Aligned_cols=143  Identities=8%  Similarity=-0.010  Sum_probs=98.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHH
Q 013497           26 FLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVT  105 (442)
Q Consensus        26 ~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~  105 (442)
                      -+.++..+.-.+.+.-.+.++++..+..-+.++..-..|.+.-...|        +.+.|...|++..+..-..|..+++
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~G--------D~k~a~~yf~~vek~~~kL~~~q~~  251 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIG--------DIKTAEKYFQDVEKVTQKLDGLQGK  251 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcc--------cHHHHHHHHHHHHHHHhhhhccchh
Confidence            35566666666777788888888887666667777777777666666        8999999999887766666777777


Q ss_pred             HHHH-----HHHhcCCHHHHHHHHHHhHhhCCCCCCcccHH--HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 013497          106 SVAR-----LAASKNDGDYAFVLIKRMNNEFNVVPRLRTYD--PALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAAL  178 (442)
Q Consensus       106 ~li~-----~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~--~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~l  178 (442)
                      .++.     .|.-.+++..|...+.+.. ... ..|.+.-|  +|+..|  .|+..+|.++.+.|...  .|...+-+++
T Consensus       252 ~~V~~n~a~i~lg~nn~a~a~r~~~~i~-~~D-~~~~~a~NnKALcllY--lg~l~DAiK~~e~~~~~--~P~~~l~es~  325 (366)
T KOG2796|consen  252 IMVLMNSAFLHLGQNNFAEAHRFFTEIL-RMD-PRNAVANNNKALCLLY--LGKLKDALKQLEAMVQQ--DPRHYLHESV  325 (366)
T ss_pred             HHHHhhhhhheecccchHHHHHHHhhcc-ccC-CCchhhhchHHHHHHH--HHHHHHHHHHHHHHhcc--CCccchhhhH
Confidence            6664     3455667888888888887 432 12333333  444444  68999999999999875  4555555555


Q ss_pred             HHHH
Q 013497          179 LKVS  182 (442)
Q Consensus       179 i~~~  182 (442)
                      +-.+
T Consensus       326 ~~nL  329 (366)
T KOG2796|consen  326 LFNL  329 (366)
T ss_pred             HHHH
Confidence            4433

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=87.14  E-value=16  Score=39.52  Aligned_cols=137  Identities=8%  Similarity=0.052  Sum_probs=95.3

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 013497           34 TKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAAS  113 (442)
Q Consensus        34 ~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~  113 (442)
                      ...+++..|+.......+.  .|| ..|..++.+++...      .|+.++|..+++.....+.. |..|..++-..|-.
T Consensus        20 ld~~qfkkal~~~~kllkk--~Pn-~~~a~vLkaLsl~r------~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d   89 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKK--HPN-ALYAKVLKALSLFR------LGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRD   89 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHH--CCC-cHHHHHHHHHHHHH------hcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHH
Confidence            3467788999988886543  344 34555555443321      22788999999988776665 99999999999999


Q ss_pred             cCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 013497          114 KNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE  184 (442)
Q Consensus       114 ~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~  184 (442)
                      .++.++|..+++...   +.-|+...-..+..+|.+.+++.+-.++=-+|-. .+.-....|-++++.+..
T Consensus        90 ~~~~d~~~~~Ye~~~---~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilq  156 (932)
T KOG2053|consen   90 LGKLDEAVHLYERAN---QKYPSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQ  156 (932)
T ss_pred             HhhhhHHHHHHHHHH---hhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHH
Confidence            999999999999987   4578888888889999998887754333222221 222344555566655544

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=86.89  E-value=6.3  Score=37.04  Aligned_cols=78  Identities=13%  Similarity=0.112  Sum_probs=66.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH-----CCCCCCHHHHH
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGL-----MGLSLEQQEIA  176 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~-----~g~~p~~~ty~  176 (442)
                      .+++.++..+...|+.+.+.+.+++.. ... .-+...|..+|.+|.+.|+...|...|+.+..     .|+.|...+..
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li-~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLI-ELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHH-hcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            466788899999999999999999998 432 34778999999999999999999999998865     58999888877


Q ss_pred             HHHHH
Q 013497          177 ALLKV  181 (442)
Q Consensus       177 ~li~~  181 (442)
                      .....
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            77666

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.84  E-value=41  Score=34.77  Aligned_cols=95  Identities=12%  Similarity=0.024  Sum_probs=58.8

Q ss_pred             cHHHHHHHHHHc--CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH--------HHHhccCCCChH
Q 013497          139 TYDPALFCFCEN--LEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQ--------KLRSTVRCVNEE  208 (442)
Q Consensus       139 ty~~li~~~~~~--g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~--------~m~~~~~~p~~~  208 (442)
                      .+.+++..+.+.  ..+.+|.+++...-+..-.-..++--+++.-....|+++.|.+++.        .+.+.+  -.+.
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 LFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAK--HLPG  418 (652)
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhc--cChh
Confidence            444555444332  2366677777666544322234455566667778999999999998        444433  3455


Q ss_pred             HHHHHHHHhccccCCCcccchhhHHHHHH
Q 013497          209 TGKIIEDWFSGQKVNGVSCDLGLVKNAVL  237 (442)
Q Consensus       209 t~~~li~~~~~~~~~~~~~~~~~~~~a~~  237 (442)
                      +..+|...+  .+.++.......+.+|+.
T Consensus       419 ~V~aiv~l~--~~~~~~~~a~~vl~~Ai~  445 (652)
T KOG2376|consen  419 TVGAIVALY--YKIKDNDSASAVLDSAIK  445 (652)
T ss_pred             HHHHHHHHH--HhccCCccHHHHHHHHHH
Confidence            677777777  555555556666777765

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=86.65  E-value=29  Score=32.73  Aligned_cols=136  Identities=13%  Similarity=0.114  Sum_probs=92.8

Q ss_pred             CHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHh-cCCCCCCchhhHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHhc
Q 013497           38 DLTTAISLYESAHS-QNLRLSLHHFNALLYLCSD-SATDPSSKDSALRHGFRVFDQMLS-NNVIPNEASVTSVARLAASK  114 (442)
Q Consensus        38 ~~~~A~~lf~~m~~-~g~~p~~~ty~~ll~~~~~-~~~~~~~~~~~~~~a~~l~~~M~~-~g~~p~~~ty~~li~~~~~~  114 (442)
                      .+.+|+.+|+...- ..+--|..+-..||+.... .+-       .+..-.++.+.+.. .|..++..+..++|..+++.
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~-------~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~  215 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENT-------KLNALYEVVDFLVSTFSKSLTRNVIISILEILAES  215 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhcccc-------chhhHHHHHHHHHhccccCCChhHHHHHHHHHHhc
Confidence            35677777774322 3466677888888885444 221       23334555555543 45678888999999999999


Q ss_pred             CCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHH-----HHHCCCCCCHHHHHHHHH
Q 013497          115 NDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEH-----MGLMGLSLEQQEIAALLK  180 (442)
Q Consensus       115 g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~-----M~~~g~~p~~~ty~~li~  180 (442)
                      +++..-+++++.-....+-.-|.+.|...|..-.+.||..-+..+.++     +.+.++..+...-..|-+
T Consensus       216 ~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L~~~L~~  286 (292)
T PF13929_consen  216 RDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDELRSQLSE  286 (292)
T ss_pred             ccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHHHHHHHH
Confidence            999999999988762324566889999999999999998766666553     133455555554444333

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=86.04  E-value=8.7  Score=36.14  Aligned_cols=115  Identities=13%  Similarity=-0.040  Sum_probs=85.7

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHH
Q 013497           84 HGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEH  162 (442)
Q Consensus        84 ~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~  162 (442)
                      +...+=+.|+..|=            -+.+.+++.+|+..+.+-. .  +.| |.+-|..=-.+|++.|.++.|++=.+.
T Consensus        76 e~~~~AE~LK~eGN------------~~m~~~~Y~eAv~kY~~AI-~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~  140 (304)
T KOG0553|consen   76 EDKALAESLKNEGN------------KLMKNKDYQEAVDKYTEAI-E--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCES  140 (304)
T ss_pred             hHHHHHHHHHHHHH------------HHHHhhhHHHHHHHHHHHH-h--cCCCcchHHHHHHHHHHHhcchHHHHHHHHH
Confidence            45566666776662            3468889999999999887 4  454 567778888899999999999887666


Q ss_pred             HHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          163 MGLMGLSL-EQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       163 M~~~g~~p-~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      -...  .| -..+|..|=.+|...|++++|.+.|++-.  .+.|+-.+|..=+.+-
T Consensus       141 Al~i--Dp~yskay~RLG~A~~~~gk~~~A~~aykKaL--eldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  141 ALSI--DPHYSKAYGRLGLAYLALGKYEEAIEAYKKAL--ELDPDNESYKSNLKIA  192 (304)
T ss_pred             HHhc--ChHHHHHHHHHHHHHHccCcHHHHHHHHHhhh--ccCCCcHHHHHHHHHH
Confidence            5543  23 24578888888999999999999887654  3578888887777666

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=85.81  E-value=9.9  Score=40.72  Aligned_cols=145  Identities=15%  Similarity=0.142  Sum_probs=96.1

Q ss_pred             HHHHHHH--HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHh-CCC----
Q 013497           25 NFLINLQ--SCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLS-NNV----   97 (442)
Q Consensus        25 ~~~~li~--~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~-~g~----   97 (442)
                      |--++++  .|.-.|+.+.|.+-.+-++..      ..|..|-+.|.+..        ++|-|.-.+..|.. +|.    
T Consensus       728 TRkaml~FSfyvtiG~MD~AfksI~~IkS~------~vW~nmA~McVkT~--------RLDVAkVClGhm~~aRgaRAlR  793 (1416)
T KOG3617|consen  728 TRKAMLDFSFYVTIGSMDAAFKSIQFIKSD------SVWDNMASMCVKTR--------RLDVAKVCLGHMKNARGARALR  793 (1416)
T ss_pred             HHHhhhceeEEEEeccHHHHHHHHHHHhhh------HHHHHHHHHhhhhc--------cccHHHHhhhhhhhhhhHHHHH
Confidence            4455554  477889999998888777654      67999999999988        88888888877764 221    


Q ss_pred             ----CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH
Q 013497           98 ----IPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQ  173 (442)
Q Consensus        98 ----~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~  173 (442)
                          .|+ .+=.-+.-.....|.+++|+.++.+.+ +         |..|=..|-..|.+++|+++-+.=-.--++   .
T Consensus       794 ~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ck-R---------~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr---~  859 (1416)
T KOG3617|consen  794 RAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCK-R---------YDLLNKLYQSQGMWSEAFEIAETKDRIHLR---N  859 (1416)
T ss_pred             HHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHH-H---------HHHHHHHHHhcccHHHHHHHHhhccceehh---h
Confidence                132 222233334467899999999999988 4         445556677899999999986653322222   3


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHH
Q 013497          174 EIAALLKVSAETGRVEKVYQYLQK  197 (442)
Q Consensus       174 ty~~li~~~~~~g~~~~a~~ll~~  197 (442)
                      ||-....-+-..++.+.|++.|++
T Consensus       860 Tyy~yA~~Lear~Di~~AleyyEK  883 (1416)
T KOG3617|consen  860 TYYNYAKYLEARRDIEAALEYYEK  883 (1416)
T ss_pred             hHHHHHHHHHhhccHHHHHHHHHh
Confidence            444444444445556665555443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=85.63  E-value=51  Score=34.62  Aligned_cols=31  Identities=13%  Similarity=0.266  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHhHHHHHHhhHHHHHHHHHH
Q 013497          283 ETERFAQSVAALAMEREVKANFSEFQDWLEK  313 (442)
Q Consensus       283 d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~  313 (442)
                      |...|-+.-.+|-+.|.-.||..++++.-..
T Consensus       816 E~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  816 ENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             hhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence            5666777777888999988998888877543

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=85.49  E-value=39  Score=33.25  Aligned_cols=78  Identities=12%  Similarity=0.061  Sum_probs=53.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHhhC-CC-CCCc-ccHHHHHHHHHH---cCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013497          106 SVARLAASKNDGDYAFVLIKRMNNEF-NV-VPRL-RTYDPALFCFCE---NLEAEKAYEVEEHMGLMGLSLEQQEIAALL  179 (442)
Q Consensus       106 ~li~~~~~~g~~~~A~~~~~~m~~~~-g~-~p~~-~ty~~li~~~~~---~g~~~~A~~l~~~M~~~g~~p~~~ty~~li  179 (442)
                      .++-+|-...+++...++++.|. .. .+ .++. ..--...-++.+   .|+.++|..++..+....-.++..||..+-
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~-~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~G  224 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLE-ALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhh-ccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHH
Confidence            44446888999999999999998 42 11 1111 111122334445   899999999999977777778888888887


Q ss_pred             HHHHh
Q 013497          180 KVSAE  184 (442)
Q Consensus       180 ~~~~~  184 (442)
                      +.|..
T Consensus       225 RIyKD  229 (374)
T PF13281_consen  225 RIYKD  229 (374)
T ss_pred             HHHHH
Confidence            77643

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=84.42  E-value=14  Score=34.70  Aligned_cols=101  Identities=12%  Similarity=0.078  Sum_probs=80.4

Q ss_pred             CCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCH
Q 013497           75 PSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEA  153 (442)
Q Consensus        75 ~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~  153 (442)
                      ...+++++.+|+..|.+..+... -|.+-|.-=..+|++.|..+.|.+=-+.-.   .+.|. ..+|..|=.+|...|++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~l~P-~nAVyycNRAAAy~~Lg~~~~AVkDce~Al---~iDp~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIELDP-TNAVYYCNRAAAYSKLGEYEDAVKDCESAL---SIDPHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCC-CcchHHHHHHHHHHHhcchHHHHHHHHHHH---hcChHHHHHHHHHHHHHHccCcH
Confidence            44577899999999999877532 377888889999999999999988776655   34453 47899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013497          154 EKAYEVEEHMGLMGLSLEQQEIAALLKV  181 (442)
Q Consensus       154 ~~A~~l~~~M~~~g~~p~~~ty~~li~~  181 (442)
                      ++|.+-|..-.+  +.|+..+|..=|+.
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            999999887664  67888877654443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=84.00  E-value=21  Score=35.86  Aligned_cols=61  Identities=8%  Similarity=-0.015  Sum_probs=49.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSL----HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN   95 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~----~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~   95 (442)
                      .|+.+-.+|.+.|++++|+..|++..+.  .|+.    .+|..+-.+|...|        ++++|.+.|++..+.
T Consensus        77 a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LG--------r~dEAla~LrrALel  141 (453)
T PLN03098         77 DAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYRE--------EGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHh
Confidence            8888888999999999999999997765  4553    34666666777777        899999999988764

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=83.68  E-value=16  Score=38.02  Aligned_cols=88  Identities=14%  Similarity=0.150  Sum_probs=59.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH--------
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQ--------  173 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~--------  173 (442)
                      .+.-.+..-+-+...+..|.++|..|- .         -..+++.....+++++|+.+-+...+  +.||+.        
T Consensus       748 e~l~~~a~ylk~l~~~gLAaeIF~k~g-D---------~ksiVqlHve~~~W~eAFalAe~hPe--~~~dVy~pyaqwLA  815 (1081)
T KOG1538|consen  748 EPLLLCATYLKKLDSPGLAAEIFLKMG-D---------LKSLVQLHVETQRWDEAFALAEKHPE--FKDDVYMPYAQWLA  815 (1081)
T ss_pred             hHHHHHHHHHhhccccchHHHHHHHhc-c---------HHHHhhheeecccchHhHhhhhhCcc--ccccccchHHHHhh
Confidence            344444444555666777888887776 2         23567777888999999988777654  344432        


Q ss_pred             ---HHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          174 ---EIAALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       174 ---ty~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                         -|..-=.+|-++|+..+|.++++++-..
T Consensus       816 E~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  816 ENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             hhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence               2444456788899999999999888654

>PLN02789 farnesyltranstransferase

Probab=81.59  E-value=52  Score=31.73  Aligned_cols=140  Identities=7%  Similarity=0.019  Sum_probs=73.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH---HHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLY---LCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNE  101 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~---~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~  101 (442)
                      ++..+-..+.+.+..++|+.+.+++.+..  |  ..|++-..   ++...+       ..++++++.++.+.+...+ +.
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~ln--P--~~ytaW~~R~~iL~~L~-------~~l~eeL~~~~~~i~~npk-ny  106 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLN--P--GNYTVWHFRRLCLEALD-------ADLEEELDFAEDVAEDNPK-NY  106 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHC--c--hhHHHHHHHHHHHHHcc-------hhHHHHHHHHHHHHHHCCc-ch
Confidence            56666666677777777777777766432  2  22222211   111111       0356677777776655433 33


Q ss_pred             HHHHHHHHHHHhcCCH--HHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013497          102 ASVTSVARLAASKNDG--DYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALL  179 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~--~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li  179 (442)
                      .+|+----.+-+.|+.  ++++.+++.+. +.. .-|..+|+.---.+.+.|++++|++.++.+.+.+.. +...|+-..
T Consensus       107 qaW~~R~~~l~~l~~~~~~~el~~~~kal-~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~  183 (320)
T PLN02789        107 QIWHHRRWLAEKLGPDAANKELEFTRKIL-SLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRY  183 (320)
T ss_pred             HHhHHHHHHHHHcCchhhHHHHHHHHHHH-HhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHH
Confidence            3455333333444442  45666666665 321 124455666556666666677777777777665543 334444433

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.42  E-value=45  Score=30.86  Aligned_cols=167  Identities=9%  Similarity=0.039  Sum_probs=116.8

Q ss_pred             CCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHhcCCCCCCchhhHHHHHHHHHHHHhCC
Q 013497           20 PNPET--NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLY-LCSDSATDPSSKDSALRHGFRVFDQMLSNN   96 (442)
Q Consensus        20 ~~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~-~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g   96 (442)
                      ..|+.  .|--++-+..-.|+.+-|...++.+.+.=  |...-...|=. .+...+        +.++|.++|+...+..
T Consensus        47 ~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f--p~S~RV~~lkam~lEa~~--------~~~~A~e~y~~lL~dd  116 (289)
T KOG3060|consen   47 LGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF--PGSKRVGKLKAMLLEATG--------NYKEAIEYYESLLEDD  116 (289)
T ss_pred             cCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC--CCChhHHHHHHHHHHHhh--------chhhHHHHHHHHhccC
Confidence            44555  66666666777788889999999887652  44332222222 233344        7999999999998877


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-HHH
Q 013497           97 VIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQ-QEI  175 (442)
Q Consensus        97 ~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~-~ty  175 (442)
                       +-|.++|--=|...-..|+.-+|++-+.+.. + .+.-|...|.-|-..|...|++++|.--+++|.-.  .|.. ..+
T Consensus       117 -pt~~v~~KRKlAilka~GK~l~aIk~ln~YL-~-~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~--~P~n~l~f  191 (289)
T KOG3060|consen  117 -PTDTVIRKRKLAILKAQGKNLEAIKELNEYL-D-KFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLI--QPFNPLYF  191 (289)
T ss_pred             -cchhHHHHHHHHHHHHcCCcHHHHHHHHHHH-H-HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHc--CCCcHHHH
Confidence             5688888877777777777778887777766 3 35779999999999999999999999999999865  3433 334


Q ss_pred             HHHHHHHHh---cCCHHHHHHHHHHHHhc
Q 013497          176 AALLKVSAE---TGRVEKVYQYLQKLRST  201 (442)
Q Consensus       176 ~~li~~~~~---~g~~~~a~~ll~~m~~~  201 (442)
                      ..+-+.+--   ..+.+-+.+++.+-.+.
T Consensus       192 ~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  192 QRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            444444332   33566677777665543

>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=80.94  E-value=30  Score=30.20  Aligned_cols=48  Identities=13%  Similarity=-0.015  Sum_probs=30.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcC
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSL--HHFNALLYLCSDSA   72 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~--~ty~~ll~~~~~~~   72 (442)
                      .+..+-+-|++.|+.+.|++.|.++++....|..  ..+-.+|..+...+
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~   87 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFG   87 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhC
Confidence            6777777888888888888888887766543332  22333444444444

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.

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=80.85  E-value=40  Score=31.80  Aligned_cols=109  Identities=11%  Similarity=0.009  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh-CCCCCCHHHHHHHHH--HHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHS-QNLRLSLHHFNALLY--LCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNE  101 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~-~g~~p~~~ty~~ll~--~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~  101 (442)
                      .|-.|=..|.+.|+.+.|..-|.+..+ .|-  |...+..+-.  .++.++.       .-.++.++|+++..... -|+
T Consensus       158 gW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~--n~~~~~g~aeaL~~~a~~~-------~ta~a~~ll~~al~~D~-~~i  227 (287)
T COG4235         158 GWDLLGRAYMALGRASDALLAYRNALRLAGD--NPEILLGLAEALYYQAGQQ-------MTAKARALLRQALALDP-ANI  227 (287)
T ss_pred             hHHHHHHHHHHhcchhHHHHHHHHHHHhCCC--CHHHHHHHHHHHHHhcCCc-------ccHHHHHHHHHHHhcCC-ccH
Confidence            677777777777777777777776543 232  2333333322  1222221       34456677777655432 244


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHH
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFC  146 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~  146 (442)
                      .+-.-|-..+...|++.+|...++.|. +.  .|....+..+|..
T Consensus       228 ral~lLA~~afe~g~~~~A~~~Wq~lL-~~--lp~~~~rr~~ie~  269 (287)
T COG4235         228 RALSLLAFAAFEQGDYAEAAAAWQMLL-DL--LPADDPRRSLIER  269 (287)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHH-hc--CCCCCchHHHHHH
Confidence            444555566667777777777777776 32  4444555555543

>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=80.56  E-value=18  Score=31.53  Aligned_cols=96  Identities=8%  Similarity=-0.055  Sum_probs=67.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc--ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHH-----
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL--RTYDPALFCFCENLEAEKAYEVEEHMGLMGLSL-EQQ-----  173 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~--~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p-~~~-----  173 (442)
                      ..+..+..-|++.|+.++|++.|.++. .....|..  -.+-.+|....-.+++..+..........--.+ |..     
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~-~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrl  115 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRAR-DYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRL  115 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHh-hhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHH
Confidence            567888999999999999999999998 66555443  456677888888999998888777665432121 222     


Q ss_pred             -HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          174 -EIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       174 -ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                       .|..|.  +...+++.+|-+.|-+...
T Consensus       116 k~~~gL~--~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  116 KVYEGLA--NLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHH--HHHhchHHHHHHHHHccCc
Confidence             222222  2337889999888876643

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.

>PLN02789 farnesyltranstransferase

Probab=80.50  E-value=57  Score=31.47  Aligned_cols=118  Identities=11%  Similarity=-0.007  Sum_probs=82.2

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCC--HHHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKN-DGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLE--AEKAY  157 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g-~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~--~~~A~  157 (442)
                      ..++|+.++++..+.... +..+|+.--..+.+.| .+++++..++++. ... .-+..+|+.---.+-+.|+  .+++.
T Consensus        52 ~serAL~lt~~aI~lnP~-~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i-~~n-pknyqaW~~R~~~l~~l~~~~~~~el  128 (320)
T PLN02789         52 RSPRALDLTADVIRLNPG-NYTVWHFRRLCLEALDADLEEELDFAEDVA-EDN-PKNYQIWHHRRWLAEKLGPDAANKEL  128 (320)
T ss_pred             CCHHHHHHHHHHHHHCch-hHHHHHHHHHHHHHcchhHHHHHHHHHHHH-HHC-CcchHHhHHHHHHHHHcCchhhHHHH
Confidence            567788888887654322 3345554444555666 6799999999988 432 2233456655444555665  36788


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 013497          158 EVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTV  202 (442)
Q Consensus       158 ~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~  202 (442)
                      ++++.+.+..-. +..+|+-.--.+.+.|+++++.+.+.++.+..
T Consensus       129 ~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d  172 (320)
T PLN02789        129 EFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEED  172 (320)
T ss_pred             HHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC
Confidence            889888876543 67888888888888899999999999998764

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.47  E-value=26  Score=32.24  Aligned_cols=114  Identities=11%  Similarity=0.114  Sum_probs=69.0

Q ss_pred             hHHHHHHHHHHHHh---CC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHh---hCCCCCCc-ccHHHHHHHHHHcC
Q 013497           81 ALRHGFRVFDQMLS---NN--VIPNEASVTSVARLAASKNDGDYAFVLIKRMNN---EFNVVPRL-RTYDPALFCFCENL  151 (442)
Q Consensus        81 ~~~~a~~l~~~M~~---~g--~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~---~~g~~p~~-~ty~~li~~~~~~g  151 (442)
                      ++++|+++|.+-..   .+  -..-.-.|..+-+++++...+++|-..|..-..   ...-.|+. ..|-..|-.|.-..
T Consensus       125 ~Pd~AlqlYqralavve~~dr~~ma~el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~  204 (308)
T KOG1585|consen  125 KPDDALQLYQRALAVVEEDDRDQMAFELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAH  204 (308)
T ss_pred             CHHHHHHHHHHHHHHHhccchHHHHHHHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHH
Confidence            46666666655332   11  111233455666777888888877666654320   00001221 33556666677778


Q ss_pred             CHHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 013497          152 EAEKAYEVEEHMGLM---GLSLEQQEIAALLKVSAETGRVEKVYQYL  195 (442)
Q Consensus       152 ~~~~A~~l~~~M~~~---g~~p~~~ty~~li~~~~~~g~~~~a~~ll  195 (442)
                      |+..|...++.-.+.   .-.-+..+...||.+| ..|+.+++..++
T Consensus       205 Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  205 DYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHH
Confidence            899999999885433   2233667888999998 788888877766

>PF14626 RNase_Zc3h12a_2: Zc3h12a-like Ribonuclease NYN domain

Probab=80.22  E-value=7.3  Score=31.14  Aligned_cols=84  Identities=14%  Similarity=0.148  Sum_probs=59.6

Q ss_pred             ChhhHHHHHHHHHHhcCCCccEEEccCccccC----CCCChhhHHHHHHHHhcCeEEeCCCCCCccHH--HHHHHHhcCc
Q 013497          339 SVPQLDAVVKKLYERSGNKWPLVILHNKRLRS----LWENPSHRNLVEEWNEKGVLYMTPHGSNDDWY--WLYAAVKLRC  412 (442)
Q Consensus       339 ~~~~~~~vv~~l~~~~~~~~~l~~l~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~DD~~--~l~aa~~~~~  412 (442)
                      ..+.+-+++=+|.=+  |+++++.||.-....    ....-.+...++.|.+.+.+=|......-+|+  .+..|-++++
T Consensus         8 pVk~L~eIll~Filr--GHKT~vyLP~yY~~~~~~~~~~kvDd~~~F~~L~~l~lIkFi~~~~~~~~~~eV~~~Aek~~G   85 (122)
T PF14626_consen    8 PVKALVEILLHFILR--GHKTVVYLPKYYKNYVDDGGISKVDDLEAFQFLCDLDLIKFIEKRNRKKWFNEVLDEAEKTHG   85 (122)
T ss_pred             cHHHHHHHHHHHHhc--cCeeEEEChHHHhcccccccccccchHHHHHHHHhcCceeeeccccHHHHHHHHHHHHHHcCc
Confidence            455566666666667  679999998665432    11123456778999999999777777666664  5667777899


Q ss_pred             EEEecCccccch
Q 013497          413 LLVTNDEMRDHI  424 (442)
Q Consensus       413 ~~vsnD~~rdh~  424 (442)
                      ++|||.++|--.
T Consensus        86 I~VSs~E~~~~~   97 (122)
T PF14626_consen   86 IFVSSSEYRRRN   97 (122)
T ss_pred             EEECCHHHhccc
Confidence            999999987543

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	442
4g24_A	501	Crystal Structure Of Proteinaceous Rnase P 1 (Prorp		1e-104
4g23_A	501	Crystal Structure Of Proteinaceous Rnase P 1 (Prorp		3e-99

>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From A. Thaliana With Mn Length = 501

Iteration: 1
 Score =  373 bits (958), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 195/420 (46%), Positives = 275/420 (65%), Gaps = 13/420 (3%)
Query: 30  LQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCS--DSATDPSSKDSALRHGFR 87
           L  C+K  D+  A+ LY+ A    ++LS +H+N LLY+CS  ++AT+ SS +  L  GF 
Sbjct: 33  LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATE-SSPNPGLSRGFD 91
Query: 88  VFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCF 147
           +F QM+ + V+PNEA+ T+ ARLA +K+D + AF ++K+M   F + PRLR+Y PALF F
Sbjct: 92  IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMK-AFGIQPRLRSYGPALFGF 150
Query: 148 CENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNE 207
           C   +A+KAYEV+ HM    +  E+ E+AALLKVS +T   +KVY+ LQ+LR  VR V++
Sbjct: 151 CRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSK 210
Query: 208 ETGKIIEDWFSGQ---KVNGVSCDLGLVKNAVLKNXXXXXXXXXXXXXKWVVKRGSVDES 264
            T  +IE+WF  +   K      D+  +++AV+               KW VKR  +DE+
Sbjct: 211 STFDMIEEWFKSEVATKTGVKKWDVKKIRDAVVSGGGGWHGQGWLGTGKWNVKRTEMDEN 270
Query: 265 GKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGA 324
           G C  C ++L C+DI+  ETE FA S+  LA EREVKANF++FQ+WLE++  ++A++DGA
Sbjct: 271 GVCKCCKEKLVCIDINPVETETFAASLTRLACEREVKANFNQFQEWLERHGPFDAVIDGA 330
Query: 325 NIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNK-WPLVILHNKRLRSLWEN-PSHRNLVE 382
           N+GL  Q      FS  QL+  V++  + S +K  PLVILH  R+       P +R L+E
Sbjct: 331 NMGLVNQR----SFSFFQLNNTVQRCQQISPSKRLPLVILHKSRVNGGPATYPKNRALLE 386
Query: 383 EWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKWKERHQT 442
           +W   G LY TP GSNDDWYWLYAAV  +CLLVTNDEMRDH+F+LLG++FF +WKE+HQ 
Sbjct: 387 KWKNAGALYATPPGSNDDWYWLYAAVSCKCLLVTNDEMRDHLFQLLGNSFFPRWKEKHQV 446

>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From A. Thaliana With Mn Length = 501

Iteration: 1
 Score =  358 bits (920), Expect = 3e-99,   Method: Compositional matrix adjust.
 Identities = 191/419 (45%), Positives = 267/419 (63%), Gaps = 13/419 (3%)
Query: 30  LQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCS--DSATDPSSKDSALRHGFR 87
           L  C+K  D+  A+ LY+ A    ++LS +H+N LLY+CS  ++AT+ SS +  L  GF 
Sbjct: 33  LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATE-SSPNPGLSRGFD 91
Query: 88  VFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCF 147
           +F Q + + V+PNEA+ T+ ARLA +K+D + AF  +K+    F + PRLR+Y PALF F
Sbjct: 92  IFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXK-AFGIQPRLRSYGPALFGF 150
Query: 148 CENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNE 207
           C   +A+KAYEV+ H     +  E+ E+AALLKVS +T   +KVY+ LQ+LR  VR V++
Sbjct: 151 CRKGDADKAYEVDAHXVESEVVPEEPELAALLKVSXDTKNADKVYKTLQRLRDLVRQVSK 210
Query: 208 ETGKIIEDWFSGQ---KVNGVSCDLGLVKNAVLKNXXXXXXXXXXXXXKWVVKRGSVDES 264
            T   IE+WF  +   K      D+  +++AV+               KW VKR   DE+
Sbjct: 211 STFDXIEEWFKSEVATKTGVKKWDVKKIRDAVVSGGGGWHGQGWLGTGKWNVKRTEXDEN 270
Query: 265 GKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGA 324
           G C  C ++L C+DI+  ETE FA S+  LA EREVKANF++FQ+WLE++  ++A++DGA
Sbjct: 271 GVCKCCKEKLVCIDINPVETETFAASLTRLACEREVKANFNQFQEWLERHGPFDAVIDGA 330
Query: 325 NIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNK-WPLVILHNKRLRSLWEN-PSHRNLVE 382
           N GL  Q      FS  QL+  V++  + S +K  PLVILH  R+       P +R L+E
Sbjct: 331 NXGLVNQR----SFSFFQLNNTVQRCQQISPSKRLPLVILHKSRVNGGPATYPKNRALLE 386
Query: 383 EWNEKGVLYMTPHGSNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKWKERHQ 441
           +W   G LY TP GSNDDWYWLYAAV  +CLLVTNDE RDH+F+LLG++FF +WKE+HQ
Sbjct: 387 KWKNAGALYATPPGSNDDWYWLYAAVSCKCLLVTNDEXRDHLFQLLGNSFFPRWKEKHQ 445

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	442
3v32_B	185	Ribonuclease ZC3H12A; rossmann-like sandwich fold,	2e-23
3v33_A	223	Ribonuclease ZC3H12A; rossmann-like sandwich fold,	4e-21
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04

>3v32_B Ribonuclease ZC3H12A; rossmann-like sandwich fold, RNAse, cytoplastic, hydrolase; 2.00A {Homo sapiens} PDB: 3v34_A Length = 185

 Score = 95.9 bits (238), Expect = 2e-23
 Identities = 25/131 (19%), Positives = 53/131 (40%), Gaps = 14/131 (10%)

Query: 320 IVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNKRLRSLWENP-SHR 378
           ++DG+N+ +   N     FS   +   V    ER      + +   ++ +   + P + +
Sbjct: 28  VIDGSNVAMSHGNKEV--FSCRGILLAVNWFLERGHTDITVFVPSWRKEQPRPDVPITDQ 85

Query: 379 NLVEEWNEKGVLYMTPHG--------SNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGS 430
           +++ E  +K +L  TP            DD + +  A +   ++V+ND  RD   E    
Sbjct: 86  HILRELEKKKILVFTPSRRVGGKRVVCYDDRFIVKLAYESDGIVVSNDTYRDLQGE---R 142

Query: 431 NFFLKWKERHQ 441
             + ++ E   
Sbjct: 143 QEWKRFIEERL 153

>3v33_A Ribonuclease ZC3H12A; rossmann-like sandwich fold, RNAse, cytoplastic, hydrolase; 2.00A {Homo sapiens} Length = 223

 Score = 90.6 bits (224), Expect = 4e-21
 Identities = 25/131 (19%), Positives = 53/131 (40%), Gaps = 14/131 (10%)

Query: 320 IVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNKRLRSLWENP-SHR 378
           ++DG+N+ +   N     FS   +   V    ER      + +   ++ +   + P + +
Sbjct: 28  VIDGSNVAMSHGNKEV--FSCRGILLAVNWFLERGHTDITVFVPSWRKEQPRPDVPITDQ 85

Query: 379 NLVEEWNEKGVLYMTPHG--------SNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGS 430
           +++ E  +K +L  TP            DD + +  A +   ++V+ND  RD   E    
Sbjct: 86  HILRELEKKKILVFTPSRRVGGKRVVCYDDRFIVKLAYESDGIVVSNDTYRDLQGE---R 142

Query: 431 NFFLKWKERHQ 441
             + ++ E   
Sbjct: 143 QEWKRFIEERL 153

>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 = 47.2 bits (111), Expect = 8e-06
 Identities = 36/178 (20%), Positives = 64/178 (35%), Gaps = 35/178 (19%)

Query: 281 DAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAI-VDGANI--GLYQQNFTEGG 337
           D  T     S+  L    E +  F              ++    A+I   L    + +  
Sbjct: 353 DKLTTIIESSLNVLE-PAEYRKMFDRL-----------SVFPPSAHIPTILLSLIWFDVI 400

Query: 338 FSVPQLDAVVKKLYERS-GNKWP---LVILHNKRLRSLWENPS----HRNLVEEWN-EKG 388
            S   +  VV KL++ S   K P    + + +  L    +  +    HR++V+ +N  K 
Sbjct: 401 KSDVMV--VVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKT 458

Query: 389 VLYMTPHGSNDDWYWL-YAAVKLRCLLVTNDEM--RDHIFELLGSNF-FLKWKERHQT 442
                      D Y+  +    L+     N E   R  +F ++  +F FL+ K RH +
Sbjct: 459 FDSDDLIPPYLDQYFYSHIGHHLK-----NIEHPERMTLFRMVFLDFRFLEQKIRHDS 511

>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 = 42.5 bits (99), Expect = 3e-04
 Identities = 60/380 (15%), Positives = 100/380 (26%), Gaps = 163/380 (42%)

Query: 86  FRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALF 145
            R+F  +LS      E     V +        +Y F L+  +  E           P++ 
Sbjct: 65  LRLFWTLLSK---QEEM----VQKFVEEVLRINYKF-LMSPIKTEQR--------QPSM- 107

Query: 146 CFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQ---YLQKLRSTV 202
                    + Y +E+   L   +    ++ A   VS    R++   +    L +LR   
Sbjct: 108 -------MTRMY-IEQRDRLYNDN----QVFAKYNVS----RLQPYLKLRQALLELRPA- 150

Query: 203 RCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVD 262
                                         KN ++       G+   G GK         
Sbjct: 151 ------------------------------KNVLI------DGVL--GSGKTW------- 165

Query: 263 ESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVD 322
                      +A       +          L+ + + K +F  F  WL    N  +   
Sbjct: 166 -----------VA------LD--------VCLSYKVQCKMDFKIF--WL-NLKNCNSPET 197

Query: 323 GANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNK-RLRSLWENPSHRN-L 380
              +    Q          Q+D       + S N   L I   +  LR L ++  + N L
Sbjct: 198 ---VLEMLQKLLY------QIDPNWTSRSDHSSNI-KLRIHSIQAELRRLLKSKPYENCL 247

Query: 381 VEEWNEKGVLYMTPHGSNDD-WY-WLYAAVKLRC--LLVTND---------EMRDHIF-- 425
           +       VL         +      + A  L C  LL T               HI   
Sbjct: 248 L-------VL--------LNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLD 292

Query: 426 ---------ELLGSNFFLKW 436
                    E+      LK+
Sbjct: 293 HHSMTLTPDEVKS--LLLKY 310

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	442
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.98
3v33_A	223	Ribonuclease ZC3H12A; rossmann-like sandwich fold,	99.86
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.86
3v32_B	185	Ribonuclease ZC3H12A; rossmann-like sandwich fold,	99.85
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.85
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.73
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.71
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.36
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.32
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.31
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.26
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.21
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.14
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.13
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.12
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.11
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.06
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.06
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.03
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.03
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.0
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	98.98
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	98.98
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.97
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.96
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	98.96
2gw1_A	514	Mitochondrial precursor proteins import receptor;	98.94
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	98.94
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	98.93
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	98.92
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	98.92
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.91
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.89
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.88
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	98.87
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.85
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	98.83
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	98.81
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.76
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	98.71
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.71
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.71
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	98.68
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.68
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.65
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	98.64
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.64
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	98.63
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	98.62
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.59
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.58
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.56
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	98.56
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.55
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	98.51
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	98.41
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.39
3u4t_A	272	TPR repeat-containing protein; structural genomics	98.38
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	98.34
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	98.32
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.27
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	98.22
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	98.2
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.2
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.19
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.18
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.18
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.12
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.12
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.11
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	98.1
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.09
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	98.07
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.07
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	98.06
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	98.0
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	97.99
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	97.98
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	97.98
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	97.97
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	97.96
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	97.96
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	97.94
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	97.92
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	97.92
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	97.88
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	97.88
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	97.86
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	97.85
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.83
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	97.83
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	97.81
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	97.81
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	97.78
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	97.78
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	97.74
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	97.72
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	97.7
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	97.69
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	97.66
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	97.64
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	97.62
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	97.61
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	97.56
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.56
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	97.55
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.55
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	97.53
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	97.52
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	97.52
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	97.47
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	97.46
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	97.45
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	97.44
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.44
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.38
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.34
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.34
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	97.33
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.31
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.3
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	97.28
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	97.28
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	97.27
4g1t_A	472	Interferon-induced protein with tetratricopeptide	97.27
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.26
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	97.26
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.26
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	97.24
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	97.23
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	97.22
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	97.17
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.16
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.15
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	97.15
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	97.15
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.12
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	97.12
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.12
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	97.11
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	97.11
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.1
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.08
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	97.07
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.06
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.06
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.05
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.0
4g1t_A	472	Interferon-induced protein with tetratricopeptide	96.99
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	96.96
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	96.95
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	96.93
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	96.92
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	96.91
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	96.89
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	96.89
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	96.88
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	96.86
3k9i_A	117	BH0479 protein; putative protein binding protein,	96.86
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	96.77
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	96.75
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	96.74
3k9i_A	117	BH0479 protein; putative protein binding protein,	96.74
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	96.7
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	96.7
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	96.62
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	96.58
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	96.58
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	96.55
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	96.46
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	96.44
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	96.42
1klx_A	138	Cysteine rich protein B; structural genomics, heli	96.42
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	96.42
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	96.39
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	96.27
1klx_A	138	Cysteine rich protein B; structural genomics, heli	96.18
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	96.17
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	95.91
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	95.88
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	95.7
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	95.61
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	95.59
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	95.42
2kat_A	115	Uncharacterized protein; NESG, structure, structur	95.26
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	95.23
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	95.2
2l6j_A	111	TPR repeat-containing protein associated with HSP;	95.13
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	95.05
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	95.05
2kat_A	115	Uncharacterized protein; NESG, structure, structur	94.96
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	94.75
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	94.63
2l6j_A	111	TPR repeat-containing protein associated with HSP;	94.57
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	94.21
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	93.92
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	93.83
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	93.81
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	93.79
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	93.45
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	93.29
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	92.97
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	92.88
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	92.86
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	92.84
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	92.26
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	92.23
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	92.14
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	91.95
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	91.75
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	90.86
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	90.58
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	90.38
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	90.28
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	90.23
1pc2_A	152	Mitochondria fission protein; unknown function; NM	90.11
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	88.95
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	87.5
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	87.12
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	86.65
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	86.19
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	85.92
1pc2_A	152	Mitochondria fission protein; unknown function; NM	84.0
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	83.51
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	81.79
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	81.09

>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=3.7e-95  Score=741.37  Aligned_cols=435  Identities=48%  Similarity=0.869  Sum_probs=399.4

Q ss_pred             CCCCCCCCCccccccCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CCCCCchhh
Q 013497            3 NTTSTNPSKPNKKRKTNPNPETNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSA-TDPSSKDSA   81 (442)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~p~~~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~-~~~~~~~~~   81 (442)
                      +++..++.++.+++.....|+..++.+|++|||.|++++|+++|++|++.|++||.+|||+||++|++.+ .....+.+.
T Consensus         6 ~s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~   85 (501)
T 4g26_A            6 ASPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPG   85 (501)
T ss_dssp             ------------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHH
T ss_pred             cchHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcch
Confidence            3455677777777777888888999999999999999999999999999999999999999999998876 345567789


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHH
Q 013497           82 LRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEE  161 (442)
Q Consensus        82 ~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~  161 (442)
                      +++|.++|++|.+.|+.||++|||+||++|++.|++++|.++|++|. ..|+.||.+|||+||.+||+.|++++|.++|+
T Consensus        86 l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~-~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~  164 (501)
T 4g26_A           86 LSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMK-AFGIQPRLRSYGPALFGFCRKGDADKAYEVDA  164 (501)
T ss_dssp             HHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH-HTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-HcCCCCccceehHHHHHHHHCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999 99999999999999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhcc---ccCCCcccchhhHHHHHHh
Q 013497          162 HMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSG---QKVNGVSCDLGLVKNAVLK  238 (442)
Q Consensus       162 ~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~---~~~~~~~~~~~~~~~a~~~  238 (442)
                      +|.+.|+.||..||++||++|++.|+.++|.++|++|++.++.|+..||++|+.||++   ...+...|+...+.+++..
T Consensus       165 ~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~a~~~g~~~~d~~~~~~~~~~  244 (501)
T 4g26_A          165 HMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEVATKTGVKKWDVKKIRDAVVS  244 (501)
T ss_dssp             HHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHHHHTCCBSCCCHHHHHHHHHH
T ss_pred             HHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCcchhhhhhhhhhhhhhhhHhc
Confidence            9999999999999999999999999999999999999999999999999999999976   4456778999999999999


Q ss_pred             cCCcccCCccccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcCCcc
Q 013497          239 NGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYE  318 (442)
Q Consensus       239 ~~~~~~~~~~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~~~d  318 (442)
                      .|++|||.+|.+.+.|.+..+.|...|.|++|+.+|+.++++++|+..|...|.+++..++..+.++.|++|+++++|||
T Consensus       245 ~g~~~~~~~~~~~~~w~v~~t~v~~~G~C~~c~~~L~~i~l~~~e~~~l~~~i~~~~~~~~~~~~~~~F~~~l~~~~p~d  324 (501)
T 4g26_A          245 GGGGWHGQGWLGTGKWNVKRTEMDENGVCKCCKEKLVCIDINPVETETFAASLTRLACEREVKANFNQFQEWLERHGPFD  324 (501)
T ss_dssp             HTSSCCCSCCCBCSCEEEEEECBCTTSBBTTTCCBCCCCCCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHTSCCCS
T ss_pred             cCcccccccccccCceeEEeeecccCCCccchhhhhccccCCHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhcCCch
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eEEeccchhccccccCCCCcChhhHHHHHHHHHHhcC-CCccEEEccCccccC-CCCChhhHHHHHHHHhcCeEEeCCCC
Q 013497          319 AIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSG-NKWPLVILHNKRLRS-LWENPSHRNLVEEWNEKGVLYMTPHG  396 (442)
Q Consensus       319 ~vIdg~Nv~~~~~~~~~~~~~~~~~~~vv~~l~~~~~-~~~~l~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  396 (442)
                      +||||+||||++++    .|++.+++.|++.+.+..+ +++||||||++|+.+ +...+++++++++|++++.+|+||++
T Consensus       325 ~vIDG~NV~~~~~~----~~~~~~l~~~~~~~~~~~~~~~~~lv~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~~  400 (501)
T 4g26_A          325 AVIDGANMGLVNQR----SFSFFQLNNTVQRCQQISPSKRLPLVILHKSRVNGGPATYPKNRALLEKWKNAGALYATPPG  400 (501)
T ss_dssp             EEEEHHHHHHTTCS----SCCHHHHHHHHHHHHHHSTTCCCCEEEEEHHHHTSGGGSSHHHHHHHHHHHHTTCEEEECTT
T ss_pred             hhhccchhhccccc----cccHHHHHHHHHHHHHHhhccCCcEEEeehhhhcccccCCHHHHHHHHHHHhcCeEEeCCCC
Confidence            99999999999988    6789999999999998655 788999999999876 56667899999999999999999999


Q ss_pred             CCccHHHHHHHHhcCcEEEecCccccchhhccccchhhhhhhhcCC
Q 013497          397 SNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKWKERHQT  442 (442)
Q Consensus       397 ~~DD~~~l~aa~~~~~~~vsnD~~rdh~~~~~~~~~f~~W~~~hq~  442 (442)
                      |+|||||||||++++|+|||||+||||+|+|+++++|+|||++|||
T Consensus       401 s~DD~~~lyAal~~~~~~vsnD~mRdH~f~l~~~~~F~rW~~~hq~  446 (501)
T 4g26_A          401 SNDDWYWLYAAVSCKCLLVTNDEMRDHLFQLLGNSFFPRWKEKHQV  446 (501)
T ss_dssp             CCHHHHHHHHHHHHTCEEECCCCCCSGGGGGGTTTHHHHHHHHHEE
T ss_pred             CCchHHHHHHHHccCCEEEeccccccchhccCCcHHHHHHHhcCeE
Confidence            9999999999999999999999999999999999999999999996

>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=99.98  E-value=8.1e-32  Score=274.34  Aligned_cols=224  Identities=13%  Similarity=0.103  Sum_probs=186.0

Q ss_pred             HHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC--
Q 013497           40 TTAISLYESAHSQNLRLSL-HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKND--  116 (442)
Q Consensus        40 ~~A~~lf~~m~~~g~~p~~-~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~--  116 (442)
                      ..+..+.+++++.++.+.+ ..++.+|.+|++.|        ++++|+++|++|.+.|+.||++|||+||.+|++.+.  
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G--------~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~   78 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKG--------DVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAAT   78 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSC--------CHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCS
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCC--------CHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchh
Confidence            4566777888888876654 46899999999998        999999999999999999999999999999998765  


Q ss_pred             -------HHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 013497          117 -------GDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVE  189 (442)
Q Consensus       117 -------~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~  189 (442)
                             +++|.++|++|. ..|+.||.+|||+||.+|++.|++++|.++|++|.+.|+.||..|||+||.+|++.|+++
T Consensus        79 ~~~~~~~l~~A~~lf~~M~-~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~  157 (501)
T 4g26_A           79 ESSPNPGLSRGFDIFKQMI-VDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDAD  157 (501)
T ss_dssp             SSSCCHHHHHHHHHHHHHH-HTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHH
T ss_pred             hhhhcchHHHHHHHHHHHH-HhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHH
Confidence                   688999999999 999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCccccccceEEeeeccCCCCCCCc
Q 013497          190 KVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCS  269 (442)
Q Consensus       190 ~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~~~~~~~g~c~~  269 (442)
                      +|.++|++|.+.|+.||..||++||.+|  ++.       +.+++|...+.                   .|...|.+| 
T Consensus       158 ~A~~l~~~M~~~G~~Pd~~ty~~Li~~~--~~~-------g~~d~A~~ll~-------------------~Mr~~g~~p-  208 (501)
T 4g26_A          158 KAYEVDAHMVESEVVPEEPELAALLKVS--MDT-------KNADKVYKTLQ-------------------RLRDLVRQV-  208 (501)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHH--HHT-------TCHHHHHHHHH-------------------HHHHHTSSB-
T ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHH--hhC-------CCHHHHHHHHH-------------------HHHHhCCCc-
Confidence            9999999999999999999999999999  877       66777777654                   788889999 


Q ss_pred             CCCcccccCCCHHHHHHHHHHHHHHhHHHHHH------hhHHHHHHHHHHc
Q 013497          270 CGDQLACVDIDDAETERFAQSVAALAMEREVK------ANFSEFQDWLEKN  314 (442)
Q Consensus       270 c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~------~a~~~F~~m~~~~  314 (442)
                                   +..||+.++..++..+...      ++..+-..+...+
T Consensus       209 -------------s~~T~~~l~~~F~s~~a~~~g~~~~d~~~~~~~~~~~g  246 (501)
T 4g26_A          209 -------------SKSTFDMIEEWFKSEVATKTGVKKWDVKKIRDAVVSGG  246 (501)
T ss_dssp             -------------CHHHHHHHHHHHHSHHHHTCCBSCCCHHHHHHHHHHHT
T ss_pred             -------------CHHHHHHHHHHHhcCcchhhhhhhhhhhhhhhhHhccC
Confidence                         8999999999998876544      3344444455443

>3v33_A Ribonuclease ZC3H12A; rossmann-like sandwich fold, RNAse, cytoplastic, hydrolase; 2.00A {Homo sapiens}

Probab=99.86  E-value=1.4e-22  Score=177.56  Aligned_cols=120  Identities=22%  Similarity=0.253  Sum_probs=101.2

Q ss_pred             CcceEEeccchhccccccCCCCcChhhHHHHHHHHHHhcCCCc-cEEEccCccccC--CCCChhhHHHHHHHHhcCeEEe
Q 013497          316 NYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKW-PLVILHNKRLRS--LWENPSHRNLVEEWNEKGVLYM  392 (442)
Q Consensus       316 ~~d~vIdg~Nv~~~~~~~~~~~~~~~~~~~vv~~l~~~~~~~~-~l~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~  392 (442)
                      .--+||||+|||++.++  ...|++.+|..+|++|.++  |.. ++|+++..+...  +..+..++++|++|.+++.+++
T Consensus        24 lR~IVIDGsNVA~~~g~--~~~Fs~rgI~~aV~yF~~R--Gh~~V~VfvP~~r~~~~~~~~~~~d~~~L~~L~k~g~L~~   99 (223)
T 3v33_A           24 LRPVVIDGSNVAMSHGN--KEVFSCRGILLAVNWFLER--GHTDITVFVPSWRKEQPRPDVPITDQHILRELEKKKILVF   99 (223)
T ss_dssp             BCCEEEEHHHHHHHSSS--TTSEEHHHHHHHHHHHHTT--TCCCEEEEEEGGGGSCCCTTSCEESTHHHHHHHHTTCEEE
T ss_pred             CCeEEEeCHHHHhhhCC--CCCcCHHHHHHHHHHHHHc--CCCceEEEechhhhccccccCCCCcHHHHHHHHHCCCEEE
Confidence            45689999999999877  3578999999999999999  445 556677665542  3444567899999999999999


Q ss_pred             CCCC--------CCccHHHHHHHHhcCcEEEecCccccchhhccccchhhhhhhhcCC
Q 013497          393 TPHG--------SNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKWKERHQT  442 (442)
Q Consensus       393 ~~~~--------~~DD~~~l~aa~~~~~~~vsnD~~rdh~~~~~~~~~f~~W~~~hq~  442 (442)
                      ||++        |+||+|||++|.+.+++|||||+||||..+   ...|.+|.+.|+|
T Consensus       100 TPs~~v~G~r~~sydD~~iL~~A~~~~g~IVSND~yRD~~~e---~p~~k~~Ie~rlI  154 (223)
T 3v33_A          100 TPSRRVGGKRVVCYDDRFIVKLAYESDGIVVSNDTYRDLQGE---RQEWKRFIEERLL  154 (223)
T ss_dssp             ECEEEETTEEEECCHHHHHHHHHHHTTCEEECSCCCHHHHTT---CHHHHHHHHHHEE
T ss_pred             CCCCCcCCccccccchHHHHHHHHHcCCEEEeCccHHHHHhh---CHHHHHHHHhCee
Confidence            9999        899999999999999999999999999852   3468888899975

>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=2e-22  Score=212.14  Aligned_cols=148  Identities=15%  Similarity=0.111  Sum_probs=126.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH---hCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAH---SQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNE  101 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~---~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~  101 (442)
                      |||+||++|||.|++++|.++|++|.   ..|+.||++|||+||++|.+.|        ++++|.++|++|.+.|+.||+
T Consensus       129 TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G--------~~~eA~~Lf~eM~~~G~~PDv  200 (1134)
T 3spa_A          129 RLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQG--------AFKELVYVLFMVKDAGLTPDL  200 (1134)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHHTTCCCCH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCC--------CHHHHHHHHHHHHHcCCCCcH
Confidence            99999999999999999999998876   4589999999999999888888        899999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCH-HHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC------HHH
Q 013497          102 ASVTSVARLAASKNDG-DYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLE------QQE  174 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~-~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~------~~t  174 (442)
                      +|||+||+++|+.|+. ++|.++|++|. +.|+.||.+||+++|.++.+.+-++.+    +++ ..++.|+      ..|
T Consensus       201 vTYntLI~glcK~G~~~e~A~~Ll~EM~-~kG~~PD~vtY~~ll~~~eR~~vL~~V----rkv-~P~f~p~~~~~~~~~t  274 (1134)
T 3spa_A          201 LSYAAALQCMGRQDQDAGTIERCLEQMS-QEGLKLQALFTAVLLSEEDRATVLKAV----HKV-KPTFSLPPQLPPPVNT  274 (1134)
T ss_dssp             HHHHHHHHHHHHHTCCHHHHHHHHHHHH-HHTCCSHHHHHHSCCCHHHHHHHHHHH----GGG-CCCCCCCCCCCCCCCC
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHH-HcCCCCChhhcccccChhhHHHHHHHH----HHh-CcccCCCCCCcccccc
Confidence            9999999999999985 78999999999 999999999999999888776443333    333 3355554      455


Q ss_pred             HHHHHHHHHhcC
Q 013497          175 IAALLKVSAETG  186 (442)
Q Consensus       175 y~~li~~~~~~g  186 (442)
                      ...|.+.|.+.+
T Consensus       275 ~~LL~dl~s~d~  286 (1134)
T 3spa_A          275 SKLLRDVYAKDG  286 (1134)
T ss_dssp             CTTTHHHHCCCS
T ss_pred             hHHHHHHHccCC
Confidence            566777777655

>3v32_B Ribonuclease ZC3H12A; rossmann-like sandwich fold, RNAse, cytoplastic, hydrolase; 2.00A {Homo sapiens} PDB: 3v34_A

Probab=99.85  E-value=5.1e-22  Score=170.39  Aligned_cols=122  Identities=21%  Similarity=0.238  Sum_probs=100.2

Q ss_pred             CCcceEEeccchhccccccCCCCcChhhHHHHHHHHHHhcCCCccEEEccCccccC--CCCChhhHHHHHHHHhcCeEEe
Q 013497          315 ANYEAIVDGANIGLYQQNFTEGGFSVPQLDAVVKKLYERSGNKWPLVILHNKRLRS--LWENPSHRNLVEEWNEKGVLYM  392 (442)
Q Consensus       315 ~~~d~vIdg~Nv~~~~~~~~~~~~~~~~~~~vv~~l~~~~~~~~~l~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~  392 (442)
                      ..--+||||.|||+++++  ...|++.+|..+|++|.++++ +.++|+++..+...  +..+..++++|++|.+.+.+++
T Consensus        23 ~lR~IVIDGsNVA~~~g~--~~~Fs~rgI~~aV~yf~~rGh-~~v~VfvP~~r~~~~~~~~~~~d~~~L~~L~~~g~l~~   99 (185)
T 3v32_B           23 DLRPVVIDGSNVAMSHGN--KEVFSCRGILLAVNWFLERGH-TDITVFVPSWRKEQPRPDVPITDQHILRELEKKKILVF   99 (185)
T ss_dssp             CBCCEEEEHHHHHHHHTT--TTSEEHHHHHHHHHHHHHTTC-CCEEEEEEGGGGSCCCTTSCEECTHHHHHHHHTTCEEE
T ss_pred             CCCeEEEeCHHHHhhhCC--CCCcCHHHHHHHHHHHHHcCC-CceEEEechHhhhcccccCCCCCHHHHHHHHHCCCEEE
Confidence            355789999999999877  357899999999999999944 33556666665442  3445677899999999999999


Q ss_pred             CCCC--------CCccHHHHHHHHhcCcEEEecCccccchhhccccchhhhhhhhcCC
Q 013497          393 TPHG--------SNDDWYWLYAAVKLRCLLVTNDEMRDHIFELLGSNFFLKWKERHQT  442 (442)
Q Consensus       393 ~~~~--------~~DD~~~l~aa~~~~~~~vsnD~~rdh~~~~~~~~~f~~W~~~hq~  442 (442)
                      ||.+        |+||+|||++|...+++|||||+||||..+   ...+.+|.+.|+|
T Consensus       100 TPs~~~~g~~~~~ydD~~il~~A~~~~g~IVSND~~rD~~~~---~p~~k~~Ie~rli  154 (185)
T 3v32_B          100 TPSRRVGGKRVVCYDDRFIVKLAYESDGIVVSNDTYRDLQGE---RQEWKRFIEERLL  154 (185)
T ss_dssp             ECCCC-------CCHHHHHHHHHHHTTCEEECSCCCHHHHHH---CHHHHHHHHHHEE
T ss_pred             CCCcccCCCcccCccHHHHHHHHHHcCCEEEeCccHHHHHhh---CHHHHHHHHhCcc
Confidence            9999        899999999999999999999999999763   2356666788874

>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=1e-21  Score=206.77  Aligned_cols=147  Identities=16%  Similarity=0.165  Sum_probs=126.0

Q ss_pred             CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHh---CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCC
Q 013497           57 SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLS---NNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNV  133 (442)
Q Consensus        57 ~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~---~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~  133 (442)
                      -..|||+||++|.+.|        ++++|.++|++|.+   .|+.||++|||+||++||+.|++++|.++|++|+ +.|+
T Consensus       126 ~~~TynaLIdglcK~G--------~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~-~~G~  196 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTD--------QLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVK-DAGL  196 (1134)
T ss_dssp             HHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH-HTTC
T ss_pred             HHHHHHHHHHHHHhCC--------CHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHH-HcCC
Confidence            4579999999988888        99999999988864   5899999999999999999999999999999999 9999


Q ss_pred             CCCcccHHHHHHHHHHcCCH-HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC------
Q 013497          134 VPRLRTYDPALFCFCENLEA-EKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVN------  206 (442)
Q Consensus       134 ~p~~~ty~~li~~~~~~g~~-~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~------  206 (442)
                      .||++|||+||++||+.|+. ++|.++|++|.+.|+.||.+||+++|.++.+.+    +++.++++ .-+..|+      
T Consensus       197 ~PDvvTYntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~----vL~~Vrkv-~P~f~p~~~~~~~  271 (1134)
T 3spa_A          197 TPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT----VLKAVHKV-KPTFSLPPQLPPP  271 (1134)
T ss_dssp             CCCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHH----HHHHHGGG-CCCCCCCCCCCCC
T ss_pred             CCcHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHH----HHHHHHHh-CcccCCCCCCccc
Confidence            99999999999999999984 789999999999999999999999998876653    34444444 3445554      


Q ss_pred             hHHHHHHHHHh
Q 013497          207 EETGKIIEDWF  217 (442)
Q Consensus       207 ~~t~~~li~~~  217 (442)
                      ..|...|.+.|
T Consensus       272 ~~t~~LL~dl~  282 (1134)
T 3spa_A          272 VNTSKLLRDVY  282 (1134)
T ss_dssp             CCCCTTTHHHH
T ss_pred             ccchHHHHHHH
Confidence            44556666767

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.73  E-value=1.5e-16  Score=164.72  Aligned_cols=276  Identities=8%  Similarity=-0.036  Sum_probs=208.8

Q ss_pred             CHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC
Q 013497           22 PET-NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN  100 (442)
Q Consensus        22 p~~-~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~  100 (442)
                      ++. +|+.++.+|.+.|++++|+++|++|.+.+. .+..+|+.++.++...|        ++++|.++|++|.+.. +.+
T Consensus       303 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~~~~~~-~~~  372 (597)
T 2xpi_A          303 KSSDLLLCKADTLFVRSRFIDVLAITTKILEIDP-YNLDVYPLHLASLHESG--------EKNKLYLISNDLVDRH-PEK  372 (597)
T ss_dssp             GCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCCTTHHHHHHHHHHHT--------CHHHHHHHHHHHHHHC-TTS
T ss_pred             chHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHhC--------CHHHHHHHHHHHHhhC-ccc
Confidence            455 999999999999999999999999987652 36788999999888887        8999999999998543 457


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013497          101 EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLK  180 (442)
Q Consensus       101 ~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~  180 (442)
                      ..+|+.++.+|.+.|++++|.++|+++. ... ..+..+|+.++.+|++.|++++|.++|++|.+.+ ..+..+|+.++.
T Consensus       373 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  449 (597)
T 2xpi_A          373 AVTWLAVGIYYLCVNKISEARRYFSKSS-TMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGM  449 (597)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHH-HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHH
Confidence            8999999999999999999999999998 431 2356799999999999999999999999998764 347889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCccccccceEEeeec
Q 013497          181 VSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGS  260 (442)
Q Consensus       181 ~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~~~  260 (442)
                      +|.+.|++++|.++|+++.+.. ..++.+|..+...|  ...       +..++|...+.....               .
T Consensus       450 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~--~~~-------g~~~~A~~~~~~~~~---------------~  504 (597)
T 2xpi_A          450 QHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVA--FNK-------SDMQTAINHFQNALL---------------L  504 (597)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH--HHT-------TCHHHHHHHHHHHHH---------------H
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHH--HHh-------CCHHHHHHHHHHHHH---------------h
Confidence            9999999999999999998753 34678899999999  666       344444443220000               0


Q ss_pred             cCCCCCCCcCCCcccccCCCHHH-HHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcCCcceEEeccchhccccccCCCCcC
Q 013497          261 VDESGKCCSCGDQLACVDIDDAE-TERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGANIGLYQQNFTEGGFS  339 (442)
Q Consensus       261 ~~~~g~c~~c~~~l~~~~l~~~d-~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~~~d~vIdg~Nv~~~~~~~~~~~~~  339 (442)
                      ....+.-|             .+ ...|..+...|...|+.++|.+.|+++++..+....+...+-..|...    |  .
T Consensus       505 ~~~~~~~p-------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~----g--~  565 (597)
T 2xpi_A          505 VKKTQSNE-------------KPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHK----K--I  565 (597)
T ss_dssp             HHHSCCCS-------------GGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHT----T--C
T ss_pred             hhccccch-------------hhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHh----C--C
Confidence            00001122             12 678999999999999999999999999987643221111111112221    2  3


Q ss_pred             hhhHHHHHHHHHHhc
Q 013497          340 VPQLDAVVKKLYERS  354 (442)
Q Consensus       340 ~~~~~~vv~~l~~~~  354 (442)
                      ++.+...++.+.+..
T Consensus       566 ~~~A~~~~~~~l~~~  580 (597)
T 2xpi_A          566 PGLAITHLHESLAIS  580 (597)
T ss_dssp             HHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhcC
Confidence            677777777776653

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.71  E-value=1.3e-15  Score=157.66  Aligned_cols=235  Identities=9%  Similarity=-0.036  Sum_probs=197.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      +|+.++.+|.+.|+.++|..+|++|.+.. +.+..+|+.+..+|...|        ++++|.++|++|.+.. +.+..+|
T Consensus       341 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~~~~~~-~~~~~~~  410 (597)
T 2xpi_A          341 VYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVN--------KISEARRYFSKSSTMD-PQFGPAW  410 (597)
T ss_dssp             THHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhc--------cHHHHHHHHHHHHHhC-CCCHHHH
Confidence            89999999999999999999999998543 457889999999998888        9999999999998753 3468899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE  184 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~  184 (442)
                      +.++.+|++.|++++|.++|++|. ..+ ..+..+|+.++.+|.+.|++++|.++|++|.+.. ..+..+|+.++..|.+
T Consensus       411 ~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  487 (597)
T 2xpi_A          411 IGFAHSFAIEGEHDQAISAYTTAA-RLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFN  487 (597)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHH-HTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH-HhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH
Confidence            999999999999999999999998 542 4578999999999999999999999999998764 3378999999999999


Q ss_pred             cCCHHHHHHHHHHHHhc----cCCCC--hHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCccccccceEEee
Q 013497          185 TGRVEKVYQYLQKLRST----VRCVN--EETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKR  258 (442)
Q Consensus       185 ~g~~~~a~~ll~~m~~~----~~~p~--~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~  258 (442)
                      .|++++|.++|+++.+.    +..|+  ..++..+...|  .+.       +..++|...+.                  
T Consensus       488 ~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~--~~~-------g~~~~A~~~~~------------------  540 (597)
T 2xpi_A          488 KSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAY--RKL-------KMYDAAIDALN------------------  540 (597)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHH--HHT-------TCHHHHHHHHH------------------
T ss_pred             hCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHH--HHh-------cCHHHHHHHHH------------------
Confidence            99999999999999876    66787  67999999999  665       44455544321                  


Q ss_pred             eccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcC
Q 013497          259 GSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNA  315 (442)
Q Consensus       259 ~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~  315 (442)
                       .+               +.+.|.+...|..+...|...|+.++|.+.|++.++..+
T Consensus       541 -~~---------------~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p  581 (597)
T 2xpi_A          541 -QG---------------LLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISP  581 (597)
T ss_dssp             -HH---------------HHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             -HH---------------HHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCC
Confidence             00               001122567888899999999999999999999998654

>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=99.36  E-value=1.5e-10  Score=112.99  Aligned_cols=176  Identities=11%  Similarity=0.004  Sum_probs=109.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHH-FNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEAS  103 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~t-y~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~t  103 (442)
                      +|..+...+.+.|++++|++.|.++.+.  .|+... +..+-.++...|        ++++|.++|+++.+.. +-+..+
T Consensus       103 ~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~al~~~-p~~~~~  171 (388)
T 1w3b_A          103 GYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALG--------RLEEAKACYLKAIETQ-PNFAVA  171 (388)
T ss_dssp             HHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTS--------CHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcc--------CHHHHHHHHHHHHHhC-CCCHHH
Confidence            7888888888888888888888887754  344433 333334666666        7888888887776643 224677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 013497          104 VTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVS  182 (442)
Q Consensus       104 y~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~  182 (442)
                      |+.+...|.+.|++++|...|+++. ..  .|+ ...|..+-..+...|++++|...|+...... +.+..++..+...+
T Consensus       172 ~~~l~~~~~~~g~~~~A~~~~~~al-~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  247 (388)
T 1w3b_A          172 WSNLGCVFNAQGEIWLAIHHFEKAV-TL--DPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVY  247 (388)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH-hc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHH
Confidence            7777777778888888877777776 32  232 3445555556666666666666666554432 11345555666666


Q ss_pred             HhcCCHHHHHHHHHHHHhccCCC-ChHHHHHHHHHh
Q 013497          183 AETGRVEKVYQYLQKLRSTVRCV-NEETGKIIEDWF  217 (442)
Q Consensus       183 ~~~g~~~~a~~ll~~m~~~~~~p-~~~t~~~li~~~  217 (442)
                      .+.|++++|.+.|+++...  .| ++.++..+...+
T Consensus       248 ~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~  281 (388)
T 1w3b_A          248 YEQGLIDLAIDTYRRAIEL--QPHFPDAYCNLANAL  281 (388)
T ss_dssp             HHTTCHHHHHHHHHHHHHT--CSSCHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHH
Confidence            6666666666666665543  22 234455555555

>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=99.32  E-value=6e-10  Score=110.61  Aligned_cols=251  Identities=9%  Similarity=0.007  Sum_probs=181.3

Q ss_pred             CCCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCC
Q 013497           19 NPNPET--NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNN   96 (442)
Q Consensus        19 ~~~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g   96 (442)
                      ...|+.  .|..+...+.+.|++++|+.+|+++.+.. +.+..+|..+..++...+        ++++|.+.|+++.+.+
T Consensus        20 ~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~al~~~   90 (450)
T 2y4t_A           20 FQSMADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMG--------KSKAALPDLTKVIQLK   90 (450)
T ss_dssp             ---CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHC
T ss_pred             cccHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHhcC
Confidence            344555  89999999999999999999999988652 346788888888888888        8999999999998865


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc----ccHHHHHH------------HHHHcCCHHHHHHHH
Q 013497           97 VIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL----RTYDPALF------------CFCENLEAEKAYEVE  160 (442)
Q Consensus        97 ~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~----~ty~~li~------------~~~~~g~~~~A~~l~  160 (442)
                      . .+..++..+..+|.+.|++++|...|+++. ..  .|+.    .++..++.            .|.+.|++++|.++|
T Consensus        91 p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~  166 (450)
T 2y4t_A           91 M-DFTAARLQRGHLLLKQGKLDEAEDDFKKVL-KS--NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFL  166 (450)
T ss_dssp             T-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-TS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             C-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHH-hc--CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3 368899999999999999999999999998 43  4544    55555544            489999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcC
Q 013497          161 EHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNG  240 (442)
Q Consensus       161 ~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~  240 (442)
                      +.+.+.. +.+..++..+..+|.+.|++++|.++|+++.... ..++.++..+...+  ...       +...+|+..+.
T Consensus       167 ~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~--~~~-------g~~~~A~~~~~  235 (450)
T 2y4t_A          167 DKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLY--YQL-------GDHELSLSEVR  235 (450)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHH--HHT-------TCHHHHHHHHH
T ss_pred             HHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH--HHc-------CCHHHHHHHHH
Confidence            9998753 3377889999999999999999999999997652 33567888888888  555       33444443321


Q ss_pred             CcccCCccccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcC
Q 013497          241 GGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNA  315 (442)
Q Consensus       241 ~~~~~~~~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~  315 (442)
                      .                  .+......+.+...+.    .-.....+..+...+...|+.++|++.|++++...+
T Consensus       236 ~------------------~~~~~p~~~~~~~~~~----~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p  288 (450)
T 2y4t_A          236 E------------------CLKLDQDHKRCFAHYK----QVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEP  288 (450)
T ss_dssp             H------------------HHHHCTTCHHHHHHHH----HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC
T ss_pred             H------------------HHHhCCChHHHHHHHH----HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            0                  0000000000000000    000111223335667888999999999999998654

>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=99.31  E-value=2.1e-10  Score=111.90  Aligned_cols=196  Identities=11%  Similarity=-0.026  Sum_probs=157.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      +|..+...|.+.|++++|+..|+++.+.. +.+..+|..+..++...|        ++++|.+.|+++.+... -+..++
T Consensus        69 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~al~~~p-~~~~~~  138 (388)
T 1w3b_A           69 AYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAG--------DMEGAVQAYVSALQYNP-DLYCVR  138 (388)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHS--------CSSHHHHHHHHHHHHCT-TCTHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHhCC-CcHHHH
Confidence            99999999999999999999999988642 234567888888888877        89999999999987542 245667


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      ..+-..+...|++++|.+.|+++. ..  .| +..+|+.+...|.+.|++++|.+.|+++..... .+...|..+-..+.
T Consensus       139 ~~l~~~~~~~g~~~~A~~~~~~al-~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~  214 (388)
T 1w3b_A          139 SDLGNLLKALGRLEEAKACYLKAI-ET--QPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYINLGNVLK  214 (388)
T ss_dssp             HHHHHHHHTTSCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHH
Confidence            788888999999999999999998 43  45 457899999999999999999999999987642 25678889999999


Q ss_pred             hcCCHHHHHHHHHHHHhccCCCC-hHHHHHHHHHhccccCCCcccchhhHHHHHHh
Q 013497          184 ETGRVEKVYQYLQKLRSTVRCVN-EETGKIIEDWFSGQKVNGVSCDLGLVKNAVLK  238 (442)
Q Consensus       184 ~~g~~~~a~~ll~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~  238 (442)
                      ..|++++|...+.+....  .|+ ..++..+...+  ...|...-....+++++..
T Consensus       215 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~--~~~g~~~~A~~~~~~al~~  266 (388)
T 1w3b_A          215 EARIFDRAVAAYLRALSL--SPNHAVVHGNLACVY--YEQGLIDLAIDTYRRAIEL  266 (388)
T ss_dssp             TTTCTTHHHHHHHHHHHH--CTTCHHHHHHHHHHH--HHTTCHHHHHHHHHHHHHT
T ss_pred             HcCCHHHHHHHHHHHHhh--CcCCHHHHHHHHHHH--HHcCCHHHHHHHHHHHHhh
Confidence            999999999999988764  354 56777787777  5555444444556666654

>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=99.26  E-value=8e-10  Score=109.72  Aligned_cols=236  Identities=10%  Similarity=0.022  Sum_probs=175.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC-H--
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN-E--  101 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~-~--  101 (442)
                      .|..+...|.+.|++++|+..|+++.+.+ +.+..+|..+..++...|        ++++|.++|+++.+..  |+ .  
T Consensus        62 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~~~~~~--~~~~~~  130 (450)
T 2y4t_A           62 AYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQG--------KLDEAEDDFKKVLKSN--PSENEE  130 (450)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHTSC--CCHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHhcC--CCChhh
Confidence            89999999999999999999999998764 235778888888888888        9999999999998754  43 3  


Q ss_pred             -HHHHHHHHH------------HHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 013497          102 -ASVTSVARL------------AASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGL  168 (442)
Q Consensus       102 -~ty~~li~~------------~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~  168 (442)
                       .++..++..            +.+.|++++|...|+++. ... ..+..++..+...|.+.|++++|.++|+.+.... 
T Consensus       131 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-  207 (450)
T 2y4t_A          131 KEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKIL-EVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-  207 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-
Confidence             566666444            899999999999999998 432 3467889999999999999999999999998653 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHH-HHHH------------HHHhccccCCCcccchhhHHHH
Q 013497          169 SLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEET-GKII------------EDWFSGQKVNGVSCDLGLVKNA  235 (442)
Q Consensus       169 ~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t-~~~l------------i~~~~~~~~~~~~~~~~~~~~a  235 (442)
                      +.+..+|..+...|...|+.++|...|+++...  .|+... +..+            ...+  ...       +...+|
T Consensus       208 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~--~~~-------g~~~~A  276 (450)
T 2y4t_A          208 NDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEEL--IRD-------GRYTDA  276 (450)
T ss_dssp             CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHH--HHH-------TCHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHH--HHc-------CCHHHH
Confidence            346889999999999999999999999999854  455443 3332            3333  222       444444


Q ss_pred             HHhcCCcccCCccccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcC
Q 013497          236 VLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNA  315 (442)
Q Consensus       236 ~~~~~~~~~~~~~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~  315 (442)
                      ...+..                  .+......+            ..-...+..+...+...|+.++|+..|++.+...+
T Consensus       277 ~~~~~~------------------~l~~~p~~~------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p  326 (450)
T 2y4t_A          277 TSKYES------------------VMKTEPSIA------------EYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEP  326 (450)
T ss_dssp             HHHHHH------------------HHHHCCSSH------------HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHH------------------HHhcCCcch------------HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc
Confidence            443210                  000000000            00134566666778888999999999999887654

>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=99.21  E-value=1.4e-11  Score=121.02  Aligned_cols=220  Identities=10%  Similarity=-0.024  Sum_probs=95.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHH
Q 013497           24 TNFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEAS  103 (442)
Q Consensus        24 ~~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~t  103 (442)
                      .+|..|..++.+.|++++|++.|.+.      +|..+|..++..|...|        ++++|...++...+.  .+++.+
T Consensus        33 ~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g--------~~EeAi~yl~~ark~--~~~~~i   96 (449)
T 1b89_A           33 AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSG--------NWEELVKYLQMARKK--ARESYV   96 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCC--------CHHHHHHHHHHHHHh--Cccchh
Confidence            39999999999999999999999753      57789999999887777        999999977766653  566889


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          104 VTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       104 y~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      .+.++.+|++.|+++++.++++        .|+..+|+.+-..|...|++++|...|..+         ..|..|..++.
T Consensus        97 ~~~Li~~Y~Klg~l~e~e~f~~--------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~  159 (449)
T 1b89_A           97 ETELIFALAKTNRLAELEEFIN--------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLV  159 (449)
T ss_dssp             ------------CHHHHTTTTT--------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHc--------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHH
Confidence            9999999999999999888773        367789999999999999999999999987         36999999999


Q ss_pred             hcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCccccccceEEeeeccCC
Q 013497          184 ETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDE  263 (442)
Q Consensus       184 ~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~~~~~~  263 (442)
                      +.|++++|.+.+.+.      .++.||..++.+|  ...       +.++.|..                          
T Consensus       160 ~Lg~yq~AVea~~KA------~~~~~Wk~v~~aC--v~~-------~ef~lA~~--------------------------  198 (449)
T 1b89_A          160 HLGEYQAAVDGARKA------NSTRTWKEVCFAC--VDG-------KEFRLAQM--------------------------  198 (449)
T ss_dssp             TTTCHHHHHHHHHHH------TCHHHHHHHHHHH--HHT-------TCHHHHHH--------------------------
T ss_pred             HhccHHHHHHHHHHc------CCchhHHHHHHHH--HHc-------CcHHHHHH--------------------------
Confidence            999999999999988      3789999999999  655       55555533                          


Q ss_pred             CCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcCCcceEEeccchhcc
Q 013497          264 SGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGANIGLY  329 (442)
Q Consensus       264 ~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~~~d~vIdg~Nv~~~  329 (442)
                            |+..   +...|++.   .+++.-|.+.|..++++.+|+.-+.-...-..+..++-++|.
T Consensus       199 ------~~l~---L~~~ad~l---~~lv~~Yek~G~~eEai~lLe~aL~le~ah~~~ftel~il~~  252 (449)
T 1b89_A          199 ------CGLH---IVVHADEL---EELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYS  252 (449)
T ss_dssp             ------TTTT---TTTCHHHH---HHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHH
T ss_pred             ------HHHH---HHhCHhhH---HHHHHHHHHCCCHHHHHHHHHHHhCCcHHHHHHHHHHHHHHH
Confidence                  2221   23455443   357888999999999999999887543333333444444443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.14  E-value=4.5e-09  Score=101.43  Aligned_cols=233  Identities=10%  Similarity=-0.031  Sum_probs=175.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+-..+.+.|++++|+.+|+++.+.. +.+..+|..+-.++...|        ++++|.+.|++..+.. +.+..+|
T Consensus        67 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g--------~~~~A~~~~~~al~~~-p~~~~~~  136 (365)
T 4eqf_A           67 GAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENE--------NEQAAIVALQRCLELQ-PNNLKAL  136 (365)
T ss_dssp             THHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHhcC-CCCHHHH
Confidence            68888999999999999999999988654 346788888888888888        8999999999998764 3468899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-----------cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-----------LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLS-LEQ  172 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-----------~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~-p~~  172 (442)
                      ..+...|...|++++|...|+++. ..  .|+           ...+..+...|.+.|++++|.++|+++....-. ++.
T Consensus       137 ~~l~~~~~~~g~~~~A~~~~~~al-~~--~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~  213 (365)
T 4eqf_A          137 MALAVSYTNTSHQQDACEALKNWI-KQ--NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDP  213 (365)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-HH--CHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCH
T ss_pred             HHHHHHHHccccHHHHHHHHHHHH-Hh--CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCH
Confidence            999999999999999999999987 42  233           223345578899999999999999999876422 268


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCcccccc
Q 013497          173 QEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQG  252 (442)
Q Consensus       173 ~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  252 (442)
                      .+|..+...|...|++++|.+.|++..... ..+..++..+...+  ...       +...+|...+..           
T Consensus       214 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~--~~~-------g~~~~A~~~~~~-----------  272 (365)
T 4eqf_A          214 DLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATL--ANG-------DRSEEAVEAYTR-----------  272 (365)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH--HHT-------TCHHHHHHHHHH-----------
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH--HHc-------CCHHHHHHHHHH-----------
Confidence            899999999999999999999999987752 23466788888877  554       344444443210           


Q ss_pred             ceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHc
Q 013497          253 KWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKN  314 (442)
Q Consensus       253 ~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~  314 (442)
                             .                +.+.|.+...+..+-..+...|+.++|...|++.++..
T Consensus       273 -------a----------------l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  311 (365)
T 4eqf_A          273 -------A----------------LEIQPGFIRSRYNLGISCINLGAYREAVSNFLTALSLQ  311 (365)
T ss_dssp             -------H----------------HHHCTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHH
T ss_pred             -------H----------------HhcCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence                   0                01112245667777778889999999999999998755

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.13  E-value=7.3e-09  Score=97.56  Aligned_cols=178  Identities=12%  Similarity=0.014  Sum_probs=143.7

Q ss_pred             CCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHhcCCCCCCchhhHHHHHHHHHHHHhCCC
Q 013497           20 PNPET-NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLY-LCSDSATDPSSKDSALRHGFRVFDQMLSNNV   97 (442)
Q Consensus        20 ~~p~~-~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~-~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~   97 (442)
                      .+|+. ++..+...+.+.++.++|++.++++...++.|+...+..++. ++...|        ++++|.+.|+.      
T Consensus        61 ~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g--------~~~~Al~~l~~------  126 (291)
T 3mkr_A           61 SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQ--------NPDAALRTLHQ------  126 (291)
T ss_dssp             SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTT--------CHHHHHHHHTT------
T ss_pred             CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCC--------CHHHHHHHHhC------
Confidence            34455 999999999999999999999999998887776666666654 777777        89999999987      


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHH---HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH
Q 013497           98 IPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYD---PALFCFCENLEAEKAYEVEEHMGLMGLSLEQQE  174 (442)
Q Consensus        98 ~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~---~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~t  174 (442)
                      +.+..++..+...|.+.|++++|...|+++. ..  .|+...++   ..+..+...|++++|..+|+++.+. .+.+...
T Consensus       127 ~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~-~~--~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~  202 (291)
T 3mkr_A          127 GDSLECMAMTVQILLKLDRLDLARKELKKMQ-DQ--DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLL  202 (291)
T ss_dssp             CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHH
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH-hh--CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHH
Confidence            5688899999999999999999999999998 54  47643221   2334444558999999999999887 4557889


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhccCCC-ChHHHHHHHHHh
Q 013497          175 IAALLKVSAETGRVEKVYQYLQKLRSTVRCV-NEETGKIIEDWF  217 (442)
Q Consensus       175 y~~li~~~~~~g~~~~a~~ll~~m~~~~~~p-~~~t~~~li~~~  217 (442)
                      |+.+..++.+.|++++|...|++....  .| ++.++..+...+
T Consensus       203 ~~~la~~~~~~g~~~eA~~~l~~al~~--~p~~~~~l~~l~~~~  244 (291)
T 3mkr_A          203 LNGQAACHMAQGRWEAAEGVLQEALDK--DSGHPETLINLVVLS  244 (291)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            999999999999999999999998765  34 455676666666

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.12  E-value=4.2e-09  Score=99.23  Aligned_cols=235  Identities=9%  Similarity=0.002  Sum_probs=171.8

Q ss_pred             CCCCHH---HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC
Q 013497           19 NPNPET---NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN   95 (442)
Q Consensus        19 ~~~p~~---~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~   95 (442)
                      ...|+.   ..-.+..+|...|+++.|+..++.    .-.|+..++..+...+...+        +.++|.+.++++...
T Consensus        27 ~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~--------~~~~A~~~l~~ll~~   94 (291)
T 3mkr_A           27 PSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHS--------RRDAIVAELDREMSR   94 (291)
T ss_dssp             CCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCST--------THHHHHHHHHHHHHS
T ss_pred             cCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCC--------cHHHHHHHHHHHHhc
Confidence            344554   445678899999999999987654    24567778888888888887        899999999999988


Q ss_pred             CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH
Q 013497           96 NVIPN-EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQE  174 (442)
Q Consensus        96 g~~p~-~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~t  174 (442)
                      +..|+ ...+..+-..|...|++++|++.++.       ..+...+..+...|.+.|+.++|.+.++.+....  |+...
T Consensus        95 ~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~-------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~  165 (291)
T 3mkr_A           95 SVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ-------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATL  165 (291)
T ss_dssp             CCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT-------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHH
T ss_pred             ccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC-------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHH
Confidence            76564 55566666899999999999999866       3467789999999999999999999999998764  55432


Q ss_pred             H---HHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCccccc
Q 013497          175 I---AALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQ  251 (442)
Q Consensus       175 y---~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  251 (442)
                      +   .+++..+...|++++|..+|+++.+. ...++..++.+-..+  ...       ++..+|...+.           
T Consensus       166 ~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~--~~~-------g~~~eA~~~l~-----------  224 (291)
T 3mkr_A          166 TQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACH--MAQ-------GRWEAAEGVLQ-----------  224 (291)
T ss_dssp             HHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHH--HHT-------TCHHHHHHHHH-----------
T ss_pred             HHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHH--HHc-------CCHHHHHHHHH-----------
Confidence            1   22334444568999999999999887 345667777777777  555       44444444321           


Q ss_pred             cceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHh-hHHHHHHHHHHcCCcc
Q 013497          252 GKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKA-NFSEFQDWLEKNANYE  318 (442)
Q Consensus       252 ~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~-a~~~F~~m~~~~~~~d  318 (442)
                                             +.+.+.|.+..++..++..+...|+..+ +.+.|++.++..+...
T Consensus       225 -----------------------~al~~~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~  269 (291)
T 3mkr_A          225 -----------------------EALDKDSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHP  269 (291)
T ss_dssp             -----------------------HHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCH
T ss_pred             -----------------------HHHHhCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCCh
Confidence                                   0111223366678888888888887765 5688888887665433

>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=99.11  E-value=3.2e-08  Score=95.15  Aligned_cols=234  Identities=10%  Similarity=0.022  Sum_probs=177.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+..+-..+.+.|++++|+..|+++.+.. +.+..+|..+-.++...+        ++++|.+.|+++.+.. +.+..++
T Consensus        66 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~al~~~-~~~~~~~  135 (368)
T 1fch_A           66 QPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENE--------QELLAISALRRCLELK-PDNQTAL  135 (368)
T ss_dssp             SHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCc--------CHHHHHHHHHHHHhcC-CCCHHHH
Confidence            78888899999999999999999998764 346677887777888888        8999999999998765 3478899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc-ccHHH---------------HHHHHHHcCCHHHHHHHHHHHHHCCC
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL-RTYDP---------------ALFCFCENLEAEKAYEVEEHMGLMGL  168 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~-~ty~~---------------li~~~~~~g~~~~A~~l~~~M~~~g~  168 (442)
                      ..+...|...|++++|...++++. ..  .|+. ..+..               .+..+...|++++|..+|+.+....-
T Consensus       136 ~~l~~~~~~~g~~~~A~~~~~~~~-~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p  212 (368)
T 1fch_A          136 MALAVSFTNESLQRQACEILRDWL-RY--TPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDP  212 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-HT--STTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH-Hh--CcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCc
Confidence            999999999999999999999998 43  3332 22221               24445599999999999999987532


Q ss_pred             C-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCc
Q 013497          169 S-LEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLG  247 (442)
Q Consensus       169 ~-p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  247 (442)
                      . ++..++..+...+.+.|++++|...|++..... ..+..++..+...+  ...       +...+|...+..      
T Consensus       213 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~--~~~-------g~~~~A~~~~~~------  276 (368)
T 1fch_A          213 TSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATL--ANG-------NQSEEAVAAYRR------  276 (368)
T ss_dssp             TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH--HHT-------TCHHHHHHHHHH------
T ss_pred             CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHH--HHc-------CCHHHHHHHHHH------
Confidence            2 157899999999999999999999999987652 23456777777777  444       344444443210      


Q ss_pred             cccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcC
Q 013497          248 WIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNA  315 (442)
Q Consensus       248 ~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~  315 (442)
                                  .+                .+.|.+...+..+-..+...|+.++|...|++.+...+
T Consensus       277 ------------al----------------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~  316 (368)
T 1fch_A          277 ------------AL----------------ELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQR  316 (368)
T ss_dssp             ------------HH----------------HHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             ------------HH----------------HhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence                        00                01122456677777788899999999999999987543

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.06  E-value=8e-08  Score=85.11  Aligned_cols=185  Identities=10%  Similarity=-0.020  Sum_probs=149.8

Q ss_pred             CCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC
Q 013497           21 NPET--NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI   98 (442)
Q Consensus        21 ~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~   98 (442)
                      .|+.  .|..+...+.+.|++++|++.|+++.+.. +.+...|..+...+...+        ++++|.++|+...+.. +
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~A~~~~~~a~~~~-~   73 (225)
T 2vq2_A            4 ANQVSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLK--------VNDKAQESFRQALSIK-P   73 (225)
T ss_dssp             CCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHC-T
T ss_pred             CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcC--------ChHHHHHHHHHHHHhC-C
Confidence            3444  88999999999999999999999988653 235677888777888887        8999999999988754 3


Q ss_pred             CCHHHHHHHHHHHHhc-CCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 013497           99 PNEASVTSVARLAASK-NDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIA  176 (442)
Q Consensus        99 p~~~ty~~li~~~~~~-g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~  176 (442)
                      .+..++..+...|... |++++|...++++. ..+..|+ ...+..+...|...|++++|.+.++++.+.. +.+...+.
T Consensus        74 ~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  151 (225)
T 2vq2_A           74 DSAEINNNYGWFLCGRLNRPAESMAYFDKAL-ADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFK  151 (225)
T ss_dssp             TCHHHHHHHHHHHHTTTCCHHHHHHHHHHHH-TSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHH
T ss_pred             CChHHHHHHHHHHHHhcCcHHHHHHHHHHHH-cCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHH
Confidence            4678999999999999 99999999999998 5323343 5778889999999999999999999988753 22578889


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          177 ALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       177 ~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      .+...+.+.|+.++|..++++.....-..+...+..+...+
T Consensus       152 ~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (225)
T 2vq2_A          152 ELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIA  192 (225)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            99999999999999999999987753213555555555554

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.06  E-value=4.2e-08  Score=98.68  Aligned_cols=196  Identities=8%  Similarity=-0.108  Sum_probs=147.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|-.+-..+.+.|++++|+..|+++.+..  |+..+|..+..++...|        ++++|.+.|+++.+.. +.+..+|
T Consensus         8 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g--------~~~~A~~~~~~al~~~-p~~~~~~   76 (514)
T 2gw1_A            8 ALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVG--------DLKKVVEMSTKALELK-PDYSKVL   76 (514)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHHHC-SCCHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHh--------hHHHHHHHHHHHhccC-hHHHHHH
Confidence            56667788999999999999999998765  79999999988888888        9999999999998865 3467899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCccc---------------------------------------------
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRT---------------------------------------------  139 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~t---------------------------------------------  139 (442)
                      ..+..+|.+.|++++|...|+++. ... .++...                                             
T Consensus        77 ~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~  154 (514)
T 2gw1_A           77 LRRASANEGLGKFADAMFDLSVLS-LNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDK  154 (514)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-HSS-SCCGGGTHHHHHHHHHHHHHHHHTTC-------------------------
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHH-hcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhh
Confidence            999999999999999999999987 432 111111                                             


Q ss_pred             ----------------------------------HHHHHHHHH---HcCCHHHHHHHHHHHHH-----CCCC--------
Q 013497          140 ----------------------------------YDPALFCFC---ENLEAEKAYEVEEHMGL-----MGLS--------  169 (442)
Q Consensus       140 ----------------------------------y~~li~~~~---~~g~~~~A~~l~~~M~~-----~g~~--------  169 (442)
                                                        +..+...+.   +.|++++|..+|+++..     ..-.        
T Consensus       155 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  234 (514)
T 2gw1_A          155 QENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKE  234 (514)
T ss_dssp             --CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHH
T ss_pred             ccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccCh
Confidence                                              111112222   37999999999999987     3212        


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHH
Q 013497          170 LEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVL  237 (442)
Q Consensus       170 p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~  237 (442)
                      .+..+|..+...+...|++++|..+|++.....  |+...+..+...+  ...|...-....+.+++.
T Consensus       235 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~--~~~~~~~~A~~~~~~~~~  298 (514)
T 2gw1_A          235 KLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIM--ADRNDSTEYYNYFDKALK  298 (514)
T ss_dssp             HHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHH--HTSSCCTTGGGHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHH--HHCCCHHHHHHHHHHHhh
Confidence            235678888889999999999999999998764  4466777777777  555444334444555544

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.03  E-value=3.4e-08  Score=92.23  Aligned_cols=174  Identities=11%  Similarity=0.052  Sum_probs=136.0

Q ss_pred             CCCCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhC-------CCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHH
Q 013497           18 TNPNPET--NFLINLQSCTKSKDLTTAISLYESAHSQ-------NLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRV   88 (442)
Q Consensus        18 ~~~~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~-------g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l   88 (442)
                      ....|+.  ++..+-..+...|++++|+.+|+++.+.       .......++..+-..+...+        ++++|.+.
T Consensus        20 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g--------~~~~A~~~   91 (311)
T 3nf1_A           20 GYEIPARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQN--------KYKDAANL   91 (311)
T ss_dssp             CTTSCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTT--------CHHHHHHH
T ss_pred             CCcchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCC--------CHHHHHHH
Confidence            3344555  8999999999999999999999998752       22233455666666777777        89999999


Q ss_pred             HHHHHhC------CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhC------CCCC-CcccHHHHHHHHHHcCCHH
Q 013497           89 FDQMLSN------NV-IPNEASVTSVARLAASKNDGDYAFVLIKRMNNEF------NVVP-RLRTYDPALFCFCENLEAE  154 (442)
Q Consensus        89 ~~~M~~~------g~-~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~------g~~p-~~~ty~~li~~~~~~g~~~  154 (442)
                      |++....      +- .....++..+...|...|++++|...|++.. ..      +-.| ...++..+...|...|+++
T Consensus        92 ~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~-~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  170 (311)
T 3nf1_A           92 LNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRAL-EIREKVLGKDHPDVAKQLNNLALLCQNQGKYE  170 (311)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHH-HHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHH-HHHHHhcCCCChHHHHHHHHHHHHHHHcCCHH
Confidence            9988764      22 2346788899999999999999999999887 32      2223 3467888899999999999


Q ss_pred             HHHHHHHHHHHC------CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          155 KAYEVEEHMGLM------GLSL-EQQEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       155 ~A~~l~~~M~~~------g~~p-~~~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      +|.+++++....      +-.| ...++..+...|...|++++|..++++...
T Consensus       171 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  223 (311)
T 3nf1_A          171 EVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILT  223 (311)
T ss_dssp             HHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999998764      2233 345788889999999999999999999875

>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=99.03  E-value=5.6e-08  Score=88.30  Aligned_cols=180  Identities=9%  Similarity=0.007  Sum_probs=149.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+...+...|++++|+..|+++.+.. +.+...+..+..++...+        ++++|.++|+++.+... .+..++
T Consensus        39 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~--------~~~~A~~~~~~a~~~~~-~~~~~~  108 (252)
T 2ho1_A           39 AYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEM--------EPKLADEEYRKALASDS-RNARVL  108 (252)
T ss_dssp             HHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCT-TCHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHHCc-CcHHHH
Confidence            78888999999999999999999988653 335677777777888887        89999999999887643 377899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      ..+...|...|++++|.+.++++. ..+..| +...+..+...|.+.|++++|.+.+++..... ..+...+..+...+.
T Consensus       109 ~~la~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~  186 (252)
T 2ho1_A          109 NNYGGFLYEQKRYEEAYQRLLEAS-QDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLY  186 (252)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHT-TCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHH-hCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHH
Confidence            999999999999999999999998 533445 45678888899999999999999999988764 235788999999999


Q ss_pred             hcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          184 ETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       184 ~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      ..|+.++|..++++..... ..+...+..+...+
T Consensus       187 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~  219 (252)
T 2ho1_A          187 KEREYVPARQYYDLFAQGG-GQNARSLLLGIRLA  219 (252)
T ss_dssp             HTTCHHHHHHHHHHHHTTS-CCCHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHH
Confidence            9999999999999987642 23455666666666

>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=99.00  E-value=1.3e-07  Score=89.01  Aligned_cols=234  Identities=9%  Similarity=-0.023  Sum_probs=173.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|-.+-..+.+.|++++|+.+|+++.+.. +-+...+..+..++...+        ++++|.+.|+++.+.. +.+..++
T Consensus        23 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~--------~~~~A~~~~~~a~~~~-~~~~~~~   92 (327)
T 3cv0_A           23 NPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENE--------KDGLAIIALNHARMLD-PKDIAVH   92 (327)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHhcC-cCCHHHH
Confidence            67777888999999999999999988653 236677777777888887        8999999999988764 3478899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHH--------------HH--HHHcCCHHHHHHHHHHHHHCCC
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPAL--------------FC--FCENLEAEKAYEVEEHMGLMGL  168 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li--------------~~--~~~~g~~~~A~~l~~~M~~~g~  168 (442)
                      ..+...|...|++++|...+++.. ..  .|+.......+              ..  +...|++++|.++++++.....
T Consensus        93 ~~la~~~~~~~~~~~A~~~~~~~~-~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~  169 (327)
T 3cv0_A           93 AALAVSHTNEHNANAALASLRAWL-LS--QPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNP  169 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-HT--STTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH-Hh--CCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCC
Confidence            999999999999999999999988 43  34433333222              33  7788999999999999987642


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCcc
Q 013497          169 SLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGW  248 (442)
Q Consensus       169 ~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  248 (442)
                       .+...+..+...+.+.|++++|.+.+++..... ..+..++..+...+  ...       +...+|...+..       
T Consensus       170 -~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~--~~~-------~~~~~A~~~~~~-------  231 (327)
T 3cv0_A          170 -NDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATL--ANG-------NRPQEALDAYNR-------  231 (327)
T ss_dssp             -TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH--HHT-------TCHHHHHHHHHH-------
T ss_pred             -CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH--HHc-------CCHHHHHHHHHH-------
Confidence             367889999999999999999999999987652 23456677776666  444       334444433210       


Q ss_pred             ccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcCC
Q 013497          249 IGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNAN  316 (442)
Q Consensus       249 ~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~~  316 (442)
                                 .+                .+.|.+...+..+...+...|+.++|.+.|++.+...+.
T Consensus       232 -----------a~----------------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~  272 (327)
T 3cv0_A          232 -----------AL----------------DINPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVG  272 (327)
T ss_dssp             -----------HH----------------HHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTT
T ss_pred             -----------HH----------------HcCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCc
Confidence                       00                011113456677777788899999999999999886654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=98.98  E-value=8.7e-08  Score=84.87  Aligned_cols=176  Identities=13%  Similarity=0.045  Sum_probs=144.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-CCCCCCchhhHHHHHHHHHHHHhCCCCCC-HH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDS-ATDPSSKDSALRHGFRVFDQMLSNNVIPN-EA  102 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~-~~~~~~~~~~~~~a~~l~~~M~~~g~~p~-~~  102 (442)
                      .|..+...|...|++++|.+.|+++.+.. +.+..++..+...+... +        ++++|.+.|+.+.+.+..|+ ..
T Consensus        44 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~--------~~~~A~~~~~~~~~~~~~~~~~~  114 (225)
T 2vq2_A           44 AWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCGRLN--------RPAESMAYFDKALADPTYPTPYI  114 (225)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTC--------CHHHHHHHHHHHHTSTTCSCHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcC--------cHHHHHHHHHHHHcCcCCcchHH
Confidence            88889999999999999999999987653 23667787777788877 7        89999999999988433343 67


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 013497          103 SVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVS  182 (442)
Q Consensus       103 ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~  182 (442)
                      ++..+...+...|++++|...|+++. ... ..+...+..+...|.+.|+.++|.++++......-..+...+..+...+
T Consensus       115 ~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (225)
T 2vq2_A          115 ANLNKGICSAKQGQFGLAEAYLKRSL-AAQ-PQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIA  192 (225)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH-HHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH-HhC-CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            88999999999999999999999988 432 2346788999999999999999999999988754324677788888888


Q ss_pred             HhcCCHHHHHHHHHHHHhccCCCChHHHHHH
Q 013497          183 AETGRVEKVYQYLQKLRSTVRCVNEETGKII  213 (442)
Q Consensus       183 ~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~l  213 (442)
                      ...|+.+++..+++.+...  .|+...+..+
T Consensus       193 ~~~~~~~~a~~~~~~~~~~--~p~~~~~~~~  221 (225)
T 2vq2_A          193 KALGNAQAAYEYEAQLQAN--FPYSEELQTV  221 (225)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTCHHHHHH
T ss_pred             HhcCcHHHHHHHHHHHHHh--CCCCHHHHHH
Confidence            9999999999999998754  4655544433

>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=98.98  E-value=9.5e-08  Score=86.73  Aligned_cols=172  Identities=7%  Similarity=-0.017  Sum_probs=143.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCC-CHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIP-NEAS  103 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p-~~~t  103 (442)
                      .|..+...|.+.|++++|.+.|+++.+.. +.+...|..+..++...+        ++++|.++|+++...+..| +..+
T Consensus        73 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g--------~~~~A~~~~~~~~~~~~~~~~~~~  143 (252)
T 2ho1_A           73 AHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLYEQK--------RYEEAYQRLLEASQDTLYPERSRV  143 (252)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHTTCTTCTTHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHHh--------HHHHHHHHHHHHHhCccCcccHHH
Confidence            88889999999999999999999987653 236677877777888877        8999999999998744445 5678


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          104 VTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       104 y~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      +..+...|.+.|++++|...|++.. ... ..+..++..+...|...|+.++|.++++...+.. ..+...+..+...+.
T Consensus       144 ~~~la~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~  220 (252)
T 2ho1_A          144 FENLGLVSLQMKKPAQAKEYFEKSL-RLN-RNQPSVALEMADLLYKEREYVPARQYYDLFAQGG-GQNARSLLLGIRLAK  220 (252)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH-HHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-CCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH-hcC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHH
Confidence            8889999999999999999999988 432 2356788999999999999999999999987653 346778889999999


Q ss_pred             hcCCHHHHHHHHHHHHhccCCCChHHH
Q 013497          184 ETGRVEKVYQYLQKLRSTVRCVNEETG  210 (442)
Q Consensus       184 ~~g~~~~a~~ll~~m~~~~~~p~~~t~  210 (442)
                      +.|+.++|.++++++.+.  .|+...+
T Consensus       221 ~~g~~~~A~~~~~~~~~~--~p~~~~~  245 (252)
T 2ho1_A          221 VFEDRDTAASYGLQLKRL--YPGSLEY  245 (252)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CTTSHHH
T ss_pred             HccCHHHHHHHHHHHHHH--CCCCHHH
Confidence            999999999999999775  4554433

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=98.97  E-value=6.5e-08  Score=87.66  Aligned_cols=225  Identities=9%  Similarity=0.010  Sum_probs=170.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC--CC--
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI--PN--  100 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~--p~--  100 (442)
                      .|..+-..+.+.|++++|+.+|+++.+..  .+...|..+-.++...+        ++++|.+.|+...+....  |+  
T Consensus         7 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~--------~~~~A~~~~~~a~~~~~~~~~~~~   76 (258)
T 3uq3_A            7 KEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKG--------EYETAISTLNDAVEQGREMRADYK   76 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHTTCCHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcc--------cHHHHHHHHHHHHHhCcccccchH
Confidence            78888899999999999999999988776  77788888888888888        899999999998764321  22  


Q ss_pred             --HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 013497          101 --EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAAL  178 (442)
Q Consensus       101 --~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~l  178 (442)
                        ..+|..+...|...|++++|...|++.. ..  .|+       -..+.+.|++++|.+.++.+.... +.+...|..+
T Consensus        77 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~-~~--~~~-------~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~  145 (258)
T 3uq3_A           77 VISKSFARIGNAYHKLGDLKKTIEYYQKSL-TE--HRT-------ADILTKLRNAEKELKKAEAEAYVN-PEKAEEARLE  145 (258)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CCC-------HHHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcccHHHHHHHHHHHH-hc--Cch-------hHHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHH
Confidence              5889999999999999999999999998 43  455       345777899999999999988753 2245678888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCccccccceEEee
Q 013497          179 LKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKR  258 (442)
Q Consensus       179 i~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~  258 (442)
                      ...+...|++++|...+++..... ..++.++..+...+  ...       +...+|+..+..                 
T Consensus       146 ~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~--~~~-------~~~~~A~~~~~~-----------------  198 (258)
T 3uq3_A          146 GKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAAL--AKL-------MSFPEAIADCNK-----------------  198 (258)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH--HHT-------TCHHHHHHHHHH-----------------
T ss_pred             HHHHHHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHH--HHh-------CCHHHHHHHHHH-----------------
Confidence            888999999999999999987653 23456667776666  444       334444443210                 


Q ss_pred             eccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHc
Q 013497          259 GSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKN  314 (442)
Q Consensus       259 ~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~  314 (442)
                       .+                .+.|.+...+..+-..+...|+.++|++.|++.++..
T Consensus       199 -al----------------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  237 (258)
T 3uq3_A          199 -AI----------------EKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKD  237 (258)
T ss_dssp             -HH----------------HHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             -HH----------------HhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC
Confidence             00                0112234556666677888899999999999887654

>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=98.96  E-value=1.5e-07  Score=88.57  Aligned_cols=242  Identities=7%  Similarity=-0.095  Sum_probs=176.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+..+...+...|++++|+++|+++.+..- .+...+..+...+...+        ++++|..+|+++.+... .+..+|
T Consensus        24 ~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~~~~~~~~~~~--------~~~~A~~~~~~~~~~~~-~~~~~~   93 (330)
T 3hym_B           24 VVVSLAERHYYNCDFKMCYKLTSVVMEKDP-FHASCLPVHIGTLVELN--------KANELFYLSHKLVDLYP-SNPVSW   93 (330)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTTTHHHHHHHHHHHT--------CHHHHHHHHHHHHHHCT-TSTHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CChhhHHHHHHHHHHhh--------hHHHHHHHHHHHHHhCc-CCHHHH
Confidence            677788888899999999999999876532 23344555556666666        89999999999987542 367788


Q ss_pred             HHHHHHHHhcC-CHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 013497          105 TSVARLAASKN-DGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVS  182 (442)
Q Consensus       105 ~~li~~~~~~g-~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~  182 (442)
                      ..+...+...| ++++|...|++.. ..  .| +...|..+...|...|++++|.+.++......-. +...+..+...|
T Consensus        94 ~~l~~~~~~~~~~~~~A~~~~~~a~-~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~  169 (330)
T 3hym_B           94 FAVGCYYLMVGHKNEHARRYLSKAT-TL--EKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEY  169 (330)
T ss_dssp             HHHHHHHHHSCSCHHHHHHHHHHHH-TT--CTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHH-Hh--CCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHH
Confidence            99999999999 9999999999988 43  34 4678999999999999999999999999876422 456677799999


Q ss_pred             HhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCccccccceEEeeeccC
Q 013497          183 AETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVD  262 (442)
Q Consensus       183 ~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~~~~~  262 (442)
                      ...|++++|...+++..... ..+...+..+...+  ...|...-....+++++....                   ...
T Consensus       170 ~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~--~~~~~~~~A~~~~~~a~~~~~-------------------~~~  227 (330)
T 3hym_B          170 GLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVA--FQNGEWKTAEKWFLDALEKIK-------------------AIG  227 (330)
T ss_dssp             HHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHH--HHTTCHHHHHHHHHHHHHHHT-------------------TTS
T ss_pred             HHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHH--HHcccHHHHHHHHHHHHHHhh-------------------hcc
Confidence            99999999999999987653 23456667776666  444322222233333333211                   000


Q ss_pred             CCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcC
Q 013497          263 ESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNA  315 (442)
Q Consensus       263 ~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~  315 (442)
                      ....             .+.....+..+-..+...|+.++|++.|++.++..+
T Consensus       228 ~~~~-------------~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  267 (330)
T 3hym_B          228 NEVT-------------VDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIP  267 (330)
T ss_dssp             CSCT-------------TTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             cccc-------------ccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCc
Confidence            0000             011335666777778889999999999999998654

>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=98.96  E-value=1.8e-07  Score=88.05  Aligned_cols=235  Identities=6%  Similarity=-0.062  Sum_probs=173.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+..+...+.+.|+.++|..+|+++.+..- .+...|..+-..+...+.       .+++|.+.|+...+... .+..+|
T Consensus        58 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~-------~~~~A~~~~~~a~~~~~-~~~~~~  128 (330)
T 3hym_B           58 CLPVHIGTLVELNKANELFYLSHKLVDLYP-SNPVSWFAVGCYYLMVGH-------KNEHARRYLSKATTLEK-TYGPAW  128 (330)
T ss_dssp             THHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TSTHHHHHHHHHHHHSCS-------CHHHHHHHHHHHHTTCT-TCTHHH
T ss_pred             hHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhhh-------hHHHHHHHHHHHHHhCC-ccHHHH
Confidence            667788888999999999999999886532 244566666555444430       58999999999987643 356789


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE  184 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~  184 (442)
                      ..+...|...|++++|...|++.. ... ..+..++..+...|...|++++|.+.++...... +.+...+..+...+..
T Consensus       129 ~~l~~~~~~~~~~~~A~~~~~~a~-~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~  205 (330)
T 3hym_B          129 IAYGHSFAVESEHDQAMAAYFTAA-QLM-KGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQ  205 (330)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHH-HHT-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHH-Hhc-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH
Confidence            999999999999999999999988 432 2345778889999999999999999999998764 3367889999999999


Q ss_pred             cCCHHHHHHHHHHHHhccC--------CCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCccccccceEE
Q 013497          185 TGRVEKVYQYLQKLRSTVR--------CVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVV  256 (442)
Q Consensus       185 ~g~~~~a~~ll~~m~~~~~--------~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v  256 (442)
                      .|++++|...+++.....-        .....++..+...+  ...       +...+|...+..               
T Consensus       206 ~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~--~~~-------g~~~~A~~~~~~---------------  261 (330)
T 3hym_B          206 NGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVC--RKL-------KKYAEALDYHRQ---------------  261 (330)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHH--HHT-------TCHHHHHHHHHH---------------
T ss_pred             cccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHH--HHh-------cCHHHHHHHHHH---------------
Confidence            9999999999999876421        22345777777777  444       334444432210               


Q ss_pred             eeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHc
Q 013497          257 KRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKN  314 (442)
Q Consensus       257 ~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~  314 (442)
                         .+.                +.|.+...+..+-..+...|+.++|.+.|++.++..
T Consensus       262 ---a~~----------------~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  300 (330)
T 3hym_B          262 ---ALV----------------LIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR  300 (330)
T ss_dssp             ---HHH----------------HSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC
T ss_pred             ---HHh----------------hCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC
Confidence               000                011134456666677888999999999999877643

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=98.94  E-value=3.4e-08  Score=99.37  Aligned_cols=235  Identities=7%  Similarity=-0.050  Sum_probs=180.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+...+.+.|++++|..+|+++.+..  |+..+|..+..++...+        ++++|.+.|+.+..... .+..+|
T Consensus       239 ~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~--------~~~~A~~~~~~~~~~~~-~~~~~~  307 (514)
T 2gw1_A          239 SLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRN--------DSTEYYNYFDKALKLDS-NNSSVY  307 (514)
T ss_dssp             HHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSS--------CCTTGGGHHHHHHTTCT-TCTHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCC--------CHHHHHHHHHHHhhcCc-CCHHHH
Confidence            88889999999999999999999988764  34777777777888888        89999999999887643 367789


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE  184 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~  184 (442)
                      ..+...|...|++++|...|++.. ... ..+..++..+...|...|++++|..+++.+.... +.+..+|..+...+.+
T Consensus       308 ~~l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~  384 (514)
T 2gw1_A          308 YHRGQMNFILQNYDQAGKDFDKAK-ELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTD  384 (514)
T ss_dssp             HHHHHHHHHTTCTTHHHHHHHHHH-HTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHH-HhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHH
Confidence            999999999999999999999988 432 3356788999999999999999999999988753 2256788899999999


Q ss_pred             cCCHHHHHHHHHHHHhccC-CCC----hHHHHHHHHHhcccc---CCCcccchhhHHHHHHhcCCcccCCccccccceEE
Q 013497          185 TGRVEKVYQYLQKLRSTVR-CVN----EETGKIIEDWFSGQK---VNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVV  256 (442)
Q Consensus       185 ~g~~~~a~~ll~~m~~~~~-~p~----~~t~~~li~~~~~~~---~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v  256 (442)
                      .|++++|...++++....- .++    ...+..+...+  ..   .       +...+|...+..               
T Consensus       385 ~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~-------~~~~~A~~~~~~---------------  440 (514)
T 2gw1_A          385 KNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLL--TRNPTV-------ENFIEATNLLEK---------------  440 (514)
T ss_dssp             TTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHH--HTSCCT-------THHHHHHHHHHH---------------
T ss_pred             CCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHH--hhhhhc-------CCHHHHHHHHHH---------------
Confidence            9999999999999876421 121    22666666666  44   3       455555543220               


Q ss_pred             eeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcCC
Q 013497          257 KRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNAN  316 (442)
Q Consensus       257 ~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~~  316 (442)
                         .+                .+.|.+...+..+...+...|+.++|.+.|++.++..+.
T Consensus       441 ---a~----------------~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  481 (514)
T 2gw1_A          441 ---AS----------------KLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLART  481 (514)
T ss_dssp             ---HH----------------HHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS
T ss_pred             ---HH----------------HhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhccc
Confidence               00                011223455666777788899999999999999886543

>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=98.94  E-value=7.2e-08  Score=92.65  Aligned_cols=181  Identities=10%  Similarity=-0.099  Sum_probs=144.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+...+.+.|++++|+..|+++.+.. +.+..++..+..++...|        ++++|.+.|+.+........ ..+
T Consensus       100 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~~~~~~~~~~-~~~  169 (368)
T 1fch_A          100 AWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES--------LQRQACEILRDWLRYTPAYA-HLV  169 (368)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHTSTTTG-GGC
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHhCcCcH-HHH
Confidence            88899999999999999999999988664 346778888888888888        89999999999988653322 222


Q ss_pred             HH---------------HHHHHHhcCCHHHHHHHHHHhHhhCCCCCC---cccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 013497          105 TS---------------VARLAASKNDGDYAFVLIKRMNNEFNVVPR---LRTYDPALFCFCENLEAEKAYEVEEHMGLM  166 (442)
Q Consensus       105 ~~---------------li~~~~~~g~~~~A~~~~~~m~~~~g~~p~---~~ty~~li~~~~~~g~~~~A~~l~~~M~~~  166 (442)
                      ..               .+..+...|++++|...|+++. ..  .|+   ..++..+...|.+.|++++|...|++....
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~-~~--~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  246 (368)
T 1fch_A          170 TPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAV-RL--DPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV  246 (368)
T ss_dssp             C---------------CTTHHHHHHHHHHHHHHHHHHHH-HH--STTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHH-Hh--CcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            11               2444458999999999999998 43  444   678999999999999999999999998875


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccC
Q 013497          167 GLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKV  222 (442)
Q Consensus       167 g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~  222 (442)
                      . +.+..+|..+...+.+.|++++|...|++..... ..+...+..+...+  ...
T Consensus       247 ~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~--~~~  298 (368)
T 1fch_A          247 R-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISC--INL  298 (368)
T ss_dssp             C-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH--HHH
T ss_pred             C-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH--HHC
Confidence            3 2357889999999999999999999999987652 23455677777777  444

>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=98.93  E-value=3.2e-09  Score=104.31  Aligned_cols=159  Identities=9%  Similarity=0.066  Sum_probs=63.4

Q ss_pred             CCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCC
Q 013497           21 NPET-NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIP   99 (442)
Q Consensus        21 ~p~~-~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p   99 (442)
                      .||. +|..++..+.+.|++++|+..++..++.  .+++.+.+.|+.+|.+.|        +++++.++++       .|
T Consensus        58 a~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg--------~l~e~e~f~~-------~p  120 (449)
T 1b89_A           58 ADDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTN--------RLAELEEFIN-------GP  120 (449)
T ss_dssp             -------------------------------------------------------------CHHHHTTTTT-------CC
T ss_pred             CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhC--------CHHHHHHHHc-------CC
Confidence            3555 8888888888888888888877666553  455777888888887777        7777777774       36


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALL  179 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li  179 (442)
                      +..+|+.+-..|...|++++|...|..+          ..|..+..++++.|++++|.+.+..+      .+..+|..++
T Consensus       121 n~~a~~~IGd~~~~~g~yeeA~~~Y~~a----------~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~  184 (449)
T 1b89_A          121 NNAHIQQVGDRCYDEKMYDAAKLLYNNV----------SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVC  184 (449)
T ss_dssp             ----------------CTTTHHHHHHHT----------TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHh----------hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHH
Confidence            7778888888888888888888888765          25778888888888888888877777      2667777777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          180 KVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       180 ~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      .+|+..|+++.|......     +...+.-...++..|
T Consensus       185 ~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Y  217 (449)
T 1b89_A          185 FACVDGKEFRLAQMCGLH-----IVVHADELEELINYY  217 (449)
T ss_dssp             HHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHH
T ss_pred             HHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHH
Confidence            777777777777544432     223333344566666

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=98.92  E-value=9.4e-08  Score=92.08  Aligned_cols=197  Identities=8%  Similarity=-0.068  Sum_probs=147.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC------
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI------   98 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~------   98 (442)
                      .|..+...|.+.|++++|+..|+++.+.. +.+..+|..+..++...|        ++++|.++|+++.+....      
T Consensus       101 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~al~~~p~~~~~~~  171 (365)
T 4eqf_A          101 AWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNTS--------HQQDACEALKNWIKQNPKYKYLVK  171 (365)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCHHHHCC--
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccc--------cHHHHHHHHHHHHHhCccchHHHh
Confidence            89999999999999999999999988653 335788888888888888        999999999998774311      


Q ss_pred             ---CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC---CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH
Q 013497           99 ---PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP---RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQ  172 (442)
Q Consensus        99 ---p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p---~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~  172 (442)
                         ....++..+...+.+.|++++|..+|+++. ..  .|   +..+|..+...|.+.|++++|.+.|++..+.. +.+.
T Consensus       172 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al-~~--~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~  247 (365)
T 4eqf_A          172 NKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAA-HQ--NGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDY  247 (365)
T ss_dssp             -----------------CCHHHHHHHHHHHHHH-HH--SCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             hhccchHHHHHHHHHHhhhhhHHHHHHHHHHHH-Hh--CcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCH
Confidence               013344556889999999999999999998 43  34   47789999999999999999999999988753 3367


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC-hHHHHHHHHHhccccCCCcccchhhHHHHHHh
Q 013497          173 QEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVN-EETGKIIEDWFSGQKVNGVSCDLGLVKNAVLK  238 (442)
Q Consensus       173 ~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~  238 (442)
                      .+|..+...|.+.|++++|...|++....  .|+ ..++..+...+  ...|...-....+++++..
T Consensus       248 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~--~~~g~~~~A~~~~~~al~~  310 (365)
T 4eqf_A          248 SLWNRLGATLANGDRSEEAVEAYTRALEI--QPGFIRSRYNLGISC--INLGAYREAVSNFLTALSL  310 (365)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH--HHHTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCchHHHHHHHHHH--HHCCCHHHHHHHHHHHHHh
Confidence            89999999999999999999999998775  344 56777777777  5554333333444455443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=98.92  E-value=8.7e-08  Score=86.18  Aligned_cols=198  Identities=8%  Similarity=-0.015  Sum_probs=131.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+-..+.+.|++++|..+|+++.+.. +.+...+..+...+...+        ++++|.+.|++..+.. +.+..++
T Consensus        25 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~--------~~~~A~~~~~~~~~~~-~~~~~~~   94 (243)
T 2q7f_A           25 TGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVN--------ELERALAFYDKALELD-SSAATAY   94 (243)
T ss_dssp             -----------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHcC-CcchHHH
Confidence            67777788888899999999999887643 235667777666777777        8999999998887654 2367888


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE  184 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~  184 (442)
                      ..+...|...|++++|.+.+++.. ... ..+...+..+...|.+.|++++|.++++++.... ..+...+..+...+.+
T Consensus        95 ~~la~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  171 (243)
T 2q7f_A           95 YGAGNVYVVKEMYKEAKDMFEKAL-RAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLAN  171 (243)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-HHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHH-HhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHH
Confidence            888888999999999999998887 432 3356678888888889999999999998887653 2357778888888889


Q ss_pred             cCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHh
Q 013497          185 TGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLK  238 (442)
Q Consensus       185 ~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~  238 (442)
                      .|++++|...|++..... ..+..++..+...+  ...|...-....+++++..
T Consensus       172 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~--~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          172 EGMLDEALSQFAAVTEQD-PGHADAFYNAGVTY--AYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHH--HHTTCTTHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHH--HHccCHHHHHHHHHHHHcc
Confidence            999999999998887652 23455666666666  4443333333444444443

>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=98.91  E-value=1.6e-07  Score=80.24  Aligned_cols=164  Identities=14%  Similarity=0.046  Sum_probs=138.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+...+.+.|++++|...|+++.+.. +.+...+..+...+...+        ++++|.+.|+.+.+.. +.+..++
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~--------~~~~A~~~~~~~~~~~-~~~~~~~   79 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTG--------AVDRGTELLERSLADA-PDNVKVA   79 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcC--------CHHHHHHHHHHHHhcC-CCCHHHH
Confidence            78888889999999999999999887543 246677777777887787        8999999999988763 3467889


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE  184 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~  184 (442)
                      ..+...+...|++++|.+.+++.. ... ..+...+..+...|...|++++|.+.++...... ..+...+..+...+..
T Consensus        80 ~~~a~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~  156 (186)
T 3as5_A           80 TVLGLTYVQVQKYDLAVPLLIKVA-EAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQ  156 (186)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHH-hcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHH
Confidence            999999999999999999999987 432 3466788889999999999999999999988764 3367889999999999


Q ss_pred             cCCHHHHHHHHHHHHhc
Q 013497          185 TGRVEKVYQYLQKLRST  201 (442)
Q Consensus       185 ~g~~~~a~~ll~~m~~~  201 (442)
                      .|+.++|...+++..+.
T Consensus       157 ~~~~~~A~~~~~~~~~~  173 (186)
T 3as5_A          157 MGRHEEALPHFKKANEL  173 (186)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHc
Confidence            99999999999988654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=98.89  E-value=3.2e-07  Score=82.06  Aligned_cols=188  Identities=12%  Similarity=-0.002  Sum_probs=147.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+..+-..+.+.|++++|+..|++..+.. +-+...|..+-.++...|        ++++|...|++..+... -+..++
T Consensus         7 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g--------~~~~A~~~~~~al~~~P-~~~~a~   76 (217)
T 2pl2_A            7 NPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLG--------LVNPALENGKTLVARTP-RYLGGY   76 (217)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCT-TCHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHhCC-CcHHHH
Confidence            77778888999999999999999988653 235666766666788887        89999999999887642 367888


Q ss_pred             HHHHHHHHhc-----------CCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH
Q 013497          105 TSVARLAASK-----------NDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQ  172 (442)
Q Consensus       105 ~~li~~~~~~-----------g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~  172 (442)
                      ..+-..|.+.           |++++|...|++.. +.  .|+ ...|..+-..|...|+.++|...|++..+..  .+.
T Consensus        77 ~~lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al-~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~  151 (217)
T 2pl2_A           77 MVLSEAYVALYRQAEDRERGKGYLEQALSVLKDAE-RV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTP  151 (217)
T ss_dssp             HHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCH
T ss_pred             HHHHHHHHHhhhhhhhhcccccCHHHHHHHHHHHH-Hh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cch
Confidence            9999999999           99999999999988 43  454 5678888899999999999999999998887  688


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC-hHHHHHHHHHhccccCCCcccchhhHHHHHHh
Q 013497          173 QEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVN-EETGKIIEDWFSGQKVNGVSCDLGLVKNAVLK  238 (442)
Q Consensus       173 ~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~  238 (442)
                      ..+..+-..|...|++++|...|++..+.  .|+ +..+..+...+  ...       +...+|+..
T Consensus       152 ~~~~~la~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~la~~~--~~~-------g~~~~A~~~  207 (217)
T 2pl2_A          152 EIRSALAELYLSMGRLDEALAQYAKALEQ--APKDLDLRVRYASAL--LLK-------GKAEEAARA  207 (217)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHH--TC-----------------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHH--HHc-------cCHHHHHHH
Confidence            99999999999999999999999998765  454 45666666666  444       455555544

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.88  E-value=9.8e-07  Score=83.80  Aligned_cols=178  Identities=10%  Similarity=0.003  Sum_probs=143.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+..+-..+.+.|++++|+..|+++.+.. +.+..+|..+-..+...+        ++++|.+.|+.+.+.. +-+..+|
T Consensus         5 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~--------~~~~A~~~~~~~~~~~-~~~~~~~   74 (359)
T 3ieg_A            5 KHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMG--------KSKAALPDLTKVIALK-MDFTAAR   74 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcc--------CHHHHHHHHHHHHHhC-CCcchHH
Confidence            67777888999999999999999988653 235667777777777777        8999999999988764 2367899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC----CcccHHHH------------HHHHHHcCCHHHHHHHHHHHHHCCC
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVP----RLRTYDPA------------LFCFCENLEAEKAYEVEEHMGLMGL  168 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p----~~~ty~~l------------i~~~~~~g~~~~A~~l~~~M~~~g~  168 (442)
                      ..+...|...|++++|...|++.. .  +.|    +...+..+            ...+...|++++|.++++.+.... 
T Consensus        75 ~~l~~~~~~~~~~~~A~~~~~~~~-~--~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-  150 (359)
T 3ieg_A           75 LQRGHLLLKQGKLDEAEDDFKKVL-K--SNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-  150 (359)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHH-T--SCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHH-h--cCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-
Confidence            999999999999999999999988 4  355    33344444            478899999999999999998753 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          169 SLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       169 ~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      +.+...+..+...+...|++++|...+++..... ..++.++..+...+
T Consensus       151 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~  198 (359)
T 3ieg_A          151 VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLY  198 (359)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            3467888999999999999999999999998752 33456666676666

>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=98.87  E-value=5.4e-07  Score=84.63  Aligned_cols=200  Identities=9%  Similarity=-0.025  Sum_probs=151.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-------------------------C------
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSA-------------------------T------   73 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~-------------------------~------   73 (442)
                      .|..+...+.+.|++++|...|+++.+.. +.+..++..+...+...+                         .      
T Consensus        57 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  135 (327)
T 3cv0_A           57 AWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVD  135 (327)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTTTC----------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHH
Confidence            77778888888888888888888877653 235566666655555443                         0      


Q ss_pred             --------C--CCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHH
Q 013497           74 --------D--PSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPA  143 (442)
Q Consensus        74 --------~--~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~l  143 (442)
                              .  .+...|++++|.++|+++.+... .+..++..+...|.+.|++++|...+++.. ... ..+..+|..+
T Consensus       136 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~~~l  212 (327)
T 3cv0_A          136 IDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNP-NDAQLHASLGVLYNLSNNYDSAAANLRRAV-ELR-PDDAQLWNKL  212 (327)
T ss_dssp             ----------CCTTSHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHH
T ss_pred             HHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHH-HhC-CCcHHHHHHH
Confidence                    2  26677889999999998877643 378899999999999999999999999988 432 3356789999


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCC-----------ChHHHHH
Q 013497          144 LFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCV-----------NEETGKI  212 (442)
Q Consensus       144 i~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p-----------~~~t~~~  212 (442)
                      ...|...|++++|.+.+++..+.. +.+..+|..+...+.+.|++++|.+.|++.....-..           +..++..
T Consensus       213 ~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  291 (327)
T 3cv0_A          213 GATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDF  291 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHH
Confidence            999999999999999999987753 2357889999999999999999999999987653221           3556666


Q ss_pred             HHHHhccccCCCcccchhhHHHHHHh
Q 013497          213 IEDWFSGQKVNGVSCDLGLVKNAVLK  238 (442)
Q Consensus       213 li~~~~~~~~~~~~~~~~~~~~a~~~  238 (442)
                      +...+  ...       +..++|...
T Consensus       292 l~~~~--~~~-------g~~~~A~~~  308 (327)
T 3cv0_A          292 FRMLL--NVM-------NRPDLVELT  308 (327)
T ss_dssp             HHHHH--HHT-------TCHHHHHHH
T ss_pred             HHHHH--Hhc-------CCHHHHHHH
Confidence            66666  444       445555554

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.85  E-value=2.9e-07  Score=84.32  Aligned_cols=227  Identities=7%  Similarity=-0.087  Sum_probs=161.1

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 013497           34 TKSKDLTTAISLYESAHSQNLRL---SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARL  110 (442)
Q Consensus        34 ~k~g~~~~A~~lf~~m~~~g~~p---~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~  110 (442)
                      ...|++++|+..|+++.+.....   +..+|..+-..+...+        ++++|.+.|++..+... .+..+|..+...
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--------~~~~A~~~~~~al~~~~-~~~~~~~~la~~   86 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLG--------LRALARNDFSQALAIRP-DMPEVFNYLGIY   86 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCC-CCHHHHHHHHHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcc--------cHHHHHHHHHHHHHcCC-CcHHHHHHHHHH
Confidence            34578999999999998764211   3456666666777777        89999999999887643 368899999999


Q ss_pred             HHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 013497          111 AASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEK  190 (442)
Q Consensus       111 ~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~  190 (442)
                      |...|++++|...|++.. ... +.+..+|..+...|.+.|++++|.+.|+.+.+.  .|+...+..++..+...|+.++
T Consensus        87 ~~~~~~~~~A~~~~~~al-~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~  162 (275)
T 1xnf_A           87 LTQAGNFDAAYEAFDSVL-ELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQ  162 (275)
T ss_dssp             HHHTTCHHHHHHHHHHHH-HHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHH
T ss_pred             HHHccCHHHHHHHHHHHH-hcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHH
Confidence            999999999999999998 431 235788999999999999999999999999875  4555555666666677899999


Q ss_pred             HHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCccccccceEEeeeccCCCCCCCcC
Q 013497          191 VYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCSC  270 (442)
Q Consensus       191 a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~~~~~~~g~c~~c  270 (442)
                      |...+.+..... .++...+. +...+  ...+.       ..+|+..+..                  .+.   ..+  
T Consensus       163 A~~~~~~~~~~~-~~~~~~~~-~~~~~--~~~~~-------~~~a~~~~~~------------------~~~---~~~--  208 (275)
T 1xnf_A          163 AKEVLKQHFEKS-DKEQWGWN-IVEFY--LGNIS-------EQTLMERLKA------------------DAT---DNT--  208 (275)
T ss_dssp             HHHHHHHHHHHS-CCCSTHHH-HHHHH--TTSSC-------HHHHHHHHHH------------------HCC---SHH--
T ss_pred             HHHHHHHHHhcC-CcchHHHH-HHHHH--HHhcC-------HHHHHHHHHH------------------Hhc---ccc--
Confidence            999998776642 33444444 33334  22211       1233322110                  000   000  


Q ss_pred             CCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHc
Q 013497          271 GDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKN  314 (442)
Q Consensus       271 ~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~  314 (442)
                             ...+.+...+..+-..+...|+.++|...|++.+...
T Consensus       209 -------~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          209 -------SLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             -------HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             -------cccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence                   0111235667777777888999999999999998754

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=98.83  E-value=3.5e-07  Score=82.18  Aligned_cols=164  Identities=11%  Similarity=0.078  Sum_probs=140.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+..+...+.+.|++++|+..|+++.+.. +.+..++..+..++...+        ++++|.++|+++.+.. +.+..++
T Consensus        59 ~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~--------~~~~A~~~~~~~~~~~-~~~~~~~  128 (243)
T 2q7f_A           59 PYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYVVKE--------MYKEAKDMFEKALRAG-MENGDLF  128 (243)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHT-CCSHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHhc--------cHHHHHHHHHHHHHhC-CCCHHHH
Confidence            88889999999999999999999988653 236677777777888887        8999999999988764 3467889


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE  184 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~  184 (442)
                      ..+...+.+.|++++|...+++.. ... ..+...+..+...|.+.|+.++|.+.++...... ..+..+|..+...|.+
T Consensus       129 ~~~a~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~  205 (243)
T 2q7f_A          129 YMLGTVLVKLEQPKLALPYLQRAV-ELN-ENDTEARFQFGMCLANEGMLDEALSQFAAVTEQD-PGHADAFYNAGVTYAY  205 (243)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHH-HhC-CccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHH
Confidence            999999999999999999999987 432 3356788899999999999999999999987753 2357789999999999


Q ss_pred             cCCHHHHHHHHHHHHhc
Q 013497          185 TGRVEKVYQYLQKLRST  201 (442)
Q Consensus       185 ~g~~~~a~~ll~~m~~~  201 (442)
                      .|+.++|.+.+++..+.
T Consensus       206 ~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          206 KENREKALEMLDKAIDI  222 (243)
T ss_dssp             TTCTTHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHcc
Confidence            99999999999998764

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=98.81  E-value=2.3e-06  Score=81.16  Aligned_cols=230  Identities=10%  Similarity=0.025  Sum_probs=163.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC----CHHHHHHH------------HHHHHhcCCCCCCchhhHHHHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRL----SLHHFNAL------------LYLCSDSATDPSSKDSALRHGFRV   88 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p----~~~ty~~l------------l~~~~~~~~~~~~~~~~~~~a~~l   88 (442)
                      .|..+-..+.+.|++++|...|+++.+.  .|    +...+..+            -..+...+        ++++|.++
T Consensus        73 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--------~~~~A~~~  142 (359)
T 3ieg_A           73 ARLQRGHLLLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGA--------DYTAAITF  142 (359)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--------CHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHcc--------CHHHHHHH
Confidence            7888888888889999999988888764  34    33333333            23455555        89999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 013497           89 FDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGL  168 (442)
Q Consensus        89 ~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~  168 (442)
                      |+++.+.. +.+..++..+...+...|++++|...+++.. ... ..+..+|..+...|...|++++|.+.++...+..-
T Consensus       143 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~  219 (359)
T 3ieg_A          143 LDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAAS-KLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ  219 (359)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-TTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHH-HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc
Confidence            99988764 3478899999999999999999999999998 432 34668899999999999999999999999886532


Q ss_pred             CCCHHHHH------------HHHHHHHhcCCHHHHHHHHHHHHhccCCCChHH-----HHHHHHHhccccCCCcccchhh
Q 013497          169 SLEQQEIA------------ALLKVSAETGRVEKVYQYLQKLRSTVRCVNEET-----GKIIEDWFSGQKVNGVSCDLGL  231 (442)
Q Consensus       169 ~p~~~ty~------------~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t-----~~~li~~~~~~~~~~~~~~~~~  231 (442)
                       .+...+.            .+...+.+.|++++|...+++.....  |+...     +..+...+  ...       +.
T Consensus       220 -~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~--~~~-------~~  287 (359)
T 3ieg_A          220 -DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSVAEYTVRSKERICHCF--SKD-------EK  287 (359)
T ss_dssp             -TCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHH--HHT-------TC
T ss_pred             -cchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHH--HHc-------cC
Confidence             2333333            23556889999999999999988753  44322     22233444  333       34


Q ss_pred             HHHHHHhcCCcccCCccccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHH
Q 013497          232 VKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWL  311 (442)
Q Consensus       232 ~~~a~~~~~~~~~~~~~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~  311 (442)
                      ..+|+..+..                  .+                .+.|.+...+..+-..+...|+.++|.+.|++.+
T Consensus       288 ~~~A~~~~~~------------------~~----------------~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~  333 (359)
T 3ieg_A          288 PVEAIRICSE------------------VL----------------QMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQ  333 (359)
T ss_dssp             HHHHHHHHHH------------------HH----------------HHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH------------------HH----------------HhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4444443210                  00                0112244567777777888999999999999998


Q ss_pred             HH
Q 013497          312 EK  313 (442)
Q Consensus       312 ~~  313 (442)
                      +.
T Consensus       334 ~~  335 (359)
T 3ieg_A          334 EH  335 (359)
T ss_dssp             TT
T ss_pred             hc
Confidence            74

>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=98.76  E-value=6.9e-06  Score=75.56  Aligned_cols=169  Identities=12%  Similarity=0.040  Sum_probs=138.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCCCCCchhhHHHHHHHHHHHHhCCCCCC
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSD----SATDPSSKDSALRHGFRVFDQMLSNNVIPN  100 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~----~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~  100 (442)
                      ++..+-..|.+.|++++|+..|.+..+.+   +..++..|-..+..    .+        ++++|.+.|++..+.+   +
T Consensus         8 a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~--------~~~~A~~~~~~a~~~~---~   73 (273)
T 1ouv_A            8 ELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEK--------NLKKAASFYAKACDLN---Y   73 (273)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC--------CHHHHHHHHHHHHHTT---C
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCC--------CHHHHHHHHHHHHHCC---C
Confidence            66677778889999999999999988843   34566666556666    55        8999999999998876   7


Q ss_pred             HHHHHHHHHHHHh----cCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCH
Q 013497          101 EASVTSVARLAAS----KNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCE----NLEAEKAYEVEEHMGLMGLSLEQ  172 (442)
Q Consensus       101 ~~ty~~li~~~~~----~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~----~g~~~~A~~l~~~M~~~g~~p~~  172 (442)
                      ..++..+-..|..    .+++++|...|++.. ..+   +...+..+-..|..    .++.++|.+.|+...+.+   +.
T Consensus        74 ~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~-~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~  146 (273)
T 1ouv_A           74 SNGCHLLGNLYYSGQGVSQNTNKALQYYSKAC-DLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DG  146 (273)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH-HTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             HHHHHHHHHHHhCCCCcccCHHHHHHHHHHHH-HcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cH
Confidence            7888899999999    999999999999988 654   67788888899999    999999999999998876   56


Q ss_pred             HHHHHHHHHHHh----cCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          173 QEIAALLKVSAE----TGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       173 ~ty~~li~~~~~----~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      ..+..+-..|..    .++.++|...|++..+.+   ++..+..+-..|
T Consensus       147 ~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~  192 (273)
T 1ouv_A          147 DGCTILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMY  192 (273)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHH
Confidence            777888888888    999999999999988764   344555555555

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=98.71  E-value=5.5e-07  Score=80.49  Aligned_cols=161  Identities=9%  Similarity=-0.073  Sum_probs=122.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-----------CCCCCCchhhHHHHHHHHHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDS-----------ATDPSSKDSALRHGFRVFDQML   93 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~-----------~~~~~~~~~~~~~a~~l~~~M~   93 (442)
                      .|..+-..+.+.|++++|+..|++..+.. +-+...+..+-.++...           |        ++++|.+.|++..
T Consensus        41 a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~g--------~~~~A~~~~~~al  111 (217)
T 2pl2_A           41 ALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEAYVALYRQAEDRERGKG--------YLEQALSVLKDAE  111 (217)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHTCSSHHHHHH--------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhhhhhhhhccccc--------CHHHHHHHHHHHH
Confidence            78888889999999999999999988653 23456666665666666           6        9999999999988


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH
Q 013497           94 SNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQ  173 (442)
Q Consensus        94 ~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~  173 (442)
                      +... -+..+|..+-..|...|++++|...|++.. +..  .+...+..+-..|...|++++|...|+...+.. +.+..
T Consensus       112 ~~~P-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al-~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~  186 (217)
T 2pl2_A          112 RVNP-RYAPLHLQRGLVYALLGERDKAEASLKQAL-ALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQA-PKDLD  186 (217)
T ss_dssp             HHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHH
T ss_pred             HhCc-ccHHHHHHHHHHHHHcCChHHHHHHHHHHH-hcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChH
Confidence            7543 267888999999999999999999999998 655  678889999999999999999999999998753 22577


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 013497          174 EIAALLKVSAETGRVEKVYQYLQKLR  199 (442)
Q Consensus       174 ty~~li~~~~~~g~~~~a~~ll~~m~  199 (442)
                      .+..+...+...|+.++|...|++..
T Consensus       187 ~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          187 LRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHHTC---------------
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            88889999999999999999987654

>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=98.71  E-value=2.3e-06  Score=86.52  Aligned_cols=246  Identities=8%  Similarity=-0.021  Sum_probs=174.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      +|..+-..+...|++++|+..|+++.+.  .|+..+|..+-..+...+        ++++|.+.|+...+... .+..+|
T Consensus       245 ~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~--------~~~~A~~~~~~~~~~~~-~~~~~~  313 (537)
T 3fp2_A          245 ALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKE--------NSQEFFKFFQKAVDLNP-EYPPTY  313 (537)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSS--------CCHHHHHHHHHHHHHCT-TCHHHH
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhc--------CHHHHHHHHHHHhccCC-CCHHHH
Confidence            5666777888999999999999998875  456677777766777777        89999999999887643 367889


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE  184 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~  184 (442)
                      ..+...|...|++++|...|++.. ... ..+..+|..+...|...|++++|.++++++.+.. +.+...|..+...+..
T Consensus       314 ~~l~~~~~~~~~~~~A~~~~~~a~-~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  390 (537)
T 3fp2_A          314 YHRGQMYFILQDYKNAKEDFQKAQ-SLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTD  390 (537)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHH-HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH
Confidence            999999999999999999999998 432 2246789999999999999999999999998764 3356788999999999


Q ss_pred             cCCHHHHHHHHHHHHhccCCC-----ChHHHHHHHHHhcc-ccCCCcccchhhHHHHHHhcCCcccCCccccccceEEee
Q 013497          185 TGRVEKVYQYLQKLRSTVRCV-----NEETGKIIEDWFSG-QKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKR  258 (442)
Q Consensus       185 ~g~~~~a~~ll~~m~~~~~~p-----~~~t~~~li~~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~  258 (442)
                      .|++++|...|++.....-..     ....+..+...+.. ...+...+..+...+|...+..                 
T Consensus       391 ~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~-----------------  453 (537)
T 3fp2_A          391 RGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTK-----------------  453 (537)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHH-----------------
T ss_pred             hCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHH-----------------
Confidence            999999999999986642111     11111111122200 0001111222555555554320                 


Q ss_pred             eccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcCCcc
Q 013497          259 GSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYE  318 (442)
Q Consensus       259 ~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~~~d  318 (442)
                       .                +.+.|.+...+..+-..+...|+.++|.+.|++.++..+..+
T Consensus       454 -a----------------~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~  496 (537)
T 3fp2_A          454 -A----------------CELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMD  496 (537)
T ss_dssp             -H----------------HHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CH
T ss_pred             -H----------------HHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcH
Confidence             0                111222445677777778899999999999999998665443

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.71  E-value=3.1e-06  Score=72.79  Aligned_cols=164  Identities=11%  Similarity=0.045  Sum_probs=136.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+=..|.+.|++++|++.|++..+.. +-+..+|..+-.++...+        ++++|...+........ -+...+
T Consensus         7 iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~--------~~~~a~~~~~~~~~~~~-~~~~~~   76 (184)
T 3vtx_A            7 IYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIG--------LPNDAIESLKKFVVLDT-TSAEAY   76 (184)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCC-CCHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHhcCc-hhHHHH
Confidence            78888889999999999999999987653 235667777777888888        89999999999877543 356778


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE  184 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~  184 (442)
                      ..+-..+...++++.|...+.+.. ... .-+...+..+-..|.+.|++++|.+.|++..+.. +.+..+|..+-.+|.+
T Consensus        77 ~~~~~~~~~~~~~~~a~~~~~~a~-~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~  153 (184)
T 3vtx_A           77 YILGSANFMIDEKQAAIDALQRAI-ALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEG  153 (184)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH-HhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHH
Confidence            888889999999999999999987 431 2346778888899999999999999999988754 2367789999999999


Q ss_pred             cCCHHHHHHHHHHHHhc
Q 013497          185 TGRVEKVYQYLQKLRST  201 (442)
Q Consensus       185 ~g~~~~a~~ll~~m~~~  201 (442)
                      .|+.++|.+.|++..+.
T Consensus       154 ~g~~~~A~~~~~~al~~  170 (184)
T 3vtx_A          154 KGLRDEAVKYFKKALEK  170 (184)
T ss_dssp             TTCHHHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHhC
Confidence            99999999999987653

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=98.68  E-value=9e-07  Score=79.99  Aligned_cols=165  Identities=12%  Similarity=0.027  Sum_probs=104.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCC----HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCC-
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQN--LRLS----LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNV-   97 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g--~~p~----~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~-   97 (442)
                      .|..+-..+.+.|++++|+..|.++.+..  ..|+    ..+|..+-..+...+        ++++|.+.|+...+... 
T Consensus        40 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--------~~~~A~~~~~~a~~~~~~  111 (258)
T 3uq3_A           40 YLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLG--------DLKKTIEYYQKSLTEHRT  111 (258)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcc--------cHHHHHHHHHHHHhcCch
Confidence            78888899999999999999999987532  2223    467777777777777        89999999988876321 


Q ss_pred             -----------------------C-CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCH
Q 013497           98 -----------------------I-PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEA  153 (442)
Q Consensus        98 -----------------------~-p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~  153 (442)
                                             . .+...|..+...+...|++++|...|++.. ... ..+..+|..+...|.+.|++
T Consensus       112 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~-~~~-~~~~~~~~~l~~~~~~~~~~  189 (258)
T 3uq3_A          112 ADILTKLRNAEKELKKAEAEAYVNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMI-KRA-PEDARGYSNRAAALAKLMSF  189 (258)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHhHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHH-hcC-cccHHHHHHHHHHHHHhCCH
Confidence                                   1 123445555555666666666666666655 221 22344555555666666666


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          154 EKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       154 ~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      ++|...++...+.. +.+...|..+...+.+.|+.++|...+++..+
T Consensus       190 ~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  235 (258)
T 3uq3_A          190 PEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAART  235 (258)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            66666666555432 12345555555666666666666666655543

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.68  E-value=1.4e-05  Score=73.02  Aligned_cols=241  Identities=10%  Similarity=-0.036  Sum_probs=165.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC--HHH
Q 013497           26 FLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN--EAS  103 (442)
Q Consensus        26 ~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~--~~t  103 (442)
                      +-..-..+.+.|++++|+.+|+++.+..- -+...+..+-..+...+        ++++|.+.|+...+....|+  ..+
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~~--------~~~~A~~~~~~a~~~~~~~~~~~~~   76 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEVFNKLEAKKY-NSPYIYNRRAVCYYELA--------KYDLAQKDIETYFSKVNATKAKSAD   76 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTTC-CCSTTHHHHHHHHHHTT--------CHHHHHHHHHHHHTTSCTTTCCHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHh--------hHHHHHHHHHHHHhccCchhHHHHH
Confidence            33455678899999999999999886532 23346666666777777        89999999999988442232  445


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          104 VTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       104 y~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      |..+-..|...|++++|...|++.. ... ..+..+|..+-..|...|++++|.+.|++..+.. +.+...|..+-..+.
T Consensus        77 ~~~lg~~~~~~~~~~~A~~~~~~a~-~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~  153 (272)
T 3u4t_A           77 FEYYGKILMKKGQDSLAIQQYQAAV-DRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYY  153 (272)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH-HHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHH-hcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHH
Confidence            8899999999999999999999988 431 2345789999999999999999999999987652 234566666662444


Q ss_pred             hcCCHHHHHHHHHHHHhccCCCC-hHHHHHHHHHhccccCCC---cccchhhHHHHHHhcCCcccCCccccccceEEeee
Q 013497          184 ETGRVEKVYQYLQKLRSTVRCVN-EETGKIIEDWFSGQKVNG---VSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRG  259 (442)
Q Consensus       184 ~~g~~~~a~~ll~~m~~~~~~p~-~~t~~~li~~~~~~~~~~---~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~~  259 (442)
                      ..+++++|.+.|++..+.  .|+ ...+..+...+  ...+.   ..-....+++++.....                  
T Consensus       154 ~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~--~~~~~~~~~~~A~~~~~~a~~~~~~------------------  211 (272)
T 3u4t_A          154 YNKEYVKADSSFVKVLEL--KPNIYIGYLWRARAN--AAQDPDTKQGLAKPYYEKLIEVCAP------------------  211 (272)
T ss_dssp             HTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHH--HHHSTTCSSCTTHHHHHHHHHHHGG------------------
T ss_pred             HHHHHHHHHHHHHHHHHh--CccchHHHHHHHHHH--HHcCcchhhHHHHHHHHHHHHHHhc------------------
Confidence            566999999999998875  344 34444444444  22222   22233455555554210                  


Q ss_pred             ccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcC
Q 013497          260 SVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNA  315 (442)
Q Consensus       260 ~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~  315 (442)
                             .|.       .+ .+.-...+..+-..+...|+.++|.+.|++.++..+
T Consensus       212 -------~~~-------~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p  252 (272)
T 3u4t_A          212 -------GGA-------KY-KDELIEANEYIAYYYTINRDKVKADAAWKNILALDP  252 (272)
T ss_dssp             -------GGG-------GG-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             -------ccc-------cc-hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc
Confidence                   000       00 001123455555557778999999999999987554

>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=98.65  E-value=1.2e-06  Score=70.20  Aligned_cols=127  Identities=12%  Similarity=0.063  Sum_probs=59.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHH
Q 013497           26 FLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVT  105 (442)
Q Consensus        26 ~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~  105 (442)
                      |..+...+.+.|++++|..+|+++.+.. +.+...+..+...+...+        ++++|..+|+++...+ +.+..++.
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~--------~~~~A~~~~~~~~~~~-~~~~~~~~   73 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQG--------DYDEAIEYYQKALELD-PRSAEAWY   73 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhc--------CHHHHHHHHHHHHHHC-CCchHHHH
Confidence            4444555555555555555555554332 123344444444444444        4555555555554432 12344445


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Q 013497          106 SVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMG  164 (442)
Q Consensus       106 ~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~  164 (442)
                      .+...+...|++++|...++++. ... ..+..++..+...|.+.|+.++|...++++.
T Consensus        74 ~l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  130 (136)
T 2fo7_A           74 NLGNAYYKQGDYDEAIEYYQKAL-ELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL  130 (136)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHH-HhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            55555555555555555555544 221 1123344444444445555555554444443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=98.64  E-value=4.8e-07  Score=82.91  Aligned_cols=178  Identities=11%  Similarity=-0.012  Sum_probs=138.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+-..+...|++++|+..|+++.+.. +.+..+|..+-.++...+        ++++|.+.|++..+... .+..++
T Consensus        45 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~--------~~~~A~~~~~~al~~~~-~~~~~~  114 (275)
T 1xnf_A           45 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAG--------NFDAAYEAFDSVLELDP-TYNYAH  114 (275)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCT-TCTHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHcc--------CHHHHHHHHHHHHhcCc-cccHHH
Confidence            89999999999999999999999988753 236788888888888888        89999999999987542 367899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE  184 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~  184 (442)
                      ..+...|.+.|++++|...|+++. .  +.|+...+...+..+...|+.++|...++...... .++...+ .++..+..
T Consensus       115 ~~la~~~~~~g~~~~A~~~~~~a~-~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~-~~~~~~~~  189 (275)
T 1xnf_A          115 LNRGIALYYGGRDKLAQDDLLAFY-Q--DDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS-DKEQWGW-NIVEFYLG  189 (275)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-H--HCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS-CCCSTHH-HHHHHHTT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHH-H--hCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CcchHHH-HHHHHHHH
Confidence            999999999999999999999998 4  35777666677777788899999999998776642 2333344 36777778


Q ss_pred             cCCHHHHHHHHHHHHhccCCC---ChHHHHHHHHHh
Q 013497          185 TGRVEKVYQYLQKLRSTVRCV---NEETGKIIEDWF  217 (442)
Q Consensus       185 ~g~~~~a~~ll~~m~~~~~~p---~~~t~~~li~~~  217 (442)
                      .+..++|...+.+........   +..++..+...+
T Consensus       190 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~  225 (275)
T 1xnf_A          190 NISEQTLMERLKADATDNTSLAEHLSETNFYLGKYY  225 (275)
T ss_dssp             SSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHhcccccccccccHHHHHHHHHH
Confidence            888889999888775432111   134455555555

>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=98.64  E-value=7.6e-07  Score=81.48  Aligned_cols=158  Identities=13%  Similarity=0.065  Sum_probs=119.2

Q ss_pred             HhcCCHHHHHHHHHHHHh-------CCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC------CCCC-
Q 013497           34 TKSKDLTTAISLYESAHS-------QNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN------NVIP-   99 (442)
Q Consensus        34 ~k~g~~~~A~~lf~~m~~-------~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~------g~~p-   99 (442)
                      ...|++++|+.+|++..+       ........++..+-..+...+        ++++|.+.|++..+.      +-.| 
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~al~~~~~~~~~~~~~   83 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQN--------KYKEAAHLLNDALAIREKTLGKDHPA   83 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHHTCTTCHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcc--------cHHHHHHHHHHHHHHHHHHcCCcchH
Confidence            446777777777777553       122223456666666777777        899999999988764      2223 


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhC------CC-CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC------
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEF------NV-VPRLRTYDPALFCFCENLEAEKAYEVEEHMGLM------  166 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~------g~-~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~------  166 (442)
                      ...+|..+...|...|++++|...|++.. ..      .- .....+|..+-..|...|++++|.+.+++....      
T Consensus        84 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al-~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  162 (283)
T 3edt_B           84 VAATLNNLAVLYGKRGKYKEAEPLCKRAL-EIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLG  162 (283)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHH-HHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHH-HHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcC
Confidence            45788999999999999999999999887 32      11 223577888999999999999999999998764      


Q ss_pred             CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          167 GLSL-EQQEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       167 g~~p-~~~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      +-.| ...++..+...|...|++++|..++++...
T Consensus       163 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~  197 (283)
T 3edt_B          163 PDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILT  197 (283)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            1123 356788899999999999999999998865

>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=98.63  E-value=2.9e-06  Score=85.79  Aligned_cols=187  Identities=10%  Similarity=-0.021  Sum_probs=123.5

Q ss_pred             hHHHHHHHHHHHHhCCCCCC------HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPN------EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAE  154 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~------~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~  154 (442)
                      .+++|.++|+.+.+......      ..+|..+-..+...|++++|...|++.. ..  .|+..+|..+...|...|+++
T Consensus       217 ~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~-~~--~~~~~~~~~l~~~~~~~~~~~  293 (537)
T 3fp2_A          217 LLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESI-NL--HPTPNSYIFLALTLADKENSQ  293 (537)
T ss_dssp             HHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CCCHHHHHHHHHHTCCSSCCH
T ss_pred             HHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHH-hc--CCCchHHHHHHHHHHHhcCHH
Confidence            45556666666554322110      2346666677888888899999988887 43  566777888888888889999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHH
Q 013497          155 KAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKN  234 (442)
Q Consensus       155 ~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~  234 (442)
                      +|.+.++...... +.+..+|..+...+...|++++|...|++..... .-+...+..+...+  ...       +...+
T Consensus       294 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~--~~~-------g~~~~  362 (537)
T 3fp2_A          294 EFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLL--YKQ-------GKFTE  362 (537)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHH--HHT-------TCHHH
T ss_pred             HHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH--HHc-------CCHHH
Confidence            9999888887653 2356778888888888999999999988887652 12345566666666  444       33444


Q ss_pred             HHHhcCCcccCCccccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHc
Q 013497          235 AVLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKN  314 (442)
Q Consensus       235 a~~~~~~~~~~~~~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~  314 (442)
                      |...+..                  .+                .+.|.+...+..+-..+...|+.++|...|++.++..
T Consensus       363 A~~~~~~------------------~~----------------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  408 (537)
T 3fp2_A          363 SEAFFNE------------------TK----------------LKFPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLE  408 (537)
T ss_dssp             HHHHHHH------------------HH----------------HHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHH------------------HH----------------HhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC
Confidence            4332210                  00                0011133455666666788899999999999998865


Q ss_pred             C
Q 013497          315 A  315 (442)
Q Consensus       315 ~  315 (442)
                      +
T Consensus       409 ~  409 (537)
T 3fp2_A          409 E  409 (537)
T ss_dssp             H
T ss_pred             C
Confidence            3

>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=98.62  E-value=4.1e-05  Score=70.28  Aligned_cols=170  Identities=11%  Similarity=-0.005  Sum_probs=141.9

Q ss_pred             HHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCCCCCchhhHHHHHHHHHHHHhC
Q 013497           24 TNFLINLQSCTK----SKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSD----SATDPSSKDSALRHGFRVFDQMLSN   95 (442)
Q Consensus        24 ~~~~~li~~~~k----~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~----~~~~~~~~~~~~~~a~~l~~~M~~~   95 (442)
                      ..+..+-..|..    .+++++|+..|++..+.+   +...+..|-..+..    .+        ++++|.+.|++..+.
T Consensus        39 ~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~--------~~~~A~~~~~~a~~~  107 (273)
T 1ouv_A           39 SGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQ--------NTNKALQYYSKACDL  107 (273)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCC--------CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCccc--------CHHHHHHHHHHHHHc
Confidence            467777788888    999999999999998876   56777777667776    55        899999999999887


Q ss_pred             CCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHH----cCCHHHHHHHHHHHHHCC
Q 013497           96 NVIPNEASVTSVARLAAS----KNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCE----NLEAEKAYEVEEHMGLMG  167 (442)
Q Consensus        96 g~~p~~~ty~~li~~~~~----~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~----~g~~~~A~~l~~~M~~~g  167 (442)
                      +   +..++..+-..|..    .+++++|...|++.. +.+   +...+..+-..|..    .++.++|.+.|+...+.+
T Consensus       108 ~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~-~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~  180 (273)
T 1ouv_A          108 K---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKAC-DLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLK  180 (273)
T ss_dssp             T---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHH-HTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             C---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHH-hcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            6   77889999999999    999999999999988 655   56677788888888    999999999999998875


Q ss_pred             CCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          168 LSLEQQEIAALLKVSAE----TGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       168 ~~p~~~ty~~li~~~~~----~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                         +...+..+-..|..    .++.++|...|++..+.+   ++..+..+-..|
T Consensus       181 ---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~  228 (273)
T 1ouv_A          181 ---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQ  228 (273)
T ss_dssp             ---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHH
T ss_pred             ---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHH
Confidence               56778888889999    999999999999988764   255555565666

>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=2.4e-06  Score=68.39  Aligned_cols=130  Identities=10%  Similarity=0.057  Sum_probs=108.0

Q ss_pred             HHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCccc
Q 013497           60 HFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRT  139 (442)
Q Consensus        60 ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~t  139 (442)
                      .|..+...+...+        ++++|.++|+++.+... .+..++..+...+...|++++|..+++++. ... ..+...
T Consensus         3 ~~~~l~~~~~~~~--------~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~   71 (136)
T 2fo7_A            3 AWYNLGNAYYKQG--------DYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKAL-ELD-PRSAEA   71 (136)
T ss_dssp             HHHHHHHHHHHHT--------CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHH-HHC-TTCHHH
T ss_pred             HHHHHHHHHHHcC--------cHHHHHHHHHHHHHcCC-cchhHHHHHHHHHHHhcCHHHHHHHHHHHH-HHC-CCchHH
Confidence            4555666666666        89999999999987643 467888999999999999999999999988 442 335677


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          140 YDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       140 y~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      +..+...+...|++++|.++++++.... +.+..++..+...+.+.|+.++|...+.++...
T Consensus        72 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  132 (136)
T 2fo7_A           72 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL  132 (136)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHcc
Confidence            8889999999999999999999998754 235778889999999999999999999988754

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.58  E-value=6.4e-06  Score=77.63  Aligned_cols=167  Identities=9%  Similarity=0.044  Sum_probs=123.8

Q ss_pred             CCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HH-HHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCC
Q 013497           21 NPET--NFLINLQSCTKSKDLTTAISLYESAHSQNLRLS-LH-HFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNN   96 (442)
Q Consensus        21 ~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~-~~-ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g   96 (442)
                      .|+.  .|..+...+.+.|++++|..+|+++.+.  .|+ .. .|..+...+.+.+        ++++|..+|++..+..
T Consensus        95 ~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~--------~~~~A~~~~~~a~~~~  164 (308)
T 2ond_A           95 LKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAE--------GIKSGRMIFKKAREDA  164 (308)
T ss_dssp             TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHH--------CHHHHHHHHHHHHTST
T ss_pred             CcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhc--------CHHHHHHHHHHHHhcC
Confidence            4544  7888888888899999999999988863  443 22 6777777666665        7889999999887754


Q ss_pred             CCCCHHHHHHHHHHHH-hcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCC--C
Q 013497           97 VIPNEASVTSVARLAA-SKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMG-LSL--E  171 (442)
Q Consensus        97 ~~p~~~ty~~li~~~~-~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g-~~p--~  171 (442)
                      . ++...|........ ..|+.++|..+|+... +.  .| +...|..++..+.+.|+.++|..+|+...... +.|  .
T Consensus       165 p-~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al-~~--~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~  240 (308)
T 2ond_A          165 R-TRHHVYVTAALMEYYCSKDKSVAFKIFELGL-KK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKS  240 (308)
T ss_dssp             T-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHH-HH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGC
T ss_pred             C-CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHH
Confidence            3 33444544333322 3689999999998876 32  23 45677888888888899999999999988863 455  4


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          172 QQEIAALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       172 ~~ty~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      ...|..++....+.|+.+.|..+++++.+.
T Consensus       241 ~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          241 GEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             HHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            667888888888899999999888888764

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.56  E-value=1.5e-06  Score=80.87  Aligned_cols=167  Identities=12%  Similarity=0.057  Sum_probs=129.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC------CC-CCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC--
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQ------NL-RLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN--   95 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~------g~-~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~--   95 (442)
                      .+..+-..|...|++++|+..|+++.+.      +- .....+|..+-..+...+        ++++|.+.|++..+.  
T Consensus        71 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~a~~~~~  142 (311)
T 3nf1_A           71 MLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRG--------KYKEAEPLCKRALEIRE  142 (311)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTT--------CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcC--------cHHHHHHHHHHHHHHHH
Confidence            8889999999999999999999997753      22 223456666666777777        899999999988764  


Q ss_pred             ----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhC------CCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHH
Q 013497           96 ----NVIP-NEASVTSVARLAASKNDGDYAFVLIKRMNNEF------NVVP-RLRTYDPALFCFCENLEAEKAYEVEEHM  163 (442)
Q Consensus        96 ----g~~p-~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~------g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M  163 (442)
                          +-.| ...++..+...|...|++++|.+.|++.. ..      +-.| ...++..+...|...|++++|.+.+++.
T Consensus       143 ~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~-~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  221 (311)
T 3nf1_A          143 KVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRAL-EIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEI  221 (311)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHH-HHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                2223 45678889999999999999999999987 32      1123 2357888999999999999999999988


Q ss_pred             HHC------------------------------------------------CCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 013497          164 GLM------------------------------------------------GLSLEQQEIAALLKVSAETGRVEKVYQYL  195 (442)
Q Consensus       164 ~~~------------------------------------------------g~~p~~~ty~~li~~~~~~g~~~~a~~ll  195 (442)
                      .+.                                                .-..+..+|..+...|.+.|++++|.++|
T Consensus       222 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  301 (311)
T 3nf1_A          222 LTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLE  301 (311)
T ss_dssp             HHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            752                                                11223456778888888999999999888


Q ss_pred             HHHHh
Q 013497          196 QKLRS  200 (442)
Q Consensus       196 ~~m~~  200 (442)
                      ++..+
T Consensus       302 ~~al~  306 (311)
T 3nf1_A          302 EAAMR  306 (311)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=98.56  E-value=1.2e-05  Score=75.73  Aligned_cols=179  Identities=11%  Similarity=0.018  Sum_probs=134.3

Q ss_pred             HHHHHHHHHH-------hcCCH-------HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHH
Q 013497           25 NFLINLQSCT-------KSKDL-------TTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFD   90 (442)
Q Consensus        25 ~~~~li~~~~-------k~g~~-------~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~   90 (442)
                      .|..+...+.       +.|++       ++|..+|++..+.--+-+...|..+..++...+        ++++|.++|+
T Consensus        52 ~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~--------~~~~A~~~~~  123 (308)
T 2ond_A           52 IWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRM--------KYEKVHSIYN  123 (308)
T ss_dssp             HHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTT--------CHHHHHHHHH
T ss_pred             HHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcC--------CHHHHHHHHH
Confidence            5665555554       45885       999999999887311235568888888888887        8999999999


Q ss_pred             HHHhCCCCCC-H-HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHH-HHcCCHHHHHHHHHHHHHC
Q 013497           91 QMLSNNVIPN-E-ASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCF-CENLEAEKAYEVEEHMGLM  166 (442)
Q Consensus        91 ~M~~~g~~p~-~-~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~-~~~g~~~~A~~l~~~M~~~  166 (442)
                      +..+.  .|+ . .+|..+...+.+.|++++|..+|++.. ..  .|+ ...|....... ...|+.++|..+|+...+.
T Consensus       124 ~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~-~~--~p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~  198 (308)
T 2ond_A          124 RLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAR-ED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK  198 (308)
T ss_dssp             HHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHH-TS--TTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH
T ss_pred             HHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHH-hc--CCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99874  453 3 389999999999999999999999988 43  343 33333222221 1269999999999998765


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc-CCC--ChHHHHHHHHHh
Q 013497          167 GLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTV-RCV--NEETGKIIEDWF  217 (442)
Q Consensus       167 g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~-~~p--~~~t~~~li~~~  217 (442)
                      . +-+...|..++..+.+.|+.++|..+|++..... +.|  ....|..++...
T Consensus       199 ~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~  251 (308)
T 2ond_A          199 Y-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFE  251 (308)
T ss_dssp             H-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHH
T ss_pred             C-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHH
Confidence            2 2267889999999999999999999999998863 455  345677666666

>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=98.55  E-value=1e-06  Score=80.60  Aligned_cols=167  Identities=11%  Similarity=0.056  Sum_probs=129.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC--
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQ------NLRL-SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN--   95 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~------g~~p-~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~--   95 (442)
                      ++..+-..|...|++++|+..|.++.+.      +-.| ...+|..+-.++...+        ++++|.+.|++....  
T Consensus        45 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~al~~~~  116 (283)
T 3edt_B           45 MLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRG--------KYKEAEPLCKRALEIRE  116 (283)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTT--------CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhc--------cHHHHHHHHHHHHHHHH
Confidence            8999999999999999999999997743      2222 3456666666787777        899999999987664  


Q ss_pred             ----C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhC------CCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHH
Q 013497           96 ----N-VIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEF------NVVP-RLRTYDPALFCFCENLEAEKAYEVEEHM  163 (442)
Q Consensus        96 ----g-~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~------g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M  163 (442)
                          . -+....+|..+...|...|++++|...+++.. ..      +-.| ...++..+-..|.+.|++++|.+++++.
T Consensus       117 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al-~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~  195 (283)
T 3edt_B          117 KVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRAL-EIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEI  195 (283)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHH-HHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                1 12346788899999999999999999999987 32      1123 3467889999999999999999999988


Q ss_pred             HHC------------------------------------------------CCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 013497          164 GLM------------------------------------------------GLSLEQQEIAALLKVSAETGRVEKVYQYL  195 (442)
Q Consensus       164 ~~~------------------------------------------------g~~p~~~ty~~li~~~~~~g~~~~a~~ll  195 (442)
                      ...                                                .......++..|...|...|++++|..+|
T Consensus       196 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  275 (283)
T 3edt_B          196 LTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLE  275 (283)
T ss_dssp             HHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            653                                                11122346777888888899999999998


Q ss_pred             HHHHh
Q 013497          196 QKLRS  200 (442)
Q Consensus       196 ~~m~~  200 (442)
                      ++..+
T Consensus       276 ~~al~  280 (283)
T 3edt_B          276 DCASR  280 (283)
T ss_dssp             HHHHT
T ss_pred             HHHHH
Confidence            87654

>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=98.51  E-value=5.6e-06  Score=87.48  Aligned_cols=165  Identities=10%  Similarity=0.003  Sum_probs=139.3

Q ss_pred             CCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCC
Q 013497           20 PNPET--NFLINLQSCTKSKDLTTAISLYESAHSQNLRL-SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNN   96 (442)
Q Consensus        20 ~~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p-~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g   96 (442)
                      ..|+.  .|+.|=..|.+.|++++|++.|++..+.  .| +..+|+.|=.++...|        ++++|.+.|++..+..
T Consensus         4 s~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g--------~~~eA~~~~~~Al~l~   73 (723)
T 4gyw_A            4 SCPTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQG--------KLQEALMHYKEAIRIS   73 (723)
T ss_dssp             --CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHC
T ss_pred             CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHhC
Confidence            45665  8999999999999999999999998765  33 4677777777888888        9999999999987754


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHH
Q 013497           97 VIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSL-EQQE  174 (442)
Q Consensus        97 ~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p-~~~t  174 (442)
                      . -+..+|+.+-.+|.+.|++++|++.|++.. +.  .|+ ...|+.+-..|.+.|++++|.+.|++..+..  | +...
T Consensus        74 P-~~~~a~~nLg~~l~~~g~~~~A~~~~~kAl-~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~--P~~~~a  147 (723)
T 4gyw_A           74 P-TFADAYSNMGNTLKEMQDVQGALQCYTRAI-QI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLK--PDFPDA  147 (723)
T ss_dssp             T-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHH
T ss_pred             C-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHH
Confidence            2 257899999999999999999999999987 43  454 5789999999999999999999999988753  4 5678


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          175 IAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       175 y~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      |..|...|...|++++|.+.+++..+
T Consensus       148 ~~~L~~~l~~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          148 YCNLAHCLQIVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHHTTCCTTHHHHHHHHHH
T ss_pred             HhhhhhHHHhcccHHHHHHHHHHHHH
Confidence            99999999999999999988887754

>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=98.41  E-value=3.5e-05  Score=68.63  Aligned_cols=150  Identities=11%  Similarity=-0.012  Sum_probs=120.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+-..+.+.|++++|+..|++..+..-.++...+..+-.++...+        ++++|.+.|+...+.... +..+|
T Consensus         9 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~--------~~~~A~~~~~~al~~~p~-~~~~~   79 (228)
T 4i17_A            9 QLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIK--------KYKEAADYFDIAIKKNYN-LANAY   79 (228)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHTTCS-HHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhh--------cHHHHHHHHHHHHHhCcc-hHHHH
Confidence            666777788899999999999999887654467777766655777777        899999999998876432 56788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc--------ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC---HH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL--------RTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLE---QQ  173 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~--------~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~---~~  173 (442)
                      ..+-..|...|++++|...|++.. ..  .|+.        ..|..+=..+...|++++|.+.|+...+.  .|+   ..
T Consensus        80 ~~l~~~~~~~~~~~~A~~~~~~al-~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~  154 (228)
T 4i17_A           80 IGKSAAYRDMKNNQEYIATLTEGI-KA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTD  154 (228)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-HH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHH-HH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHH
Confidence            999999999999999999999988 43  4543        34777778888999999999999998765  565   45


Q ss_pred             HHHHHHHHHHhcCCH
Q 013497          174 EIAALLKVSAETGRV  188 (442)
Q Consensus       174 ty~~li~~~~~~g~~  188 (442)
                      .|..+-..|...|..
T Consensus       155 ~~~~l~~~~~~~~~~  169 (228)
T 4i17_A          155 ALYSLGVLFYNNGAD  169 (228)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            677777777777766

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.39  E-value=1.3e-05  Score=80.62  Aligned_cols=190  Identities=7%  Similarity=-0.017  Sum_probs=151.9

Q ss_pred             HHHHHHHHHHhcCCH-HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHH
Q 013497           25 NFLINLQSCTKSKDL-TTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEAS  103 (442)
Q Consensus        25 ~~~~li~~~~k~g~~-~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~t  103 (442)
                      .|..+-..+...|++ ++|++.|++..+.. +-+...|..+-.++...+        ++++|.+.|++..+..  |+..+
T Consensus       104 ~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g--------~~~~A~~~~~~al~~~--p~~~~  172 (474)
T 4abn_A          104 ALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKG--------DVTSAHTCFSGALTHC--KNKVS  172 (474)
T ss_dssp             HHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHTTC--CCHHH
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHhhC--CCHHH
Confidence            788888889999999 99999999987653 224677887777887777        8999999999998764  77889


Q ss_pred             HHHHHHHHHhc---------CCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHc--------CCHHHHHHHHHHHHH
Q 013497          104 VTSVARLAASK---------NDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCEN--------LEAEKAYEVEEHMGL  165 (442)
Q Consensus       104 y~~li~~~~~~---------g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~--------g~~~~A~~l~~~M~~  165 (442)
                      +..+-..|...         |++++|...|++.. ..  .| +...|..+-.+|...        |++++|.+.|+...+
T Consensus       173 ~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al-~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~  249 (474)
T 4abn_A          173 LQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAV-QM--DVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEK  249 (474)
T ss_dssp             HHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHH
Confidence            99999999999         99999999999988 43  34 467888889999988        999999999999987


Q ss_pred             CCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC-hHHHHHHHHHhccccCCCcccchhhHHHHHHhc
Q 013497          166 MGLS--LEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVN-EETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKN  239 (442)
Q Consensus       166 ~g~~--p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~  239 (442)
                      ..-.  -+...|..+-.+|...|++++|.+.|++....  .|+ ...+..+...+  ...       ++..+|+...
T Consensus       250 ~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~a~~~l~~~~--~~l-------g~~~eAi~~~  315 (474)
T 4abn_A          250 VDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAAL--DPAWPEPQQREQQLL--EFL-------SRLTSLLESK  315 (474)
T ss_dssp             HCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH--HHH-------HHHHHHHHHT
T ss_pred             hCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH--HHH-------HHHHHHHHHh
Confidence            5320  37889999999999999999999999998765  344 33455555555  222       5666666653

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=98.38  E-value=2.5e-05  Score=71.21  Aligned_cols=164  Identities=9%  Similarity=-0.062  Sum_probs=127.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLS--LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEA  102 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~--~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~  102 (442)
                      .|..+-..|.+.|++++|+..|++..+..-.|+  ..+|..+-..+...+        ++++|.+.|+...+... .+..
T Consensus        39 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~--------~~~~A~~~~~~a~~~~~-~~~~  109 (272)
T 3u4t_A           39 IYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKG--------QDSLAIQQYQAAVDRDT-TRLD  109 (272)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHST-TCTH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcc--------cHHHHHHHHHHHHhcCc-ccHH
Confidence            778888899999999999999999987432222  344666666777777        89999999999887543 3567


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013497          103 SVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKV  181 (442)
Q Consensus       103 ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~  181 (442)
                      +|..+-..|...|++++|...|++.. ..  .|+ ..+|..+-..+...+++++|.+.|+...+.. +.+...+..+...
T Consensus       110 ~~~~l~~~~~~~~~~~~A~~~~~~al-~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~  185 (272)
T 3u4t_A          110 MYGQIGSYFYNKGNFPLAIQYMEKQI-RP--TTTDPKVFYELGQAYYYNKEYVKADSSFVKVLELK-PNIYIGYLWRARA  185 (272)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHGGGC-CS--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHh-hc--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHH
Confidence            89999999999999999999999987 43  454 4455555524555679999999999998753 2236777778888


Q ss_pred             HHhcCC---HHHHHHHHHHHHhc
Q 013497          182 SAETGR---VEKVYQYLQKLRST  201 (442)
Q Consensus       182 ~~~~g~---~~~a~~ll~~m~~~  201 (442)
                      +...|+   .++|...+++..+.
T Consensus       186 ~~~~~~~~~~~~A~~~~~~a~~~  208 (272)
T 3u4t_A          186 NAAQDPDTKQGLAKPYYEKLIEV  208 (272)
T ss_dssp             HHHHSTTCSSCTTHHHHHHHHHH
T ss_pred             HHHcCcchhhHHHHHHHHHHHHH
Confidence            888888   88888888887664

>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=98.34  E-value=2.6e-05  Score=66.05  Aligned_cols=149  Identities=6%  Similarity=-0.019  Sum_probs=118.3

Q ss_pred             HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcc
Q 013497           59 HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLR  138 (442)
Q Consensus        59 ~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~  138 (442)
                      ..|..+-..+...+        ++++|.+.|+++.+.. +.+..++..+...+...|++++|...+++.. ... ..+..
T Consensus         9 ~~~~~~~~~~~~~~--------~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~   77 (186)
T 3as5_A            9 VYYRDKGISHAKAG--------RYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSL-ADA-PDNVK   77 (186)
T ss_dssp             HHHHHHHHHHHHHT--------CHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHH
T ss_pred             HHHHHHHHHHHHhc--------CHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHH-hcC-CCCHH
Confidence            34444445666666        8999999999886543 3478889999999999999999999999988 432 33567


Q ss_pred             cHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhc
Q 013497          139 TYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFS  218 (442)
Q Consensus       139 ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~  218 (442)
                      .+..+...|...|++++|.+.++...... +.+...+..+...+...|++++|.+++++..... ..+...+..+...+ 
T Consensus        78 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~-  154 (186)
T 3as5_A           78 VATVLGLTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSY-  154 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHH-
Confidence            88889999999999999999999988763 3467888899999999999999999999987763 23456677777777 


Q ss_pred             cccC
Q 013497          219 GQKV  222 (442)
Q Consensus       219 ~~~~  222 (442)
                       ...
T Consensus       155 -~~~  157 (186)
T 3as5_A          155 -EQM  157 (186)
T ss_dssp             -HHT
T ss_pred             -HHc
Confidence             444

>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=98.32  E-value=0.00012  Score=71.24  Aligned_cols=182  Identities=9%  Similarity=0.022  Sum_probs=145.3

Q ss_pred             CCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhh-HHHHHHHHHHHHhCC
Q 013497           20 PNPET--NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSA-LRHGFRVFDQMLSNN   96 (442)
Q Consensus        20 ~~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~-~~~a~~l~~~M~~~g   96 (442)
                      ..|+-  .|+.+-..+.+.|++++|+..|+++.+.. +-+...|+.+-.++...+        + +++|++.|++..+..
T Consensus        92 ~~p~~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g--------~d~~eAl~~~~~al~l~  162 (382)
T 2h6f_A           92 YSDKFRDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQ--------KDLHEEMNYITAIIEEQ  162 (382)
T ss_dssp             CCHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CCHHHHHHHHHHHHHHC
T ss_pred             CChhhHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcc--------cCHHHHHHHHHHHHHHC
Confidence            44555  88888899999999999999999988653 224566777766777776        7 999999999998865


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 013497           97 VIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEI  175 (442)
Q Consensus        97 ~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty  175 (442)
                      .. +...|+.+-.++...|++++|+..|++.. ..  .| +...|..+-.++.+.|++++|++.|+.+.+.... +...|
T Consensus       163 P~-~~~a~~~~g~~~~~~g~~~eAl~~~~kal-~l--dP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P~-~~~a~  237 (382)
T 2h6f_A          163 PK-NYQVWHHRRVLVEWLRDPSQELEFIADIL-NQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVW  237 (382)
T ss_dssp             TT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHH
T ss_pred             CC-CHHHHHHHHHHHHHccCHHHHHHHHHHHH-Hh--CccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC-CHHHH
Confidence            43 78899999999999999999999999998 43  44 5678999999999999999999999999886533 67889


Q ss_pred             HHHHHHHHh-cCCHHHH-----HHHHHHHHhccCCCC-hHHHHHHHHHh
Q 013497          176 AALLKVSAE-TGRVEKV-----YQYLQKLRSTVRCVN-EETGKIIEDWF  217 (442)
Q Consensus       176 ~~li~~~~~-~g~~~~a-----~~ll~~m~~~~~~p~-~~t~~~li~~~  217 (442)
                      +.+-..+.+ .|..++|     ...+++....  .|+ ...|..+...+
T Consensus       238 ~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll  284 (382)
T 2h6f_A          238 NQRYFVISNTTGYNDRAVLEREVQYTLEMIKL--VPHNESAWNYLKGIL  284 (382)
T ss_dssp             HHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCcchHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHH
Confidence            999999988 6665777     4777776653  454 45666666666

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.27  E-value=4.7e-05  Score=73.77  Aligned_cols=234  Identities=9%  Similarity=-0.031  Sum_probs=155.9

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC-C-----
Q 013497           31 QSCTKSKDLTTAISLYESAHSQ----NLRL-SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI-P-----   99 (442)
Q Consensus        31 ~~~~k~g~~~~A~~lf~~m~~~----g~~p-~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~-p-----   99 (442)
                      ..+...|++++|+..|++..+.    +-.+ ...+|..+-.++...+        ++++|.+.|++..+.... +     
T Consensus       111 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~--------~~~~A~~~~~~al~~~~~~~~~~~~  182 (383)
T 3ulq_A          111 MYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMK--------QTYFSMDYARQAYEIYKEHEAYNIR  182 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHTCSTTHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHHHHhCccchHH
Confidence            4567889999999999998753    2122 2245555555777777        899999999887652111 1     


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCC-CCCC----cccHHHHHHHHHHcCCHHHHHHHHHHHHHC----CC-C
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFN-VVPR----LRTYDPALFCFCENLEAEKAYEVEEHMGLM----GL-S  169 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g-~~p~----~~ty~~li~~~~~~g~~~~A~~l~~~M~~~----g~-~  169 (442)
                      ...+++.+-..|...|++++|...|++.. ... -.++    ..+|..+-..|...|+.++|.+.+++....    +. .
T Consensus       183 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al-~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~  261 (383)
T 3ulq_A          183 LLQCHSLFATNFLDLKQYEDAISHFQKAY-SMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILP  261 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGG
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHHH-HHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccch
Confidence            24678888899999999999999998876 210 0111    147888999999999999999999988762    33 3


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC-CChH---HHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccC
Q 013497          170 LEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRC-VNEE---TGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHG  245 (442)
Q Consensus       170 p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~-p~~~---t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  245 (442)
                      ....++..+-..+.+.|+.++|...+++....... .++.   .+..+-..+  ...+..    ..+.+|+..+.     
T Consensus       262 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~--~~~~~~----~~~~~al~~~~-----  330 (383)
T 3ulq_A          262 SLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLY--LSGPDE----EAIQGFFDFLE-----  330 (383)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TSSCCH----HHHHHHHHHHH-----
T ss_pred             hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hCCCcH----HHHHHHHHHHH-----
Confidence            34677889999999999999999999887653211 1222   234444444  333211    33555555421     


Q ss_pred             CccccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHc
Q 013497          246 LGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKN  314 (442)
Q Consensus       246 ~~~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~  314 (442)
                                    .                ....+.....+..+-..+...|+.++|.+.|++.++-.
T Consensus       331 --------------~----------------~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          331 --------------S----------------KMLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQVR  369 (383)
T ss_dssp             --------------H----------------TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             --------------H----------------CcCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence                          0                01112233334444455778899999999999987643

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=98.22  E-value=1e-05  Score=81.34  Aligned_cols=167  Identities=9%  Similarity=-0.065  Sum_probs=133.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-CCCCCCchhhHHHHHHHHHHHHhCCCCCCHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDS-ATDPSSKDSALRHGFRVFDQMLSNNVIPNEAS  103 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~-~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~t  103 (442)
                      .|..+-..|.+.|++++|++.|++..+.  .|+...+..+-.++... ......+.|++++|.+.|++..+... -+...
T Consensus       139 a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~  215 (474)
T 4abn_A          139 AWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDV-LDGRS  215 (474)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCC-CCHHH
Confidence            8899999999999999999999998876  47766666666677665 00111111399999999999887643 36889


Q ss_pred             HHHHHHHHHhc--------CCHHHHHHHHHHhHhhCCCCC----CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC
Q 013497          104 VTSVARLAASK--------NDGDYAFVLIKRMNNEFNVVP----RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLE  171 (442)
Q Consensus       104 y~~li~~~~~~--------g~~~~A~~~~~~m~~~~g~~p----~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~  171 (442)
                      |..+-.+|...        |++++|...|++.. ..  .|    +...|..+-..|...|++++|.+.|++..+..- -+
T Consensus       216 ~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al-~~--~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~  291 (474)
T 4abn_A          216 WYILGNAYLSLYFNTGQNPKISQQALSAYAQAE-KV--DRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDP-AW  291 (474)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHH-HH--CGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TC
T ss_pred             HHHHHHHHHHHHHhhccccchHHHHHHHHHHHH-Hh--CCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CC
Confidence            99999999998        99999999999988 43  45    678899999999999999999999999877532 24


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 013497          172 QQEIAALLKVSAETGRVEKVYQYLQKL  198 (442)
Q Consensus       172 ~~ty~~li~~~~~~g~~~~a~~ll~~m  198 (442)
                      ...+..+-..+...|+.++|.+.+.++
T Consensus       292 ~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          292 PEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            567888888898999998888766443

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=98.20  E-value=0.00018  Score=61.46  Aligned_cols=166  Identities=10%  Similarity=-0.013  Sum_probs=125.6

Q ss_pred             CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC
Q 013497           57 SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR  136 (442)
Q Consensus        57 ~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~  136 (442)
                      ++..|..|=..+...|        ++++|.+.|++..+... -+..+|..+...|.+.|++++|...+.... ... .-+
T Consensus         4 ~~~iy~~lG~~~~~~g--------~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~a~~~~~~~~-~~~-~~~   72 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKG--------DFDGAIRAYKKVLKADP-NNVETLLKLGKTYMDIGLPNDAIESLKKFV-VLD-TTS   72 (184)
T ss_dssp             CHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-CCC
T ss_pred             HHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHH-hcC-chh
Confidence            4567777766777777        89999999999887643 368899999999999999999999999987 432 224


Q ss_pred             cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHH
Q 013497          137 LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDW  216 (442)
Q Consensus       137 ~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~  216 (442)
                      ...+..+-..+...++.+.|.+.+....... +-+...+..+-..+.+.|++++|.+.|++..+.. +-++..+..+-..
T Consensus        73 ~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~  150 (184)
T 3vtx_A           73 AEAYYILGSANFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLA  150 (184)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHH
Confidence            5667777788999999999999999987653 2357788889999999999999999999987652 2245567777666


Q ss_pred             hccccCCCcccchhhHHHHHH
Q 013497          217 FSGQKVNGVSCDLGLVKNAVL  237 (442)
Q Consensus       217 ~~~~~~~~~~~~~~~~~~a~~  237 (442)
                      +  ...|...-....+++|++
T Consensus       151 ~--~~~g~~~~A~~~~~~al~  169 (184)
T 3vtx_A          151 Y--EGKGLRDEAVKYFKKALE  169 (184)
T ss_dssp             H--HHTTCHHHHHHHHHHHHH
T ss_pred             H--HHCCCHHHHHHHHHHHHh
Confidence            6  555333233334444443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.20  E-value=8.1e-05  Score=69.83  Aligned_cols=145  Identities=10%  Similarity=0.012  Sum_probs=109.4

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHH
Q 013497           42 AISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI-PNEASVTSVARLAASKNDGDYA  120 (442)
Q Consensus        42 A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~-p~~~ty~~li~~~~~~g~~~~A  120 (442)
                      |+..|++..+.+ .++..++..+-.++...|        ++++|++++.+-...|.. -+...+..++..+.+.|+.+.|
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g--------~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A  155 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILG--------DLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTA  155 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcC--------CHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHH
Confidence            788888877665 455555544444677777        899999999987666642 3677888999999999999999


Q ss_pred             HHHHHHhHhhCCCCC-----CcccHHHHHHHH--HHcC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 013497          121 FVLIKRMNNEFNVVP-----RLRTYDPALFCF--CENL--EAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKV  191 (442)
Q Consensus       121 ~~~~~~m~~~~g~~p-----~~~ty~~li~~~--~~~g--~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a  191 (442)
                      .+.+++|. ..  .|     +..+..-|..++  ...|  +..+|+.+|+++.+.  .|+..+-..|+.++.+.|++++|
T Consensus       156 ~k~l~~~~-~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eA  230 (310)
T 3mv2_B          156 STIFDNYT-NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEA  230 (310)
T ss_dssp             HHHHHHHH-HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHH-hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHH
Confidence            99999998 43  56     355566666663  3334  899999999998654  46655556666688899999999


Q ss_pred             HHHHHHHHh
Q 013497          192 YQYLQKLRS  200 (442)
Q Consensus       192 ~~ll~~m~~  200 (442)
                      .+.++.+..
T Consensus       231 e~~L~~l~~  239 (310)
T 3mv2_B          231 QGIVELLLS  239 (310)
T ss_dssp             HHHHHHHHS
T ss_pred             HHHHHHHHH
Confidence            999987654

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.19  E-value=9.4e-05  Score=75.15  Aligned_cols=168  Identities=10%  Similarity=0.028  Sum_probs=126.5

Q ss_pred             CCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC
Q 013497           20 PNPET--NFLINLQSCTKSKDLTTAISLYESAHSQNLRLS--LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN   95 (442)
Q Consensus        20 ~~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~--~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~   95 (442)
                      ..|+.  .|..+...+.+.|++++|..+|+++.+.  .|+  ...|..+..+..+.+        .+++|.++|+...+.
T Consensus       316 ~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~--------~~~~A~~~~~~Al~~  385 (530)
T 2ooe_A          316 LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAE--------GIKSGRMIFKKARED  385 (530)
T ss_dssp             TCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHTC
T ss_pred             hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhc--------CHHHHHHHHHHHHhc
Confidence            34553  8888999999999999999999998874  454  247777777666666        899999999998765


Q ss_pred             CCCCCHHHHHHHHH-HHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCC-
Q 013497           96 NVIPNEASVTSVAR-LAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMG-LSLE-  171 (442)
Q Consensus        96 g~~p~~~ty~~li~-~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g-~~p~-  171 (442)
                      ... +...|-.... .+...|+.++|..+|+... +.  .| +...|..++..+.+.|+.++|..+|+.....+ ..|+ 
T Consensus       386 ~~~-~~~~~~~~a~~~~~~~~~~~~A~~~~e~al-~~--~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~  461 (530)
T 2ooe_A          386 ART-RHHVYVTAALMEYYCSKDKSVAFKIFELGL-KK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEK  461 (530)
T ss_dssp             TTC-CTHHHHHHHHHHHHHTCCHHHHHHHHHHHH-HH--HTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGG
T ss_pred             cCC-chHHHHHHHHHHHHHcCChhHHHHHHHHHH-HH--CCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHH
Confidence            321 2222222221 2346899999999999877 32  34 46788888888999999999999999988763 3332 


Q ss_pred             -HHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          172 -QQEIAALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       172 -~~ty~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                       ...|...+....+.|+.+.+..++.++.+.
T Consensus       462 ~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          462 SGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence             557888888888899999999999888764

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.18  E-value=1.5e-05  Score=77.61  Aligned_cols=242  Identities=9%  Similarity=-0.000  Sum_probs=160.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC----C
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSL----HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN----N   96 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~----~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~----g   96 (442)
                      .+..+-..+...|++++|+..|+++.+.+.. +.    ..|..+-..+...|        ++++|.+.|++..+.    +
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g--------~~~~A~~~~~~al~~~~~~~  120 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLG--------DYNKAMQYHKHDLTLAKSMN  120 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHHHHHHcc
Confidence            5666777889999999999999998876321 22    35555655677777        899999999887652    2


Q ss_pred             C-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhC----CCC-CCcccHHHHHHHHHHcCC-----------------H
Q 013497           97 V-IPNEASVTSVARLAASKNDGDYAFVLIKRMNNEF----NVV-PRLRTYDPALFCFCENLE-----------------A  153 (442)
Q Consensus        97 ~-~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~----g~~-p~~~ty~~li~~~~~~g~-----------------~  153 (442)
                      - .....++..+-..|...|++++|...+++.. ..    +-. ....+|..+-..|...|+                 +
T Consensus       121 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al-~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~  199 (411)
T 4a1s_A          121 DRLGEAKSSGNLGNTLKVMGRFDEAAICCERHL-TLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEAL  199 (411)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH-HHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHH
Confidence            1 2245678888999999999999999999876 22    111 124578888899999999                 9


Q ss_pred             HHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC-CCCh----HHHHHHHHHhccccCC
Q 013497          154 EKAYEVEEHMGLM----GLSL-EQQEIAALLKVSAETGRVEKVYQYLQKLRSTVR-CVNE----ETGKIIEDWFSGQKVN  223 (442)
Q Consensus       154 ~~A~~l~~~M~~~----g~~p-~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~-~p~~----~t~~~li~~~~~~~~~  223 (442)
                      ++|.+.+++..+.    +-.| ...++..+-..|...|++++|...+++.....- .++.    .++..+...+  ...|
T Consensus       200 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~--~~~g  277 (411)
T 4a1s_A          200 TRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSH--IFLG  277 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--HTTT
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHH--HHCc
Confidence            9999988876442    2111 234778888899999999999999998765321 1121    1444555555  4442


Q ss_pred             CcccchhhHHHHHHhcCCcccCCccccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhh
Q 013497          224 GVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKAN  303 (442)
Q Consensus       224 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a  303 (442)
                      ...-....+++++....                   .                ..........+..+-..+...|+.++|
T Consensus       278 ~~~~A~~~~~~al~~~~-------------------~----------------~~~~~~~~~~~~~la~~~~~~g~~~~A  322 (411)
T 4a1s_A          278 QFEDAAEHYKRTLALAV-------------------E----------------LGEREVEAQSCYSLGNTYTLLHEFNTA  322 (411)
T ss_dssp             CHHHHHHHHHHHHHHHH-------------------H----------------TTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             CHHHHHHHHHHHHHHHH-------------------H----------------cCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            22222222333332210                   0                000112344555566667788999999


Q ss_pred             HHHHHHHHHH
Q 013497          304 FSEFQDWLEK  313 (442)
Q Consensus       304 ~~~F~~m~~~  313 (442)
                      ...|++.+..
T Consensus       323 ~~~~~~al~~  332 (411)
T 4a1s_A          323 IEYHNRHLAI  332 (411)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999988764

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.18  E-value=0.00012  Score=74.37  Aligned_cols=179  Identities=11%  Similarity=0.041  Sum_probs=132.3

Q ss_pred             HHHHHHHHHHh-------cCCHH-------HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHH
Q 013497           25 NFLINLQSCTK-------SKDLT-------TAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFD   90 (442)
Q Consensus        25 ~~~~li~~~~k-------~g~~~-------~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~   90 (442)
                      .|......+.+       .|+++       +|..+|++..+.-.+-+...|..+..++...|        ++++|.++|+
T Consensus       274 ~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g--------~~~~A~~~~~  345 (530)
T 2ooe_A          274 IWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRM--------KYEKVHSIYN  345 (530)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTT--------CHHHHHHHHH
T ss_pred             HHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcC--------CHHHHHHHHH
Confidence            55555555554       68877       89999999876323335788888888888887        8999999999


Q ss_pred             HHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc-ccHHHH-HHHHHHcCCHHHHHHHHHHHHHC
Q 013497           91 QMLSNNVIPN--EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL-RTYDPA-LFCFCENLEAEKAYEVEEHMGLM  166 (442)
Q Consensus        91 ~M~~~g~~p~--~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~-~ty~~l-i~~~~~~g~~~~A~~l~~~M~~~  166 (442)
                      ...+.  .|+  ...|..++..+.+.|++++|..+|+... ..  .|+. ..|-.. ...+...|+.++|..+|+...+.
T Consensus       346 ~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al-~~--~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~  420 (530)
T 2ooe_A          346 RLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAR-ED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK  420 (530)
T ss_dssp             HHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-TC--TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHH
T ss_pred             HHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHH-hc--cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHH
Confidence            99884  454  3589999999999999999999999988 43  3432 222211 12234689999999999988765


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc-CCCC--hHHHHHHHHHh
Q 013497          167 GLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTV-RCVN--EETGKIIEDWF  217 (442)
Q Consensus       167 g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~-~~p~--~~t~~~li~~~  217 (442)
                      . +-+...|..++..+.+.|+.++|..+|++..... ..|+  ...|...+...
T Consensus       421 ~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e  473 (530)
T 2ooe_A          421 Y-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFE  473 (530)
T ss_dssp             H-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHH
T ss_pred             C-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHH
Confidence            3 2357889999999999999999999999988763 2222  23555555544

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.12  E-value=7.3e-05  Score=69.64  Aligned_cols=168  Identities=11%  Similarity=-0.008  Sum_probs=123.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC----C
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLS----LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN----N   96 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~----~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~----g   96 (442)
                      .+...-..+.+.|++++|+.+|+++.+... .+    ...|..+-..+...+        ++++|.+.|++....    +
T Consensus         7 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~al~~~~~~~   77 (338)
T 3ro2_A            7 ELALEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLH--------DYAKALEYHHHDLTLARTIG   77 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHHhhccc
Confidence            445556678899999999999999887532 12    355666666777777        899999999886542    2


Q ss_pred             CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC----cccHHHHHHHHHHcCC-------------------
Q 013497           97 VIP-NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR----LRTYDPALFCFCENLE-------------------  152 (442)
Q Consensus        97 ~~p-~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~----~~ty~~li~~~~~~g~-------------------  152 (442)
                      -.| ...++..+...|...|++++|...+++......-.++    ..++..+-..|...|+                   
T Consensus        78 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~  157 (338)
T 3ro2_A           78 DQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRN  157 (338)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHH
Confidence            222 3567888899999999999999999987621110122    3478888899999999                   


Q ss_pred             -HHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          153 -AEKAYEVEEHMGLM----GLSL-EQQEIAALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       153 -~~~A~~l~~~M~~~----g~~p-~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                       +++|.+.+++....    +-.| ...++..+...+...|++++|...+++....
T Consensus       158 ~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  212 (338)
T 3ro2_A          158 ALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLI  212 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence             99999988876432    2111 2346778888899999999999999987653

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.12  E-value=2.9e-05  Score=72.55  Aligned_cols=165  Identities=7%  Similarity=-0.070  Sum_probs=127.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCCC-HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC----
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHS----QNLRLS-LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN----   95 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~----~g~~p~-~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~----   95 (442)
                      .|+.....|...|++++|.+.|.+..+    .|-.++ ..+|+.+-.+|...|        ++++|...|++..+.    
T Consensus        39 ~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g--------~~~~A~~~~~~Al~l~~~~  110 (292)
T 1qqe_A           39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGG--------NSVNAVDSLENAIQIFTHR  110 (292)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHHHHHHc
Confidence            788888999999999999999998753    233222 467777777888887        899999999876552    


Q ss_pred             CCCC-CHHHHHHHHHHHHhc-CCHHHHHHHHHHhHhhCCCCCC-------cccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 013497           96 NVIP-NEASVTSVARLAASK-NDGDYAFVLIKRMNNEFNVVPR-------LRTYDPALFCFCENLEAEKAYEVEEHMGLM  166 (442)
Q Consensus        96 g~~p-~~~ty~~li~~~~~~-g~~~~A~~~~~~m~~~~g~~p~-------~~ty~~li~~~~~~g~~~~A~~l~~~M~~~  166 (442)
                      |-.+ -..+|+.+-..|... |++++|+..|++.. ..  .|+       ..+|+.+-..|.+.|++++|.+.|+.....
T Consensus       111 g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al-~~--~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  187 (292)
T 1qqe_A          111 GQFRRGANFKFELGEILENDLHDYAKAIDCYELAG-EW--YAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKS  187 (292)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH-HH--HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH-HH--HHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            2111 145788888999996 99999999999876 32  221       346888899999999999999999999876


Q ss_pred             CCCCCH------HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          167 GLSLEQ------QEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       167 g~~p~~------~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      ......      ..|..+..++...|+.++|...|++...
T Consensus       188 ~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  227 (292)
T 1qqe_A          188 SMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQS  227 (292)
T ss_dssp             TSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGC
T ss_pred             HhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            433222      2567778889999999999999988654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.11  E-value=9.1e-05  Score=69.48  Aligned_cols=127  Identities=12%  Similarity=0.008  Sum_probs=96.0

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCC-CCCcccHHHHHHHHHHcCCHHHHHHHHHHH
Q 013497           85 GFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNV-VPRLRTYDPALFCFCENLEAEKAYEVEEHM  163 (442)
Q Consensus        85 a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~-~p~~~ty~~li~~~~~~g~~~~A~~l~~~M  163 (442)
                      |...|++..+.+ .++..++-.+-.++...|+.++|++++.+.. ..+- .-+...+..++..|.+.|+.+.|.++++.|
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i-~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGI-DNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH-TSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHh-ccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            678888877665 5666666788899999999999999999986 4331 126788999999999999999999999999


Q ss_pred             HHCCCCC-----CHHHHHHHHHHHHh--cC--CHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          164 GLMGLSL-----EQQEIAALLKVSAE--TG--RVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       164 ~~~g~~p-----~~~ty~~li~~~~~--~g--~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      .+.  .|     +..+..-|..+++.  .|  +..+|+.+|+++.+.  .|+..+...+..++
T Consensus       163 ~~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~  221 (310)
T 3mv2_B          163 TNA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLH  221 (310)
T ss_dssp             HHH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHH
T ss_pred             Hhc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHH
Confidence            775  45     35666777777443  34  899999999999665  46533334444444

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=98.10  E-value=6.1e-05  Score=72.70  Aligned_cols=243  Identities=9%  Similarity=-0.014  Sum_probs=159.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC----C
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLS----LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN----N   96 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~----~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~----g   96 (442)
                      .+..+-..+.+.|++++|+..|+++.+.+- .+    ...|..+-..+...+        ++++|...|++....    +
T Consensus        11 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~al~~~~~~~   81 (406)
T 3sf4_A           11 ELALEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLH--------DYAKALEYHHHDLTLARTIG   81 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHHHHHhc--------CHHHHHHHHHHHHHHHHhcc
Confidence            666777788999999999999999887532 23    245666656777777        899999999876542    2


Q ss_pred             CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC----cccHHHHHHHHHHcCC-------------------
Q 013497           97 VIP-NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR----LRTYDPALFCFCENLE-------------------  152 (442)
Q Consensus        97 ~~p-~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~----~~ty~~li~~~~~~g~-------------------  152 (442)
                      -.| ...++..+-..|...|++++|...+++......-.++    ..++..+-..|...|+                   
T Consensus        82 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~  161 (406)
T 3sf4_A           82 DQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRD  161 (406)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHH
Confidence            222 2567888889999999999999999987621100112    3478888899999999                   


Q ss_pred             -HHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccC-CCChH----HHHHHHHHhcccc
Q 013497          153 -AEKAYEVEEHMGLM----GLSL-EQQEIAALLKVSAETGRVEKVYQYLQKLRSTVR-CVNEE----TGKIIEDWFSGQK  221 (442)
Q Consensus       153 -~~~A~~l~~~M~~~----g~~p-~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~-~p~~~----t~~~li~~~~~~~  221 (442)
                       +++|.+.+++....    +-.| ...+|..+-..+...|++++|...+++.....- .++..    ++..+-..+  ..
T Consensus       162 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~--~~  239 (406)
T 3sf4_A          162 ALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAY--IF  239 (406)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HH
T ss_pred             HHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHH--HH
Confidence             99999998876432    2112 234678888899999999999999998765311 12221    444444445  33


Q ss_pred             CCCcccchhhHHHHHHhcCCcccCCccccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHH
Q 013497          222 VNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVK  301 (442)
Q Consensus       222 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~  301 (442)
                      .|...-....+.+++....                   .   .             .........+..+-..+...|+.+
T Consensus       240 ~g~~~~A~~~~~~al~~~~-------------------~---~-------------~~~~~~~~~~~~la~~~~~~g~~~  284 (406)
T 3sf4_A          240 LGEFETASEYYKKTLLLAR-------------------Q---L-------------KDRAVEAQSCYSLGNTYTLLQDYE  284 (406)
T ss_dssp             TTCHHHHHHHHHHHHHHHH-------------------H---T-------------TCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             cCChHHHHHHHHHHHHHHH-------------------h---C-------------cCchHHHHHHHHHHHHHHHhCcHH
Confidence            3222112222223322210                   0   0             001112445555556677889999


Q ss_pred             hhHHHHHHHHHH
Q 013497          302 ANFSEFQDWLEK  313 (442)
Q Consensus       302 ~a~~~F~~m~~~  313 (442)
                      +|...|++.+..
T Consensus       285 ~A~~~~~~a~~~  296 (406)
T 3sf4_A          285 KAIDYHLKHLAI  296 (406)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999888764

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.09  E-value=0.00016  Score=69.86  Aligned_cols=230  Identities=10%  Similarity=-0.000  Sum_probs=152.3

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC----C-CCC-C
Q 013497           32 SCTKSKDLTTAISLYESAHSQNL-RLS----LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN----N-VIP-N  100 (442)
Q Consensus        32 ~~~k~g~~~~A~~lf~~m~~~g~-~p~----~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~----g-~~p-~  100 (442)
                      .+...|++++|+..|++..+.-- .++    ..+|..+-.++...+        +++.|...+++..+.    + ..+ .
T Consensus       110 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~--------~~~~A~~~~~~al~~~~~~~~~~~~~  181 (378)
T 3q15_A          110 YEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMK--------QTHVSMYHILQALDIYQNHPLYSIRT  181 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHTSTTCHHHH
T ss_pred             HHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcC--------CcHHHHHHHHHHHHHHHhCCCchhhH
Confidence            35678999999999999875321 122    234555545777777        899999998876552    1 111 2


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhHh---hCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHH-----CCCCCC
Q 013497          101 EASVTSVARLAASKNDGDYAFVLIKRMNN---EFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGL-----MGLSLE  171 (442)
Q Consensus       101 ~~ty~~li~~~~~~g~~~~A~~~~~~m~~---~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~-----~g~~p~  171 (442)
                      ..+++.+-..|...|++++|.+.|++...   ..+-.+ ...+++.+-..|...|+.++|.+.+++...     .. +..
T Consensus       182 ~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~  260 (378)
T 3q15_A          182 IQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLL  260 (378)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhH
Confidence            56788888999999999999999988762   111111 135678888899999999999999998876     33 223


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC---CC-hHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCc
Q 013497          172 QQEIAALLKVSAETGRVEKVYQYLQKLRSTVRC---VN-EETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLG  247 (442)
Q Consensus       172 ~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~---p~-~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  247 (442)
                      ..++..+-..+.+.|+.++|...+++.......   |. ...+..+-..+  ...+..    ..+.+|+..+.       
T Consensus       261 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly--~~~~~~----~~~~~al~~~~-------  327 (378)
T 3q15_A          261 PKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVY--KETVDE----RKIHDLLSYFE-------  327 (378)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHH--SSSCCH----HHHHHHHHHHH-------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hCCCcH----HHHHHHHHHHH-------
Confidence            678888999999999999999999988764322   11 22334444444  222111    34556655422       


Q ss_pred             cccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHH-HHHHHHHHHhHHHHHHhhHHHHHHHHH
Q 013497          248 WIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETE-RFAQSVAALAMEREVKANFSEFQDWLE  312 (442)
Q Consensus       248 ~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~-~~~~~I~~~~~~g~~~~a~~~F~~m~~  312 (442)
                                  .   .+             ..+ +.. .+..+-..+...|+.++|.+.|++.++
T Consensus       328 ------------~---~~-------------~~~-~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          328 ------------K---KN-------------LHA-YIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             ------------H---TT-------------CHH-HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ------------h---CC-------------Chh-HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                        0   00             111 333 333333457778899999999988765

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=98.07  E-value=1.9e-05  Score=76.86  Aligned_cols=243  Identities=7%  Similarity=-0.053  Sum_probs=159.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC----
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQ----NLRL-SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN----   95 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~----g~~p-~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~----   95 (442)
                      .|..+-..|...|++++|+..|++..+.    +-.| ...++..+-..+...|        ++++|.+.|++..+.    
T Consensus        88 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~al~~~~~~  159 (411)
T 4a1s_A           88 IYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMG--------RFDEAAICCERHLTLARQL  159 (411)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHHHHHHh
Confidence            7888889999999999999999987632    2222 2344555555777777        899999999887653    


Q ss_pred             C-CCCCHHHHHHHHHHHHhcCC-----------------HHHHHHHHHHhHh---hCCCCC-CcccHHHHHHHHHHcCCH
Q 013497           96 N-VIPNEASVTSVARLAASKND-----------------GDYAFVLIKRMNN---EFNVVP-RLRTYDPALFCFCENLEA  153 (442)
Q Consensus        96 g-~~p~~~ty~~li~~~~~~g~-----------------~~~A~~~~~~m~~---~~g~~p-~~~ty~~li~~~~~~g~~  153 (442)
                      + ......++..+-..|...|+                 +++|.+.+++...   ..+-.| ...+|..+-..|...|++
T Consensus       160 ~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  239 (411)
T 4a1s_A          160 GDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDF  239 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             hchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCh
Confidence            1 11234578888899999999                 9999999887651   111111 235788888999999999


Q ss_pred             HHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC-CC----hHHHHHHHHHhccccCC
Q 013497          154 EKAYEVEEHMGLMGL-SLE----QQEIAALLKVSAETGRVEKVYQYLQKLRSTVRC-VN----EETGKIIEDWFSGQKVN  223 (442)
Q Consensus       154 ~~A~~l~~~M~~~g~-~p~----~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~-p~----~~t~~~li~~~~~~~~~  223 (442)
                      ++|.+.+++.....- .++    ..++..+...|...|++++|...+++....... .+    ..++..+-..+  ...|
T Consensus       240 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~--~~~g  317 (411)
T 4a1s_A          240 QAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTY--TLLH  317 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHTT
T ss_pred             HHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--HHcC
Confidence            999999998765311 112    237888889999999999999999887653211 11    23444555555  3332


Q ss_pred             CcccchhhHHHHHHhcCCcccCCccccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhh
Q 013497          224 GVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKAN  303 (442)
Q Consensus       224 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a  303 (442)
                      ...-....+++++....                   .                ....+.....+..+-..+...|+.++|
T Consensus       318 ~~~~A~~~~~~al~~~~-------------------~----------------~~~~~~~~~~~~~la~~~~~~g~~~~A  362 (411)
T 4a1s_A          318 EFNTAIEYHNRHLAIAQ-------------------E----------------LGDRIGEARACWSLGNAHSAIGGHERA  362 (411)
T ss_dssp             CHHHHHHHHHHHHHHHH-------------------H----------------HTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             CHHHHHHHHHHHHHHHH-------------------H----------------CCChHHHHHHHHHHHHHHHHhccHHHH
Confidence            22112222223322210                   0                000112344555566667788999999


Q ss_pred             HHHHHHHHH
Q 013497          304 FSEFQDWLE  312 (442)
Q Consensus       304 ~~~F~~m~~  312 (442)
                      .+.|++.+.
T Consensus       363 ~~~~~~al~  371 (411)
T 4a1s_A          363 LKYAEQHLQ  371 (411)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999998876

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.07  E-value=0.00055  Score=60.93  Aligned_cols=164  Identities=11%  Similarity=0.009  Sum_probs=116.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC-CCH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNL-RLS-LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI-PNE  101 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~-~p~-~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~-p~~  101 (442)
                      .+-.+-..+.+.|++++|+..|+++.+..- .|. ...+..+-.++...+        ++++|.+.|+...+.... |..
T Consensus         6 ~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~--------~~~~A~~~~~~~l~~~P~~~~~   77 (225)
T 2yhc_A            6 EIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNA--------DLPLAQAAIDRFIRLNPTHPNI   77 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCTTCTTH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcC--------CHHHHHHHHHHHHHHCcCCCcH
Confidence            334445567889999999999999886432 122 245555556777777        899999999998875433 221


Q ss_pred             -HHHHHHHHHHH------------------hcCCHHHHHHHHHHhHhhCCCCCCccc-H-----------------HHHH
Q 013497          102 -ASVTSVARLAA------------------SKNDGDYAFVLIKRMNNEFNVVPRLRT-Y-----------------DPAL  144 (442)
Q Consensus       102 -~ty~~li~~~~------------------~~g~~~~A~~~~~~m~~~~g~~p~~~t-y-----------------~~li  144 (442)
                       .++-.+-.++.                  ..|+.++|...|++.. +.  .|+... +                 -.+-
T Consensus        78 ~~a~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l-~~--~P~~~~a~~a~~~l~~~~~~~~~~~~~~a  154 (225)
T 2yhc_A           78 DYVMYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLV-RG--YPNSQYTTDATKRLVFLKDRLAKYEYSVA  154 (225)
T ss_dssp             HHHHHHHHHHHHHHHC--------------CCHHHHHHHHHHHHHH-TT--CTTCTTHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHH-HH--CcCChhHHHHHHHHHHHHHHHHHHHHHHH
Confidence             13333333333                  3678999999999998 43  565532 2                 1344


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          145 FCFCENLEAEKAYEVEEHMGLMGLSLE----QQEIAALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       145 ~~~~~~g~~~~A~~l~~~M~~~g~~p~----~~ty~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      ..|.+.|++++|...|+.+.+.-  |+    ...+..+..+|.+.|+.++|.+.++.+...
T Consensus       155 ~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~  213 (225)
T 2yhc_A          155 EYYTERGAWVAVVNRVEGMLRDY--PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAAN  213 (225)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             HHHHHcCcHHHHHHHHHHHHHHC--cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh
Confidence            56789999999999999998752  33    246788889999999999999999988765

>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=98.06  E-value=0.00055  Score=75.59  Aligned_cols=253  Identities=9%  Similarity=0.087  Sum_probs=136.8

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 013497           35 KSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASK  114 (442)
Q Consensus        35 k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~  114 (442)
                      ..+++++|.++.++..      +..+|..+=.++...|        ++++|.+-|..-      -|...|.-++..+.+.
T Consensus      1088 ~i~nldrAiE~Aervn------~p~vWsqLAKAql~~G--------~~kEAIdsYiKA------dD~say~eVa~~~~~l 1147 (1630)
T 1xi4_A         1088 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKG--------MVKEAIDSYIKA------DDPSSYMEVVQAANTS 1147 (1630)
T ss_pred             HHhhHHHHHHHHHhcC------CHHHHHHHHHHHHhCC--------CHHHHHHHHHhc------CChHHHHHHHHHHHHc
Confidence            4566777777776542      2455666655666666        777777777542      3566667777777777


Q ss_pred             CCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 013497          115 NDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQY  194 (442)
Q Consensus       115 g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~l  194 (442)
                      |++++|.+++..-. +.  .++....+.+..+|++.+++++.....    .   .|+...|..+-..|-..|++++|..+
T Consensus      1148 GkyEEAIeyL~mAr-k~--~~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~ 1217 (1630)
T 1xi4_A         1148 GNWEELVKYLQMAR-KK--ARESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLL 1217 (1630)
T ss_pred             CCHHHHHHHHHHHH-hh--cccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHH
Confidence            77777777776544 32  344444555777777777766433332    1   23455566666667777777777777


Q ss_pred             HHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCccccccceE-EeeeccCC--CCCCCcCC
Q 013497          195 LQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWV-VKRGSVDE--SGKCCSCG  271 (442)
Q Consensus       195 l~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~-v~~~~~~~--~g~c~~c~  271 (442)
                      |...         ..|..+...+  ++.|       .+.+|++.....-+-.      .|. +.++.+..  ......|+
T Consensus      1218 Y~kA---------~ny~rLA~tL--vkLg-------e~q~AIEaarKA~n~~------aWkev~~acve~~Ef~LA~~cg 1273 (1630)
T 1xi4_A         1218 YNNV---------SNFGRLASTL--VHLG-------EYQAAVDGARKANSTR------TWKEVCFACVDGKEFRLAQMCG 1273 (1630)
T ss_pred             HHhh---------hHHHHHHHHH--HHhC-------CHHHHHHHHHHhCCHH------HHHHHHHHHhhhhHHHHHHHHH
Confidence            7653         3566666666  5542       2333333321100000      110 00000000  00000111


Q ss_pred             CcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHcCCcceEEeccchhccccc-cCCCCcChhhHHHHHHHH
Q 013497          272 DQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEKNANYEAIVDGANIGLYQQN-FTEGGFSVPQLDAVVKKL  350 (442)
Q Consensus       272 ~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~~~~~d~vIdg~Nv~~~~~~-~~~~~~~~~~~~~vv~~l  350 (442)
                      ..   +...+   ..+..++.-|-..|..++|+.+|+.-+.        +|.++++++..- .--.++..+++.+.++.+
T Consensus      1274 l~---Iiv~~---deLeeli~yYe~~G~feEAI~LlE~aL~--------LeraH~gmftELaiLyaKy~peklmEhlk~f 1339 (1630)
T 1xi4_A         1274 LH---IVVHA---DELEELINYYQDRGYFEELITMLEAALG--------LERAHMGMFTELAILYSKFKPQKMREHLELF 1339 (1630)
T ss_pred             Hh---hhcCH---HHHHHHHHHHHHcCCHHHHHHHHHHHhc--------cChhHhHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            11   12222   3344677778888999999999976654        344454444111 000133567777888888


Q ss_pred             HHhcC
Q 013497          351 YERSG  355 (442)
Q Consensus       351 ~~~~~  355 (442)
                      .++.+
T Consensus      1340 ~~rin 1344 (1630)
T 1xi4_A         1340 WSRVN 1344 (1630)
T ss_pred             HHhcc
Confidence            87743

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=98.00  E-value=0.00011  Score=68.40  Aligned_cols=244  Identities=10%  Similarity=-0.022  Sum_probs=158.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCC-C
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQ----NLRLS-LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNV-I   98 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~----g~~p~-~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~-~   98 (442)
                      .|..+-..|...|++++|++.|++..+.    +-.|. ..++..+-..+...|        ++++|.+.|++..+... .
T Consensus        45 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~al~~~~~~  116 (338)
T 3ro2_A           45 IYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLG--------NFDEAIVCCQRHLDISREL  116 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHcc--------CHHHHHHHHHHHHHHHHHh
Confidence            7888999999999999999999986532    22222 345555555777777        89999999988655211 1


Q ss_pred             CC----HHHHHHHHHHHHhcCC--------------------HHHHHHHHHHhHh---hCCCCC-CcccHHHHHHHHHHc
Q 013497           99 PN----EASVTSVARLAASKND--------------------GDYAFVLIKRMNN---EFNVVP-RLRTYDPALFCFCEN  150 (442)
Q Consensus        99 p~----~~ty~~li~~~~~~g~--------------------~~~A~~~~~~m~~---~~g~~p-~~~ty~~li~~~~~~  150 (442)
                      ++    ..++..+...|...|+                    +++|.+.+++...   ..+-.| ...++..+...|...
T Consensus       117 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~  196 (338)
T 3ro2_A          117 NDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLL  196 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             cCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHh
Confidence            22    4488888899999999                    9999999987651   111111 235788888999999


Q ss_pred             CCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC-CC----hHHHHHHHHHhccc
Q 013497          151 LEAEKAYEVEEHMGLM----GLS-LEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRC-VN----EETGKIIEDWFSGQ  220 (442)
Q Consensus       151 g~~~~A~~l~~~M~~~----g~~-p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~-p~----~~t~~~li~~~~~~  220 (442)
                      |++++|.+.+++....    +.. ....++..+...+...|++++|...+++....... .+    ..++..+...+  .
T Consensus       197 ~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~--~  274 (338)
T 3ro2_A          197 GNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTY--T  274 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--H
T ss_pred             CCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHH--H
Confidence            9999999999987643    111 11337888888999999999999999887653211 12    22444444445  3


Q ss_pred             cCCCcccchhhHHHHHHhcCCcccCCccccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHH
Q 013497          221 KVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREV  300 (442)
Q Consensus       221 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~  300 (442)
                      ..|...-....+++++....                   .                ..-.+.....+..+-..+...|+.
T Consensus       275 ~~g~~~~A~~~~~~a~~~~~-------------------~----------------~~~~~~~~~~~~~la~~~~~~g~~  319 (338)
T 3ro2_A          275 LLQDYEKAIDYHLKHLAIAQ-------------------E----------------LKDRIGEGRACWSLGNAYTALGNH  319 (338)
T ss_dssp             HTTCHHHHHHHHHHHHHHHH-------------------H----------------HTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HhcCHHHHHHHHHHHHHHHH-------------------h----------------cCCcHHHHHHHHHHHHHHHHcCCh
Confidence            33222112222223322210                   0                000112344555556667788999


Q ss_pred             HhhHHHHHHHHHH
Q 013497          301 KANFSEFQDWLEK  313 (442)
Q Consensus       301 ~~a~~~F~~m~~~  313 (442)
                      ++|.+.|++.+.-
T Consensus       320 ~~A~~~~~~a~~~  332 (338)
T 3ro2_A          320 DQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988763

>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=97.99  E-value=0.00018  Score=73.66  Aligned_cols=150  Identities=12%  Similarity=-0.003  Sum_probs=72.3

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 013497           37 KDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKND  116 (442)
Q Consensus        37 g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~  116 (442)
                      |++++|++.|++..+.. +-+...|..+-..+...+        ++++|.+.|++..+... -+..+|..+-..|...|+
T Consensus         3 g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g--------~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~   72 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMG--------DTTAGEMAVQRGLALHP-GHPEAVARLGRVRWTQQR   72 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHTTST-TCHHHHHHHHHHHHHTTC
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCC
Confidence            45566666666554321 112344444444444444        56666666666554421 245556666666666666


Q ss_pred             HHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc---CCHHHHH
Q 013497          117 GDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAET---GRVEKVY  192 (442)
Q Consensus       117 ~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~---g~~~~a~  192 (442)
                      +++|.+.+++.. +.  .| +...|..+-..|.+.|+.++|.+.+++..+..- .+...+..+...+...   |+.++|.
T Consensus        73 ~~~A~~~~~~al-~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~g~~~~A~  148 (568)
T 2vsy_A           73 HAEAAVLLQQAS-DA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLP-EEPYITAQLLNWRRRLCDWRALDVLS  148 (568)
T ss_dssp             HHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCTTHHHHH
T ss_pred             HHHHHHHHHHHH-hc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhccccHHHHH
Confidence            666666666655 22  23 234555566666666666666666666554321 1345555566666666   6666666


Q ss_pred             HHHHHHHh
Q 013497          193 QYLQKLRS  200 (442)
Q Consensus       193 ~ll~~m~~  200 (442)
                      +.+++..+
T Consensus       149 ~~~~~al~  156 (568)
T 2vsy_A          149 AQVRAAVA  156 (568)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            66665544

>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=97.98  E-value=0.00024  Score=69.14  Aligned_cols=177  Identities=7%  Similarity=0.017  Sum_probs=139.4

Q ss_pred             HHHHHHHHHHhcCC-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHH
Q 013497           25 NFLINLQSCTKSKD-LTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEAS  103 (442)
Q Consensus        25 ~~~~li~~~~k~g~-~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~t  103 (442)
                      .|+.+-..+.+.|+ +++|+..|+++.+..- -+...|+.+-.++...+        ++++|+..|+.+.+... -+..+
T Consensus       133 a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P-~~~~a~~~~g~~~~~~g--------~~~eAl~~~~kal~ldP-~~~~a  202 (382)
T 2h6f_A          133 VWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRVLVEWLR--------DPSQELEFIADILNQDA-KNYHA  202 (382)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHT--------CCTTHHHHHHHHHHHCT-TCHHH
T ss_pred             HHHHHHHHHHHcccCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcc--------CHHHHHHHHHHHHHhCc-cCHHH
Confidence            88888889999996 9999999999887542 25677777766777777        89999999999988653 37889


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHH-cCCHHHH-----HHHHHHHHHCCCCCCHHHHH
Q 013497          104 VTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCE-NLEAEKA-----YEVEEHMGLMGLSLEQQEIA  176 (442)
Q Consensus       104 y~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~-~g~~~~A-----~~l~~~M~~~g~~p~~~ty~  176 (442)
                      |..+-.++.+.|++++|+..|+++. ..  .| +...|+.+-..|.+ .|..++|     ++.|+......- -+...|+
T Consensus       203 ~~~lg~~~~~~g~~~eAl~~~~~al-~l--~P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~~~~~Al~l~P-~~~~a~~  278 (382)
T 2h6f_A          203 WQHRQWVIQEFKLWDNELQYVDQLL-KE--DVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVP-HNESAWN  278 (382)
T ss_dssp             HHHHHHHHHHHTCCTTHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHST-TCHHHHH
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHCC-CCHHHHH
Confidence            9999999999999999999999998 43  44 55788888889988 6666888     477877766432 2567888


Q ss_pred             HHHHHHHhcC--CHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          177 ALLKVSAETG--RVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       177 ~li~~~~~~g--~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      .+...+.+.|  +.++|.+.+.++  .....++..+..+...|
T Consensus       279 ~l~~ll~~~g~~~~~~a~~~~~~~--~~~p~~~~al~~La~~~  319 (382)
T 2h6f_A          279 YLKGILQDRGLSKYPNLLNQLLDL--QPSHSSPYLIAFLVDIY  319 (382)
T ss_dssp             HHHHHHTTTCGGGCHHHHHHHHHH--TTTCCCHHHHHHHHHHH
T ss_pred             HHHHHHHccCccchHHHHHHHHHh--ccCCCCHHHHHHHHHHH
Confidence            8888888888  689999999887  22233455666777777

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=97.98  E-value=0.0001  Score=71.06  Aligned_cols=244  Identities=9%  Similarity=-0.047  Sum_probs=159.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCCC-HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC-
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHS----QNLRLS-LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI-   98 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~----~g~~p~-~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~-   98 (442)
                      .|..+-..|...|++++|...|++..+    .+-.|. ..++..+-..+...|        ++++|...|++..+.... 
T Consensus        49 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g--------~~~~A~~~~~~al~~~~~~  120 (406)
T 3sf4_A           49 IYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLG--------NFDEAIVCCQRHLDISREL  120 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHHHHhc
Confidence            788888999999999999999998653    232222 344555555777777        899999999887652111 


Q ss_pred             CC----HHHHHHHHHHHHhcCC--------------------HHHHHHHHHHhHh---hCCCCC-CcccHHHHHHHHHHc
Q 013497           99 PN----EASVTSVARLAASKND--------------------GDYAFVLIKRMNN---EFNVVP-RLRTYDPALFCFCEN  150 (442)
Q Consensus        99 p~----~~ty~~li~~~~~~g~--------------------~~~A~~~~~~m~~---~~g~~p-~~~ty~~li~~~~~~  150 (442)
                      ++    ..++..+-..|...|+                    +++|...+++...   ..+-.| ...+|..+-..|...
T Consensus       121 ~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  200 (406)
T 3sf4_A          121 NDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLL  200 (406)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             ccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHc
Confidence            12    4588888999999999                    9999999887651   111111 235788888999999


Q ss_pred             CCHHHHHHHHHHHHHCC-CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC-CC----hHHHHHHHHHhccc
Q 013497          151 LEAEKAYEVEEHMGLMG-LSLE----QQEIAALLKVSAETGRVEKVYQYLQKLRSTVRC-VN----EETGKIIEDWFSGQ  220 (442)
Q Consensus       151 g~~~~A~~l~~~M~~~g-~~p~----~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~-p~----~~t~~~li~~~~~~  220 (442)
                      |++++|.+.+++..... -.++    ..+|..+...|...|++++|...+++.....-. .+    ..++..+-..+  .
T Consensus       201 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~--~  278 (406)
T 3sf4_A          201 GNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTY--T  278 (406)
T ss_dssp             TBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--H
T ss_pred             cCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHH--H
Confidence            99999999999876431 1122    347888888999999999999999987643111 12    22444555555  4


Q ss_pred             cCCCcccchhhHHHHHHhcCCcccCCccccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHH
Q 013497          221 KVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREV  300 (442)
Q Consensus       221 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~  300 (442)
                      ..|...-....+.+++....                   .                ..-.+.....+..+-..+...|+.
T Consensus       279 ~~g~~~~A~~~~~~a~~~~~-------------------~----------------~~~~~~~~~~~~~la~~~~~~g~~  323 (406)
T 3sf4_A          279 LLQDYEKAIDYHLKHLAIAQ-------------------E----------------LNDRIGEGRACWSLGNAYTALGNH  323 (406)
T ss_dssp             HTTCHHHHHHHHHHHHHHHH-------------------H----------------TTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HhCcHHHHHHHHHHHHHHHH-------------------h----------------cCCcHHHHHHHHHHHHHHHHcCCH
Confidence            33222112222223322210                   0                000112344455555567788999


Q ss_pred             HhhHHHHHHHHHH
Q 013497          301 KANFSEFQDWLEK  313 (442)
Q Consensus       301 ~~a~~~F~~m~~~  313 (442)
                      ++|.+.|++-++-
T Consensus       324 ~~A~~~~~~al~~  336 (406)
T 3sf4_A          324 DQAMHFAEKHLEI  336 (406)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999987763

>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=97.97  E-value=0.00028  Score=65.68  Aligned_cols=168  Identities=6%  Similarity=-0.087  Sum_probs=121.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCCHH----HHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC-
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQN-LRLSLH----HFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI-   98 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g-~~p~~~----ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~-   98 (442)
                      .+...+..+.+.|++++|.+++++..+.. ..|+..    .|..+...+...+        .+++|...|++....... 
T Consensus        77 ~l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~--------~~~~Ai~~~~~al~~~~~~  148 (293)
T 3u3w_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKV--------DYEYCILELKKLLNQQLTG  148 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSS--------CHHHHHHHHHHHHHTCCCC
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHccc--------CHHHHHHHHHHHHHHhccc
Confidence            34445788899999999999999987643 223321    2223333555555        799999999998874332 


Q ss_pred             CC----HHHHHHHHHHHHhcCCHHHHHHHHHHhHh---hC-CCCCCc-ccHHHHHHHHHHcCCHHHHHHHHHHHHH----
Q 013497           99 PN----EASVTSVARLAASKNDGDYAFVLIKRMNN---EF-NVVPRL-RTYDPALFCFCENLEAEKAYEVEEHMGL----  165 (442)
Q Consensus        99 p~----~~ty~~li~~~~~~g~~~~A~~~~~~m~~---~~-g~~p~~-~ty~~li~~~~~~g~~~~A~~l~~~M~~----  165 (442)
                      ++    ..+|+.+-..|...|++++|...|++...   .. +..|.. .+|..+-..|.+.|++++|.+.+++..+    
T Consensus       149 ~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~  228 (293)
T 3u3w_A          149 IDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCR  228 (293)
T ss_dssp             SCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            33    34789999999999999999999998762   11 222222 4788899999999999999999887653    


Q ss_pred             CCCCCC-HHHHHHHHHHHHhcC-CHHHHHHHHHHHHh
Q 013497          166 MGLSLE-QQEIAALLKVSAETG-RVEKVYQYLQKLRS  200 (442)
Q Consensus       166 ~g~~p~-~~ty~~li~~~~~~g-~~~~a~~ll~~m~~  200 (442)
                      .+..+. ..+|..+-.+|.+.| ..++|.+.+++...
T Consensus       229 ~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          229 INSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             TTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             cCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            233333 568888888999999 46999998887643

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=97.96  E-value=0.00095  Score=60.61  Aligned_cols=170  Identities=8%  Similarity=-0.046  Sum_probs=124.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC-HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCC-CCC-
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLR-LS-LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNV-IPN-  100 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~-p~-~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~-~p~-  100 (442)
                      .+-.+-..+.+.|++++|+..|+++.+..-. |. ...+..+-.++...+        ++++|...|+...+... .|. 
T Consensus        17 ~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~--------~~~~A~~~~~~~l~~~p~~~~~   88 (261)
T 3qky_A           17 EAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNK--------EYLLAASEYERFIQIYQIDPRV   88 (261)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCTTCTTH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhC--------cHHHHHHHHHHHHHHCCCCchh
Confidence            5555566778899999999999999875311 11 345555555677777        89999999999887543 222 


Q ss_pred             HHHHHHHHHHHHh--------cCCHHHHHHHHHHhHhhCCCCCCc-ccH-----------------HHHHHHHHHcCCHH
Q 013497          101 EASVTSVARLAAS--------KNDGDYAFVLIKRMNNEFNVVPRL-RTY-----------------DPALFCFCENLEAE  154 (442)
Q Consensus       101 ~~ty~~li~~~~~--------~g~~~~A~~~~~~m~~~~g~~p~~-~ty-----------------~~li~~~~~~g~~~  154 (442)
                      ..++..+-.++..        .|++++|...|++.. ..  .|+. ...                 -.+-..|.+.|+++
T Consensus        89 ~~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l-~~--~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~  165 (261)
T 3qky_A           89 PQAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFI-DR--YPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYE  165 (261)
T ss_dssp             HHHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHH-HH--CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHH-HH--CcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHH
Confidence            4566777778888        999999999999988 43  4543 333                 34467788999999


Q ss_pred             HHHHHHHHHHHCCCC-C-CHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHhccCCCCh
Q 013497          155 KAYEVEEHMGLMGLS-L-EQQEIAALLKVSAET----------GRVEKVYQYLQKLRSTVRCVNE  207 (442)
Q Consensus       155 ~A~~l~~~M~~~g~~-p-~~~ty~~li~~~~~~----------g~~~~a~~ll~~m~~~~~~p~~  207 (442)
                      +|...|+......-. | ....+..+..+|.+.          |++++|...|++....  .|+.
T Consensus       166 ~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~  228 (261)
T 3qky_A          166 AAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI--FPDS  228 (261)
T ss_dssp             HHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH--CCCC
Confidence            999999999875321 1 245677777778765          8899999999998875  4554

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=97.96  E-value=0.00056  Score=63.53  Aligned_cols=167  Identities=7%  Similarity=-0.085  Sum_probs=119.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-H----HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCC--
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLS-L----HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNV--   97 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~-~----~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~--   97 (442)
                      .+...+..+...|++++|.+.+.+..+..-..+ .    ..+..+-..+...+        .+++|.+.|++..+...  
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~A~~~~~~al~~~~~~  148 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKV--------DYEYCILELKKLLNQQLTG  148 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSS--------CHHHHHHHHHHHHTTCCCS
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCC--------CHHHHHHHHHHHHHHHhcC
Confidence            345667788999999999999998776432211 1    11222222455555        89999999998875322  


Q ss_pred             -CCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-----cccHHHHHHHHHHcCCHHHHHHHHHHHHHC---
Q 013497           98 -IPN--EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-----LRTYDPALFCFCENLEAEKAYEVEEHMGLM---  166 (442)
Q Consensus        98 -~p~--~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-----~~ty~~li~~~~~~g~~~~A~~l~~~M~~~---  166 (442)
                       .+.  ..+|+.+-..|...|++++|...|++........|+     ..+|+.+-..|.+.|++++|.+.+++....   
T Consensus       149 ~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~  228 (293)
T 2qfc_A          149 IDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCR  228 (293)
T ss_dssp             SCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence             122  458899999999999999999999987511111222     258888999999999999999999887543   


Q ss_pred             -CCCC-CHHHHHHHHHHHHhcCCHHHH-HHHHHHHH
Q 013497          167 -GLSL-EQQEIAALLKVSAETGRVEKV-YQYLQKLR  199 (442)
Q Consensus       167 -g~~p-~~~ty~~li~~~~~~g~~~~a-~~ll~~m~  199 (442)
                       +... -..+|..+-..|.+.|+.++| ...+++-.
T Consensus       229 ~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          229 INSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             TTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             cCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence             2111 156788888999999999999 77676643

>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=97.94  E-value=0.00054  Score=59.85  Aligned_cols=124  Identities=10%  Similarity=-0.008  Sum_probs=69.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHH
Q 013497           26 FLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVT  105 (442)
Q Consensus        26 ~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~  105 (442)
                      +..+-..+.+.|++++|+..|++.    +.|+...|..+-..+...+        ++++|.+.|++..+.. +.+..+|.
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g--------~~~~A~~~~~~al~~~-~~~~~~~~   75 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILK--------NMTEAEKAFTRSINRD-KHLAVAYF   75 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHhC-ccchHHHH
Confidence            334444555666666666666654    2445555555555555555        6666666666655443 23455666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-c----------------ccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 013497          106 SVARLAASKNDGDYAFVLIKRMNNEFNVVPR-L----------------RTYDPALFCFCENLEAEKAYEVEEHMGL  165 (442)
Q Consensus       106 ~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~----------------~ty~~li~~~~~~g~~~~A~~l~~~M~~  165 (442)
                      .+-..|...|++++|...|++.. ..  .|+ .                ..+..+-..|.+.|+.++|.+.|+...+
T Consensus        76 ~lg~~~~~~~~~~~A~~~~~~al-~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  149 (213)
T 1hh8_A           76 QRGMLYYQTEKYDLAIKDLKEAL-IQ--LRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  149 (213)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH-HT--TTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcccHHHHHHHHHHHH-Hh--CCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            66666666666666666666655 32  111 1                3444455555555555555555555544

>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=97.92  E-value=8.1e-05  Score=63.63  Aligned_cols=162  Identities=7%  Similarity=0.025  Sum_probs=117.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+..+-..+.+.|++++|+..|++..+.. +-+...+..+-.++...|        ++++|...|+......  |+...+
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g--------~~~~A~~~~~~a~~~~--p~~~~~   76 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETK--------QFELAQELLATIPLEY--QDNSYK   76 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTT--------CHHHHHHHHTTCCGGG--CCHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCC--------CHHHHHHHHHHhhhcc--CChHHH
Confidence            55566677889999999999999865431 224456666666777787        8999999999875543  344333


Q ss_pred             HHHHHH-HHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHH
Q 013497          105 TSVARL-AASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSL-EQQEIAALLKV  181 (442)
Q Consensus       105 ~~li~~-~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p-~~~ty~~li~~  181 (442)
                      ..+... +...+...+|...+++.. ..  .|+ ...+..+-..+...|+.++|...|++..+..-.+ +...+..|...
T Consensus        77 ~~~~~~~~~~~~~~~~a~~~~~~al-~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~  153 (176)
T 2r5s_A           77 SLIAKLELHQQAAESPELKRLEQEL-AA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDI  153 (176)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHH-HH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccchHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHH
Confidence            322211 222233345788888877 32  454 6788888899999999999999999998765332 35678899999


Q ss_pred             HHhcCCHHHHHHHHHHHHh
Q 013497          182 SAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       182 ~~~~g~~~~a~~ll~~m~~  200 (442)
                      +...|+.++|...+++...
T Consensus       154 ~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A          154 LSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHHCSSCHHHHHHHHHHH
T ss_pred             HHHhCCCCcHHHHHHHHHH
Confidence            9999999999999886643

>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=97.92  E-value=0.00057  Score=72.15  Aligned_cols=163  Identities=11%  Similarity=0.060  Sum_probs=127.2

Q ss_pred             HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-
Q 013497           58 LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-  136 (442)
Q Consensus        58 ~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-  136 (442)
                      +.+|+.|=.++...|        ++++|.+.|++..+... -+..+|+.+-.+|.+.|++++|+..|++.. +.  .|+ 
T Consensus         9 a~al~nLG~~~~~~G--------~~~eAi~~~~kAl~l~P-~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al-~l--~P~~   76 (723)
T 4gyw_A            9 ADSLNNLANIKREQG--------NIEEAVRLYRKALEVFP-EFAAAHSNLASVLQQQGKLQEALMHYKEAI-RI--SPTF   76 (723)
T ss_dssp             HHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CTTC
T ss_pred             HHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hh--CCCC
Confidence            456777766888888        99999999999877532 257899999999999999999999999987 43  564 


Q ss_pred             cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC-hHHHHHHHH
Q 013497          137 LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVN-EETGKIIED  215 (442)
Q Consensus       137 ~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~-~~t~~~li~  215 (442)
                      ...|..+-..|.+.|++++|.+.|++..+..- -+...|+.|-..|.+.|++++|.+.|++..+.  .|+ ...+..+..
T Consensus        77 ~~a~~nLg~~l~~~g~~~~A~~~~~kAl~l~P-~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~  153 (723)
T 4gyw_A           77 ADAYSNMGNTLKEMQDVQGALQCYTRAIQINP-AFADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAH  153 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhh
Confidence            57899999999999999999999999887532 25778999999999999999999999988764  454 456666766


Q ss_pred             HhccccCCCcccchhhHHHHHH
Q 013497          216 WFSGQKVNGVSCDLGLVKNAVL  237 (442)
Q Consensus       216 ~~~~~~~~~~~~~~~~~~~a~~  237 (442)
                      .+  ...+.........++++.
T Consensus       154 ~l--~~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          154 CL--QIVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             HH--HHTTCCTTHHHHHHHHHH
T ss_pred             HH--HhcccHHHHHHHHHHHHH
Confidence            66  444333333344444443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=97.88  E-value=0.00037  Score=61.36  Aligned_cols=164  Identities=12%  Similarity=0.094  Sum_probs=114.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHH----------------HHHHHHhcCCCCCCchhhHHHHHHHHHHH
Q 013497           30 LQSCTKSKDLTTAISLYESAHSQNLRLS-LHHFNA----------------LLYLCSDSATDPSSKDSALRHGFRVFDQM   92 (442)
Q Consensus        30 i~~~~k~g~~~~A~~lf~~m~~~g~~p~-~~ty~~----------------ll~~~~~~~~~~~~~~~~~~~a~~l~~~M   92 (442)
                      -..+.+.|++++|+..|++..+.  .|+ ...|..                +-.++...|        ++++|...|++.
T Consensus        11 g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g--------~~~~A~~~~~~a   80 (208)
T 3urz_A           11 VSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNR--------NYDKAYLFYKEL   80 (208)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCC--------CHHHHHHHHHHH
Confidence            34566899999999999998764  233 233433                444677777        899999999998


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCH--HHHHHHHHHHHHCCCC
Q 013497           93 LSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEA--EKAYEVEEHMGLMGLS  169 (442)
Q Consensus        93 ~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~--~~A~~l~~~M~~~g~~  169 (442)
                      .+... -+..+|..+-..|...|++++|...|++.. ..  .|+ ..+|..+-..|...|+.  +.+...+....    .
T Consensus        81 l~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al-~~--~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~----~  152 (208)
T 3urz_A           81 LQKAP-NNVDCLEACAEMQVCRGQEKDALRMYEKIL-QL--EADNLAANIFLGNYYYLTAEQEKKKLETDYKKLS----S  152 (208)
T ss_dssp             HHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC-------C
T ss_pred             HHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hc--CCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHh----C
Confidence            87643 368899999999999999999999999988 43  454 56777777777665543  34455555443    3


Q ss_pred             CCHHH--HHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHH
Q 013497          170 LEQQE--IAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKII  213 (442)
Q Consensus       170 p~~~t--y~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~l  213 (442)
                      |+...  +..+-.++...|++++|...|++..+.  .|+......+
T Consensus       153 ~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l--~P~~~~~~~l  196 (208)
T 3urz_A          153 PTKMQYARYRDGLSKLFTTRYEKARNSLQKVILR--FPSTEAQKTL  196 (208)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTT--SCCHHHHHHH
T ss_pred             CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCHHHHHHH
Confidence            44433  333344455688999999999988754  6776655444

>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=97.88  E-value=0.00061  Score=60.37  Aligned_cols=136  Identities=6%  Similarity=-0.107  Sum_probs=109.0

Q ss_pred             CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-
Q 013497           57 SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-  135 (442)
Q Consensus        57 ~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-  135 (442)
                      |+..|..+=..+...+        ++++|.+.|+...+....++..++..+-.++...|++++|...|++.. ..  .| 
T Consensus         6 ~~~~~~~~g~~~~~~~--------~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al-~~--~p~   74 (228)
T 4i17_A            6 DPNQLKNEGNDALNAK--------NYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAI-KK--NYN   74 (228)
T ss_dssp             CHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HT--TCS
T ss_pred             CHHHHHHHHHHHHHcc--------CHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHH-Hh--Ccc
Confidence            4455555555666666        899999999999887665788888889999999999999999999988 43  45 


Q ss_pred             CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC
Q 013497          136 RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQ-------QEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVN  206 (442)
Q Consensus       136 ~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~-------~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~  206 (442)
                      +...|..+-..|...|+.++|.+.+++..+..- .+.       ..|..+-..+...|++++|.+.|++..+.  .|+
T Consensus        75 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~  149 (228)
T 4i17_A           75 LANAYIGKSAAYRDMKNNQEYIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSK  149 (228)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCC
Confidence            456788899999999999999999999887532 133       45777777888899999999999988764  454

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=97.86  E-value=0.00057  Score=53.38  Aligned_cols=97  Identities=11%  Similarity=0.061  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013497          101 EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLK  180 (442)
Q Consensus       101 ~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~  180 (442)
                      ..+|..+...+...|++++|.++++++. ... ..+..++..+...|.+.|++++|..+++.+.... ..+..++..+..
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   85 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKAL-ELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGN   85 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHH-HHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHH
Confidence            3445555555666666666666666655 221 2234455555566666666666666666655432 224455555666


Q ss_pred             HHHhcCCHHHHHHHHHHHHh
Q 013497          181 VSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       181 ~~~~~g~~~~a~~ll~~m~~  200 (442)
                      .+...|++++|...|++...
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           86 AYYKQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHH
Confidence            66666666666666665544

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=97.85  E-value=0.00021  Score=66.56  Aligned_cols=163  Identities=9%  Similarity=0.019  Sum_probs=115.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCCC-HHHHHHHHHHHHhc-CCCCCCchhhHHHHHHHHHHHHhCCCC
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHS----QNLRLS-LHHFNALLYLCSDS-ATDPSSKDSALRHGFRVFDQMLSNNVI   98 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~----~g~~p~-~~ty~~ll~~~~~~-~~~~~~~~~~~~~a~~l~~~M~~~g~~   98 (442)
                      +|+.+-..|.+.|++++|+..|++..+    .|-.+. ..+|+.+-.++... +        ++++|.+.|++..+....
T Consensus        79 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg--------~~~~A~~~~~~Al~~~~~  150 (292)
T 1qqe_A           79 TYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLH--------DYAKAIDCYELAGEWYAQ  150 (292)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC--------CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhc--------CHHHHHHHHHHHHHHHHh
Confidence            899999999999999999999998763    222111 34666666677774 7        899999999987653211


Q ss_pred             ----CC-HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcc------cHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 013497           99 ----PN-EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLR------TYDPALFCFCENLEAEKAYEVEEHMGLMG  167 (442)
Q Consensus        99 ----p~-~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~------ty~~li~~~~~~g~~~~A~~l~~~M~~~g  167 (442)
                          +. ..+|+.+-..|.+.|++++|...|++.. .........      +|..+..++...|+.++|...|++..+. 
T Consensus       151 ~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al-~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l-  228 (292)
T 1qqe_A          151 DQSVALSNKCFIKCADLKALDGQYIEASDIYSKLI-KSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE-  228 (292)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             CCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH-HHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-
Confidence                11 3578889999999999999999999988 432221111      4677778899999999999999987653 


Q ss_pred             CCCCH------HHHHHHHHHHH--hcCCHHHHHHHHHHH
Q 013497          168 LSLEQ------QEIAALLKVSA--ETGRVEKVYQYLQKL  198 (442)
Q Consensus       168 ~~p~~------~ty~~li~~~~--~~g~~~~a~~ll~~m  198 (442)
                       .|+.      ..+..|+.++.  ..+++++|...|+++
T Consensus       229 -~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~  266 (292)
T 1qqe_A          229 -DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (292)
T ss_dssp             ----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             -CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccC
Confidence             3332      23445566664  355677777776544

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.83  E-value=0.012  Score=58.79  Aligned_cols=160  Identities=6%  Similarity=-0.073  Sum_probs=85.8

Q ss_pred             HHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC
Q 013497           25 NFLINLQSCTK----SKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN  100 (442)
Q Consensus        25 ~~~~li~~~~k----~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~  100 (442)
                      .+..|=..|..    .++.++|+..|++..+.|   +...+..|-.+|..+.    ...++.++|.+.|+...+.|   +
T Consensus       113 a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~----g~~~d~~~A~~~~~~a~~~~---~  182 (490)
T 2xm6_A          113 AQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGD----GVTRDYVMAREWYSKAAEQG---N  182 (490)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTS----SSCCCHHHHHHHHHHHHHTT---C
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCC----CCCCCHHHHHHHHHHHHHCC---C
Confidence            33344445555    667777777777766655   2344444444444311    00115666666666665553   4


Q ss_pred             HHHHHHHHHHHHh----cCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCH
Q 013497          101 EASVTSVARLAAS----KNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCE----NLEAEKAYEVEEHMGLMGLSLEQ  172 (442)
Q Consensus       101 ~~ty~~li~~~~~----~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~----~g~~~~A~~l~~~M~~~g~~p~~  172 (442)
                      ..++..|-..|..    .++.++|.+.|+... +.|   +...+..+-..|..    .++.++|.+.|+...+.|   +.
T Consensus       183 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~-~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  255 (490)
T 2xm6_A          183 VWSCNQLGYMYSRGLGVERNDAISAQWYRKSA-TSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NS  255 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHH-HTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CH
T ss_pred             HHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHH-HCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            5555556666655    566666666666655 433   34445555555554    556666666666655543   23


Q ss_pred             HHHHHHHHHHHh----cCCHHHHHHHHHHHHhc
Q 013497          173 QEIAALLKVSAE----TGRVEKVYQYLQKLRST  201 (442)
Q Consensus       173 ~ty~~li~~~~~----~g~~~~a~~ll~~m~~~  201 (442)
                      ..+..|-..|..    .++.++|.++|++..+.
T Consensus       256 ~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~  288 (490)
T 2xm6_A          256 IAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQ  288 (490)
T ss_dssp             HHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHc
Confidence            344444444444    55666666666555443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=97.83  E-value=0.00025  Score=65.93  Aligned_cols=156  Identities=10%  Similarity=-0.042  Sum_probs=72.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 013497           28 INLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSV  107 (442)
Q Consensus        28 ~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~l  107 (442)
                      .+-..+.+.|++++|...|++..+.. +-+...+..|-.++...|        ++++|.++|+.....  .|+.......
T Consensus       122 ~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g--------~~~~A~~~l~~~~~~--~p~~~~~~~~  190 (287)
T 3qou_A          122 QQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALN--------RSEDAEAVLXTIPLQ--DQDTRYQGLV  190 (287)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTT--------CHHHHHHHHTTSCGG--GCSHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCC--------CHHHHHHHHHhCchh--hcchHHHHHH
Confidence            33344455555555555555554331 112333444444444554        555555555554332  2332222111


Q ss_pred             H-HHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHh
Q 013497          108 A-RLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLS-LEQQEIAALLKVSAE  184 (442)
Q Consensus       108 i-~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~-p~~~ty~~li~~~~~  184 (442)
                      . ..+.+.++.++|...+++.. ..  .| +...+..+-..|...|+.++|...|.+.....-. .+...+..|...+..
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al-~~--~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~  267 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQV-AE--NPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAA  267 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccCccHHHHHHHH-hc--CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHH
Confidence            1 12344445555555555544 22  22 3344555555555555555555555555543211 113445555555555


Q ss_pred             cCCHHHHHHHHHH
Q 013497          185 TGRVEKVYQYLQK  197 (442)
Q Consensus       185 ~g~~~~a~~ll~~  197 (442)
                      .|+.++|...+++
T Consensus       268 ~g~~~~a~~~~r~  280 (287)
T 3qou_A          268 LGTGDALASXYRR  280 (287)
T ss_dssp             HCTTCHHHHHHHH
T ss_pred             cCCCCcHHHHHHH
Confidence            5555555554443

>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=97.81  E-value=0.0018  Score=56.43  Aligned_cols=115  Identities=10%  Similarity=-0.022  Sum_probs=97.8

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVE  160 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~  160 (442)
                      ++++|.+.|++.    +.|+..+|..+...|.+.|++++|...|++.. ... ..+...|..+-..|...|++++|.+.|
T Consensus        21 ~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al-~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~   94 (213)
T 1hh8_A           21 DWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSI-NRD-KHLAVAYFQRGMLYYQTEKYDLAIKDL   94 (213)
T ss_dssp             CHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhC-ccchHHHHHHHHHHHHcccHHHHHHHH
Confidence            899999999876    57789999999999999999999999999987 432 335678889999999999999999999


Q ss_pred             HHHHHCCC--------------CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          161 EHMGLMGL--------------SL-EQQEIAALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       161 ~~M~~~g~--------------~p-~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      +...+..-              .| ....+..+-.++.+.|+.++|...|++....
T Consensus        95 ~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           95 KEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            99987531              12 2367888889999999999999999998765

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=97.81  E-value=0.015  Score=58.05  Aligned_cols=149  Identities=13%  Similarity=0.026  Sum_probs=79.7

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--
Q 013497           36 SKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAAS--  113 (442)
Q Consensus        36 ~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~--  113 (442)
                      .++.++|+..|.+..+.|.   +..+..|=..|..+.    ...++.++|.+.|++..+.|   +...+..|-..|..  
T Consensus        56 ~~~~~~A~~~~~~a~~~~~---~~a~~~Lg~~y~~g~----g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~  125 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQGY---TPAEYVLGLRYMNGE----GVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGN  125 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHTS----SSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTS
T ss_pred             CcCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHcCC----CCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCC
Confidence            6667777777766665542   334444433444410    00115666666666665544   34455555555555  


Q ss_pred             --cCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh---
Q 013497          114 --KNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCE----NLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE---  184 (442)
Q Consensus       114 --~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~----~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~---  184 (442)
                        .+++++|...|+... ..|   +...+..|-..|..    .++.++|.+.|+...+.|   +...+..|-..|..   
T Consensus       126 g~~~~~~~A~~~~~~a~-~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g  198 (490)
T 2xm6_A          126 GVKVDKAESVKWFRLAA-EQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLG  198 (490)
T ss_dssp             SSCCCHHHHHHHHHHHH-HTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSS
T ss_pred             CCCCCHHHHHHHHHHHH-HCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCC
Confidence              556666666666655 433   33444555555554    556666666666655543   44455555555555   


Q ss_pred             -cCCHHHHHHHHHHHHhc
Q 013497          185 -TGRVEKVYQYLQKLRST  201 (442)
Q Consensus       185 -~g~~~~a~~ll~~m~~~  201 (442)
                       .++.++|.++|++-.+.
T Consensus       199 ~~~~~~~A~~~~~~a~~~  216 (490)
T 2xm6_A          199 VERNDAISAQWYRKSATS  216 (490)
T ss_dssp             SCCCHHHHHHHHHHHHHT
T ss_pred             CCcCHHHHHHHHHHHHHC
Confidence             55566666665555443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=97.78  E-value=0.00049  Score=53.77  Aligned_cols=104  Identities=10%  Similarity=0.034  Sum_probs=80.7

Q ss_pred             CCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHH
Q 013497           76 SSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEK  155 (442)
Q Consensus        76 ~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~  155 (442)
                      +...|++++|.++|+++.... +.+..++..+...+.+.|++++|..+|+++. ... ..+..++..+...|...|++++
T Consensus        19 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~~~la~~~~~~~~~~~   95 (125)
T 1na0_A           19 YYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKAL-ELD-PNNAEAWYNLGNAYYKQGDYDE   95 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHH-HhC-CccHHHHHHHHHHHHHhcCHHH
Confidence            345678999999999988754 3467889999999999999999999999988 432 3356788899999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          156 AYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       156 A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      |...++.+..... .+...+..+-..+.
T Consensus        96 A~~~~~~~~~~~~-~~~~~~~~l~~~~~  122 (125)
T 1na0_A           96 AIEYYQKALELDP-NNAEAKQNLGNAKQ  122 (125)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCC-CcHHHHHHHHHHHH
Confidence            9999999876532 23444554444443

>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=97.78  E-value=0.0037  Score=69.18  Aligned_cols=214  Identities=11%  Similarity=0.073  Sum_probs=126.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|.-++..|.+.|++++|.+.|...++..  +++...+.+..+|.+.+        ++++..+..       -.|+...|
T Consensus      1136 ay~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~--------rleele~fI-------~~~n~ad~ 1198 (1630)
T 1xi4_A         1136 SYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTN--------RLAELEEFI-------NGPNNAHI 1198 (1630)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhc--------CHHHHHHHH-------hCCCHHHH
Confidence            67779999999999999999998877554  23222333555666655        454322221       12344555


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH-------------------
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGL-------------------  165 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~-------------------  165 (442)
                      ..+-..|...|++++|..+|....          .|..+..+|++.|++++|.+.+++-..                   
T Consensus      1199 ~~iGd~le~eg~YeeA~~~Y~kA~----------ny~rLA~tLvkLge~q~AIEaarKA~n~~aWkev~~acve~~Ef~L 1268 (1630)
T 1xi4_A         1199 QQVGDRCYDEKMYDAAKLLYNNVS----------NFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRL 1268 (1630)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHhhh----------HHHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHHHHHHHhhhhHHHH
Confidence            555566666666666666665421          455566666666666655555443311                   


Q ss_pred             -----CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhccccCCCcccchhhHHHHHHhcC
Q 013497          166 -----MGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNG  240 (442)
Q Consensus       166 -----~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~  240 (442)
                           .++..+...+..++..|-+.|.+++|..+++.-.... .-....|+-+-..+  ++.     ..+++.|+++.+.
T Consensus      1269 A~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELaiLy--aKy-----~peklmEhlk~f~ 1340 (1630)
T 1xi4_A         1269 AQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILY--SKF-----KPQKMREHLELFW 1340 (1630)
T ss_pred             HHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHHHH--HhC-----CHHHHHHHHHHHH
Confidence                 0123355567788888888888888888885443221 12223444454555  221     2266666666532


Q ss_pred             CcccCCccccccceEEeeeccCCC---CCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHH
Q 013497          241 GGWHGLGWIGQGKWVVKRGSVDES---GKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFS  305 (442)
Q Consensus       241 ~~~~~~~~~~~~~w~v~~~~~~~~---g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~  305 (442)
                                        +.+...   -.|.              +...|..++.=|.+.|+.+.|..
T Consensus      1341 ------------------~rini~k~~r~~e--------------~~~lW~elv~LY~~~~e~dnA~~ 1376 (1630)
T 1xi4_A         1341 ------------------SRVNIPKVLRAAE--------------QAHLWAELVFLYDKYEEYDNAII 1376 (1630)
T ss_pred             ------------------HhcccchHhHHHH--------------HHHHHHHHHHHHHhcccHHHHHH
Confidence                              111111   1233              88889999999999999998874

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=97.74  E-value=0.00029  Score=60.85  Aligned_cols=159  Identities=9%  Similarity=-0.057  Sum_probs=110.8

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHh----CCCCC-CHHHHHHHH
Q 013497           34 TKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLS----NNVIP-NEASVTSVA  108 (442)
Q Consensus        34 ~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~----~g~~p-~~~ty~~li  108 (442)
                      ...|++++|.++++..... ......++..+-..+...+        ++++|.+.|++..+    .+..| ...++..+-
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~   73 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMD--------RFDEARASFQALQQQAQKSGDHTAEHRALHQVG   73 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhC--------cHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHH
Confidence            4578999999955555431 1234556666666777777        89999999988765    22222 356788888


Q ss_pred             HHHHhcCCHHHHHHHHHHhHhh---CCCCC--CcccHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHH
Q 013497          109 RLAASKNDGDYAFVLIKRMNNE---FNVVP--RLRTYDPALFCFCENLEAEKAYEVEEHMGLM----GLSL-EQQEIAAL  178 (442)
Q Consensus       109 ~~~~~~g~~~~A~~~~~~m~~~---~g~~p--~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~----g~~p-~~~ty~~l  178 (442)
                      ..|...|++++|...+++....   .+-.|  ...++..+-..+...|++++|...+++....    +-.+ -..++..+
T Consensus        74 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  153 (203)
T 3gw4_A           74 MVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGL  153 (203)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHH
Confidence            8999999999999999987622   22111  1345788888899999999999999887642    2111 12346778


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhc
Q 013497          179 LKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       179 i~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      -..+...|+.++|.+.+++....
T Consensus       154 a~~~~~~g~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          154 GDLAQQEKNLLEAQQHWLRARDI  176 (203)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHH
Confidence            88889999999999999877553

>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=97.72  E-value=0.00032  Score=65.83  Aligned_cols=165  Identities=9%  Similarity=0.021  Sum_probs=120.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC----
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQ----NLRLS-LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN----   95 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~----g~~p~-~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~----   95 (442)
                      .|+.....|...|++++|...|.+..+.    |-.+. ..+|+.+-.+|...+        ++++|.+.|++..+.    
T Consensus        38 ~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g--------~~~~A~~~~~~Al~l~~~~  109 (307)
T 2ifu_A           38 EYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQ--------RMPEAVQYIEKASVMYVEN  109 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--------CGGGGHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCC--------CHHHHHHHHHHHHHHHHHc
Confidence            7888889999999999999999986532    21111 346777767777777        788888888765432    


Q ss_pred             CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhC----CCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHC---
Q 013497           96 NVIP-NEASVTSVARLAASKNDGDYAFVLIKRMNNEF----NVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLM---  166 (442)
Q Consensus        96 g~~p-~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~----g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~---  166 (442)
                      |-.+ -..+++.+-..|.. |++++|+..|++.. ..    +-.+ ...+|+.+-..|.+.|++++|.+.|++....   
T Consensus       110 g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al-~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~  187 (307)
T 2ifu_A          110 GTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAA-AVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKE  187 (307)
T ss_dssp             TCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHH-HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHH-HHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            2111 14577888888888 99999999999876 21    1100 1357888899999999999999999988653   


Q ss_pred             -CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 013497          167 -GLSLEQ-QEIAALLKVSAETGRVEKVYQYLQKLR  199 (442)
Q Consensus       167 -g~~p~~-~ty~~li~~~~~~g~~~~a~~ll~~m~  199 (442)
                       +..+.. ..+..+..++...|+.++|...|++..
T Consensus       188 ~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          188 MENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             cCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence             222222 256677777888899999999999876

>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=97.70  E-value=0.001  Score=55.14  Aligned_cols=94  Identities=11%  Similarity=-0.018  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+-..+.+.|++++|...|.+..+.. +.+..++..+-..+...+        ++++|.+.|++..+.. +.+..+|
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~--------~~~~A~~~~~~a~~~~-~~~~~~~   84 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTE--------CYGYALGDATRAIELD-KKYIKGY   84 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHhC-cccHHHH
Confidence            34444445555555555555555544321 112333333333333333        4445555444443322 1233444


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      ..+...+...|++++|...|++..
T Consensus        85 ~~~a~~~~~~~~~~~A~~~~~~a~  108 (166)
T 1a17_A           85 YRRAASNMALGKFRAALRDYETVV  108 (166)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHH
Confidence            444444444444444444444443

>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=97.69  E-value=0.0016  Score=53.98  Aligned_cols=128  Identities=9%  Similarity=-0.035  Sum_probs=96.4

Q ss_pred             HHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCccc
Q 013497           60 HFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRT  139 (442)
Q Consensus        60 ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~t  139 (442)
                      .+..+-..+...+        ++++|...|+...+.. +.+..++..+...+...|++++|...+++.. ... ..+...
T Consensus        15 ~~~~~a~~~~~~~--------~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~-~~~-~~~~~~   83 (166)
T 1a17_A           15 ELKTQANDYFKAK--------DYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAI-ELD-KKYIKG   83 (166)
T ss_dssp             HHHHHHHHHHHTT--------CHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHHH
T ss_pred             HHHHHHHHHHHcc--------CHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhC-cccHHH
Confidence            3444444555666        8999999999987753 2367888999999999999999999999987 432 234567


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH--HHHHHHHhcCCHHHHHHHHHHHH
Q 013497          140 YDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIA--ALLKVSAETGRVEKVYQYLQKLR  199 (442)
Q Consensus       140 y~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~--~li~~~~~~g~~~~a~~ll~~m~  199 (442)
                      |..+-..|...|+.++|.+.|++.....- .+...+.  .+...+.+.|++++|...+....
T Consensus        84 ~~~~a~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           84 YYRRAASNMALGKFRAALRDYETVVKVKP-HDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            88888899999999999999999876532 2344443  33444777899999998887654

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=97.66  E-value=0.00052  Score=66.29  Aligned_cols=165  Identities=12%  Similarity=0.043  Sum_probs=121.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC----
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQ----NLRL-SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN----   95 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~----g~~p-~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~----   95 (442)
                      +++.+-..|...|++++|+..|.+..+.    +-.+ ...+|..+=.++...|        ++++|.+.|++..+.    
T Consensus       186 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g--------~~~~A~~~~~~al~~~~~~  257 (383)
T 3ulq_A          186 CHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQS--------QYEDAIPYFKRAIAVFEES  257 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHHHHHhh
Confidence            7888889999999999999999987632    2111 1135555555777777        899999999987761    


Q ss_pred             CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhh---CCCCCCcccHHHHHHHHHHcCC---HHHHHHHHHHHHHCCC
Q 013497           96 NV-IPNEASVTSVARLAASKNDGDYAFVLIKRMNNE---FNVVPRLRTYDPALFCFCENLE---AEKAYEVEEHMGLMGL  168 (442)
Q Consensus        96 g~-~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~---~g~~p~~~ty~~li~~~~~~g~---~~~A~~l~~~M~~~g~  168 (442)
                      +. +....++..+-..|.+.|++++|...+++....   .+-......++.+-..|...|+   +++|..+++..   +.
T Consensus       258 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~  334 (383)
T 3ulq_A          258 NILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---ML  334 (383)
T ss_dssp             TCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TC
T ss_pred             ccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cC
Confidence            33 334678899999999999999999999987611   1111112335677778888888   77788777765   33


Q ss_pred             CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          169 SLE-QQEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       169 ~p~-~~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      .|+ ...+..|-..|.+.|+.++|.+.+++...
T Consensus       335 ~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          335 YADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            333 34667788899999999999999987754

>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=97.64  E-value=0.0089  Score=52.49  Aligned_cols=165  Identities=10%  Similarity=-0.025  Sum_probs=123.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+..|=..|...+++++|+..|++..+.|.   +..+..|=.++...+.     ..+.++|.+.|+...+.|   +..++
T Consensus        20 a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~---~~a~~~lg~~y~~~g~-----~~~~~~A~~~~~~A~~~g---~~~a~   88 (212)
T 3rjv_A           20 AQYYLADTWVSSGDYQKAEYWAQKAAAQGD---GDALALLAQLKIRNPQ-----QADYPQARQLAEKAVEAG---SKSGE   88 (212)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTTC---HHHHHHHHHHTTSSTT-----SCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHHHHcCC---HHHHHHHHHHHHcCCC-----CCCHHHHHHHHHHHHHCC---CHHHH
Confidence            555566667778999999999999988773   4555555445544321     126999999999998776   56677


Q ss_pred             HHHHHHHHh----cCCHHHHHHHHHHhHhhCCCC-CCcccHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHH
Q 013497          105 TSVARLAAS----KNDGDYAFVLIKRMNNEFNVV-PRLRTYDPALFCFCE----NLEAEKAYEVEEHMGLMGLSLEQQEI  175 (442)
Q Consensus       105 ~~li~~~~~----~g~~~~A~~~~~~m~~~~g~~-p~~~ty~~li~~~~~----~g~~~~A~~l~~~M~~~g~~p~~~ty  175 (442)
                      ..|-..|..    .++.++|++.|++.. +.|.. .+...+..|-..|..    .++.++|.+.|+...+.+  .+...+
T Consensus        89 ~~Lg~~y~~g~g~~~d~~~A~~~~~~A~-~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~--~~~~a~  165 (212)
T 3rjv_A           89 IVLARVLVNRQAGATDVAHAITLLQDAA-RDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLS--RTGYAE  165 (212)
T ss_dssp             HHHHHHHTCGGGSSCCHHHHHHHHHHHT-SSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTS--CTTHHH
T ss_pred             HHHHHHHHcCCCCccCHHHHHHHHHHHH-HcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcC--CCHHHH
Confidence            778788877    889999999999987 55421 016778888888888    889999999999998762  244466


Q ss_pred             HHHHHHHHhc-C-----CHHHHHHHHHHHHhccC
Q 013497          176 AALLKVSAET-G-----RVEKVYQYLQKLRSTVR  203 (442)
Q Consensus       176 ~~li~~~~~~-g-----~~~~a~~ll~~m~~~~~  203 (442)
                      ..|-..|... |     +.++|..+|++-.+.|.
T Consensus       166 ~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          166 YWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            6677777653 3     89999999999887764

>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=97.62  E-value=0.00062  Score=57.75  Aligned_cols=135  Identities=7%  Similarity=0.025  Sum_probs=100.8

Q ss_pred             CCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHH-HHHcCCH
Q 013497           76 SSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFC-FCENLEA  153 (442)
Q Consensus        76 ~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~-~~~~g~~  153 (442)
                      +...|++++|...|+...+.. +.+..+|..+-..|...|++++|...|++.. ..  .| +...+..+... |...|+.
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al-~~--~p~~~~~~~~la~~l~~~~~~~   95 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQAL-QL--RGENAELYAALATVLYYQASQH   95 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--HCSCHHHHHHHHHHHHHHTTTC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hc--CCCCHHHHHHHHHHHHHhcCCc
Confidence            455678899999999877654 3477899999999999999999999999987 43  33 45567777777 7789998


Q ss_pred             --HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          154 --EKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       154 --~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                        ++|...++......- .+...+..+...|...|++++|...|.+....  .|+......++..+
T Consensus        96 ~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~i  158 (177)
T 2e2e_A           96 MTAQTRAMIDKALALDS-NEITALMLLASDAFMQANYAQAIELWQKVMDL--NSPRINRTQLVESI  158 (177)
T ss_dssp             CCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--CCTTSCHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh--CCCCccHHHHHHHH
Confidence              999999999887642 25678888889999999999999999998765  34333333444444

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=97.61  E-value=0.001  Score=64.10  Aligned_cols=164  Identities=9%  Similarity=0.014  Sum_probs=118.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHh-----
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQ----NLRL-SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLS-----   94 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~----g~~p-~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~-----   94 (442)
                      +++.+=..|...|++++|++.|.+..+.    +-.+ ...+++.|=.++...+        ++++|.+.|++..+     
T Consensus       184 ~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~--------~~~~A~~~~~~al~~~~~~  255 (378)
T 3q15_A          184 SLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSG--------DDQMAVEHFQKAAKVSREK  255 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHHHHHhh
Confidence            8888999999999999999999986642    2211 1234445544677777        89999999998776     


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC---cccHHHHHHHHHHcCC---HHHHHHHHHHHHHCCC
Q 013497           95 NNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR---LRTYDPALFCFCENLE---AEKAYEVEEHMGLMGL  168 (442)
Q Consensus        95 ~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~---~~ty~~li~~~~~~g~---~~~A~~l~~~M~~~g~  168 (442)
                      .. +....++..+-..|.+.|+.++|...+++......-.++   ...++.+-..|...|+   +++|...++.   .+.
T Consensus       256 ~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~  331 (378)
T 3q15_A          256 VP-DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNL  331 (378)
T ss_dssp             CG-GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTC
T ss_pred             CC-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCC
Confidence            33 333788899999999999999999999998722111111   2345555566667788   7777777776   333


Q ss_pred             CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          169 SLE-QQEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       169 ~p~-~~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      .|+ ...+..+-..|.+.|+.++|...|++...
T Consensus       332 ~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          332 HAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            333 34566788889999999999999987754

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=97.56  E-value=0.0017  Score=50.98  Aligned_cols=115  Identities=12%  Similarity=0.013  Sum_probs=63.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+..+-..+...|++++|+..|++..+.. +.+...+..+-.++...+        ++++|.+.|+...+.. +.+..++
T Consensus        14 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~--------~~~~A~~~~~~~~~~~-~~~~~~~   83 (131)
T 2vyi_A           14 RLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLG--------NYAGAVQDCERAICID-PAYSKAY   83 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhh--------chHHHHHHHHHHHhcC-ccCHHHH
Confidence            56666666666777777777777655432 123444544444555555        5666666666655432 2235556


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCC
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLE  152 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~  152 (442)
                      ..+...|.+.|++++|...|++.. ..  .| +...+..+...+.+.|+
T Consensus        84 ~~~~~~~~~~~~~~~A~~~~~~~~-~~--~p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           84 GRMGLALSSLNKHVEAVAYYKKAL-EL--DPDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-HH--STTCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHH-hc--CccchHHHHHHHHHHHHHhc
Confidence            666666666666666666666655 32  22 33344444444444443

>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=97.56  E-value=0.0008  Score=55.84  Aligned_cols=134  Identities=8%  Similarity=-0.002  Sum_probs=100.3

Q ss_pred             CCchhhHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCH
Q 013497           76 SSKDSALRHGFRVFDQMLSNNVIP-NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEA  153 (442)
Q Consensus        76 ~~~~~~~~~a~~l~~~M~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~  153 (442)
                      +...|.+++|++.|+.....  .| +...+-.+-..|.+.|++++|.+.|++.. +.  .| +..+|..+-..|.+.|++
T Consensus         7 ~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al-~~--~p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYI-NV--QERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHHcCch
Confidence            34557999999999887432  23 23456678889999999999999999988 43  45 567899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH-HHHHHhccCCCC-hHHHHHHHHHh
Q 013497          154 EKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQY-LQKLRSTVRCVN-EETGKIIEDWF  217 (442)
Q Consensus       154 ~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~l-l~~m~~~~~~p~-~~t~~~li~~~  217 (442)
                      ++|...|+...+..- -+...|..+-..|.+.|+.++|.+. +++..+.  .|+ +..|......+
T Consensus        82 ~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l--~P~~~~~~~l~~~ll  144 (150)
T 4ga2_A           82 DKAVECYRRSVELNP-TQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL--FPGSPAVYKLKEQLL  144 (150)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH--STTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh--CcCCHHHHHHHHHHH
Confidence            999999999887532 2577889999999999998876655 4655543  454 44555444444

>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=97.55  E-value=0.00094  Score=70.18  Aligned_cols=187  Identities=10%  Similarity=-0.096  Sum_probs=136.6

Q ss_pred             HhcCCHHHHHHHHHHHHh------CCCCC-CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHH
Q 013497           34 TKSKDLTTAISLYESAHS------QNLRL-SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTS  106 (442)
Q Consensus        34 ~k~g~~~~A~~lf~~m~~------~g~~p-~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~  106 (442)
                      ...|++++|++.|++..+      ....| +...|..+-.++...|        ++++|.+.|++..+... -+...|..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g--------~~~~A~~~~~~al~~~p-~~~~a~~~  472 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLG--------DVAKATRKLDDLAERVG-WRWRLVWY  472 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHT--------CHHHHHHHHHHHHHHHC-CCHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcC--------CHHHHHHHHHHHhccCc-chHHHHHH
Confidence            778999999999999871      11223 4456666656777777        89999999999887542 36788999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 013497          107 VARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAET  185 (442)
Q Consensus       107 li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~  185 (442)
                      +-.+|.+.|++++|...|++.. +.  .| +...|..+-.+|.+.|++++ .+.|++..+..- -+...|..+-.++.+.
T Consensus       473 lg~~~~~~g~~~~A~~~~~~al-~l--~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P-~~~~a~~~lg~~~~~~  547 (681)
T 2pzi_A          473 RAVAELLTGDYDSATKHFTEVL-DT--FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTND-GVISAAFGLARARSAE  547 (681)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHH-HH--STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCT-TCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH-Hh--CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCC-chHHHHHHHHHHHHHc
Confidence            9999999999999999999987 43  45 45778889999999999999 999999887542 2567889999999999


Q ss_pred             CCHHHHHHHHHHHHhccCCCCh-HHHHHHHHHhccccCCC-cccchhhHHHHHHh
Q 013497          186 GRVEKVYQYLQKLRSTVRCVNE-ETGKIIEDWFSGQKVNG-VSCDLGLVKNAVLK  238 (442)
Q Consensus       186 g~~~~a~~ll~~m~~~~~~p~~-~t~~~li~~~~~~~~~~-~~~~~~~~~~a~~~  238 (442)
                      |+.++|.+.|++..+.  .|+. ..+..+..++  ...+. ...+.+.+++|...
T Consensus       548 g~~~~A~~~~~~al~l--~P~~~~a~~~~~~~~--~~~~~~~~~~~~~~~~A~~~  598 (681)
T 2pzi_A          548 GDRVGAVRTLDEVPPT--SRHFTTARLTSAVTL--LSGRSTSEVTEEQIRDAARR  598 (681)
T ss_dssp             TCHHHHHHHHHTSCTT--STTHHHHHHHHHHHT--C-------CCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHhhccc--CcccHHHHHHHHHHH--HccCCCCCCCHHHHHHHHHH
Confidence            9999999999876543  4553 3444444444  32211 11223556666554

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.55  E-value=0.0053  Score=58.62  Aligned_cols=167  Identities=13%  Similarity=0.008  Sum_probs=98.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCC--CCH-HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCC
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHS----QNLR--LSL-HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNV   97 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~----~g~~--p~~-~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~   97 (442)
                      +++.+-..+...|++++|...|++..+    .+..  |.. .++..+-.++...|        ++++|.+.+++......
T Consensus        95 ~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g--------~~~~A~~~~~~al~~~~  166 (373)
T 1hz4_A           95 SLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWA--------RLDEAEASARSGIEVLS  166 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhc--------CHHHHHHHHHHHHHHhh
Confidence            355566667777888888887777543    2222  222 23333334555666        78888888877654321


Q ss_pred             C----CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc-ccHH-----HHHHHHHHcCCHHHHHHHHHHHHHCC
Q 013497           98 I----PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL-RTYD-----PALFCFCENLEAEKAYEVEEHMGLMG  167 (442)
Q Consensus        98 ~----p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~-~ty~-----~li~~~~~~g~~~~A~~l~~~M~~~g  167 (442)
                      .    ....+|..+...+...|++++|...+++.. ...-.++. ..+.     ..+..+...|+.++|...++......
T Consensus       167 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~-~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~  245 (373)
T 1hz4_A          167 SYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLE-NLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPE  245 (373)
T ss_dssp             TSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHH-HHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCC
T ss_pred             ccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCC
Confidence            1    123566777777788888888888887765 22111111 1121     12233667788888888877765432


Q ss_pred             CCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          168 LSL---EQQEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       168 ~~p---~~~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      ..+   ....+..+...+...|+.++|...+++...
T Consensus       246 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~  281 (373)
T 1hz4_A          246 FANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNE  281 (373)
T ss_dssp             CTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            211   123456666777778888888877776643

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=97.53  E-value=0.0056  Score=58.44  Aligned_cols=167  Identities=12%  Similarity=-0.051  Sum_probs=116.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--C--CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLR--L--SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN  100 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~--p--~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~  100 (442)
                      .+..+-..+...|++++|...+++..+..-.  +  ...+|..+-.++...|        ++++|.+.+++.......++
T Consensus       137 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g--------~~~~A~~~l~~a~~~~~~~~  208 (373)
T 1hz4_A          137 LVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARG--------DLDNARSQLNRLENLLGNGK  208 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHHHhccC
Confidence            6777888899999999999999997643211  1  2345666655677777        89999999998765321211


Q ss_pred             --HHHHH----HHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC---cccHHHHHHHHHHcCCHHHHHHHHHHHHHC----C
Q 013497          101 --EASVT----SVARLAASKNDGDYAFVLIKRMNNEFNVVPR---LRTYDPALFCFCENLEAEKAYEVEEHMGLM----G  167 (442)
Q Consensus       101 --~~ty~----~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~---~~ty~~li~~~~~~g~~~~A~~l~~~M~~~----g  167 (442)
                        .....    ..+..+...|+.++|...+++.. ...-.+.   ...+..+...+...|+.++|.++++.....    |
T Consensus       209 ~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~-~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~  287 (373)
T 1hz4_A          209 YHSDWISNANKVRVIYWQMTGDKAAAANWLRHTA-KPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLR  287 (373)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSC-CCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             cchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCC-CCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCc
Confidence              11111    23345789999999999999887 4321111   124567778899999999999999887542    3


Q ss_pred             CCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          168 LSLEQQ-EIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       168 ~~p~~~-ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      ..++.. .+..+-..+...|+.++|...+.+...
T Consensus       288 ~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          288 LMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            322332 566677788899999999999987654

>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=97.52  E-value=0.00052  Score=57.03  Aligned_cols=140  Identities=9%  Similarity=-0.016  Sum_probs=101.2

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 013497           32 SCTKSKDLTTAISLYESAHSQNLRLSLH-HFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARL  110 (442)
Q Consensus        32 ~~~k~g~~~~A~~lf~~m~~~g~~p~~~-ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~  110 (442)
                      .+...|++++|++.|......  .|+.. .+-.|=.+|...+        ++++|.+.|++..+... -+..+|..+-..
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~--------~~~~A~~~~~~al~~~p-~~~~a~~~lg~~   74 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAK--------EYDLAKKYICTYINVQE-RDPKAHRFLGLL   74 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHhCC-CCHHHHHHHHHH
Confidence            345568899999999887543  23222 2223334777777        89999999999887543 378899999999


Q ss_pred             HHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHH-HHHHHHCCCCC-CHHHHHHHHHHHHhcCC
Q 013497          111 AASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEV-EEHMGLMGLSL-EQQEIAALLKVSAETGR  187 (442)
Q Consensus       111 ~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l-~~~M~~~g~~p-~~~ty~~li~~~~~~g~  187 (442)
                      |.+.|++++|...|++.. +.  .|+ ...|..+-..|.+.|+.++|.+. ++...+.  .| +...|...-..+...|+
T Consensus        75 ~~~~~~~~~A~~~~~~al-~~--~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l--~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           75 YELEENTDKAVECYRRSV-EL--NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL--FPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHTTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH--STTCHHHHHHHHHHHHTCCC
T ss_pred             HHHcCchHHHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhCc
Confidence            999999999999999988 43  564 56788888999999999877665 4666553  34 45566665555555553

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=97.52  E-value=0.0023  Score=50.27  Aligned_cols=82  Identities=9%  Similarity=-0.036  Sum_probs=39.4

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVE  160 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~  160 (442)
                      ++++|.+.|++..... +.+..++..+...+...|++++|...+++.. ... ..+...+..+...|.+.|+.++|...|
T Consensus        27 ~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~  103 (131)
T 2vyi_A           27 NFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAI-CID-PAYSKAYGRMGLALSSLNKHVEAVAYY  103 (131)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHH-hcC-ccCHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            4555555555544332 1234445555555555555555555555544 221 112334444445555555555555555


Q ss_pred             HHHHH
Q 013497          161 EHMGL  165 (442)
Q Consensus       161 ~~M~~  165 (442)
                      +....
T Consensus       104 ~~~~~  108 (131)
T 2vyi_A          104 KKALE  108 (131)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            55443

>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=97.47  E-value=0.003  Score=64.57  Aligned_cols=130  Identities=8%  Similarity=-0.072  Sum_probs=109.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+-..|.+.|++++|++.|++..+.. +-+...|..+-.++...+        ++++|.+.|++..+.. +-+..+|
T Consensus        25 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g--------~~~~A~~~~~~al~~~-p~~~~~~   94 (568)
T 2vsy_A           25 AWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQ--------RHAEAAVLLQQASDAA-PEHPGIA   94 (568)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHhcC-CCCHHHH
Confidence            88888999999999999999999988653 234667777767888888        8999999999987764 2367899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHc---CCHHHHHHHHHHHHHCC
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCEN---LEAEKAYEVEEHMGLMG  167 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~---g~~~~A~~l~~~M~~~g  167 (442)
                      ..+-..|.+.|++++|.+.|++.. +.  .| +...+..+...+...   |+.++|.+.+++..+.+
T Consensus        95 ~~la~~~~~~g~~~~A~~~~~~al-~~--~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           95 LWLGHALEDAGQAEAAAAAYTRAH-QL--LPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            999999999999999999999987 43  34 457788899999999   99999999999987654

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=97.46  E-value=0.0034  Score=49.59  Aligned_cols=94  Identities=11%  Similarity=0.049  Sum_probs=66.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+-..+.+.|++++|+..|++..+.. +.+...+..+-.++...+        ++++|.+.|++..+.. +.+..++
T Consensus        18 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~--------~~~~A~~~~~~a~~~~-~~~~~~~   87 (133)
T 2lni_A           18 MVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLL--------EFQLALKDCEECIQLE-PTFIKGY   87 (133)
T ss_dssp             HHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTT--------CHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhc--------cHHHHHHHHHHHHHhC-CCchHHH
Confidence            77777888888888888888888876542 224555655555666666        7888888887776643 2356677


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      ..+...|.+.|++++|...|++..
T Consensus        88 ~~la~~~~~~~~~~~A~~~~~~~~  111 (133)
T 2lni_A           88 TRKAAALEAMKDYTKAMDVYQKAL  111 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHH
Confidence            777777788888888888887766

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=97.45  E-value=0.0037  Score=57.93  Aligned_cols=144  Identities=8%  Similarity=-0.039  Sum_probs=107.9

Q ss_pred             HHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccH
Q 013497           61 FNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTY  140 (442)
Q Consensus        61 y~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty  140 (442)
                      +..+-..+...|        ++++|.+.|++..+... -+...+..+...|.+.|++++|...+++.. ..  .|+....
T Consensus       120 ~~~~a~~~~~~g--------~~~~A~~~~~~al~~~P-~~~~a~~~la~~~~~~g~~~~A~~~l~~~~-~~--~p~~~~~  187 (287)
T 3qou_A          120 XAQQAMQLMQES--------NYTDALPLLXDAWQLSN-QNGEIGLLLAETLIALNRSEDAEAVLXTIP-LQ--DQDTRYQ  187 (287)
T ss_dssp             HHHHHHHHHHTT--------CHHHHHHHHHHHHHHTT-SCHHHHHHHHHHHHHTTCHHHHHHHHTTSC-GG--GCSHHHH
T ss_pred             HHHHHHHHHhCC--------CHHHHHHHHHHHHHhCC-cchhHHHHHHHHHHHCCCHHHHHHHHHhCc-hh--hcchHHH
Confidence            333334566666        89999999999877543 367889999999999999999999999887 33  5654433


Q ss_pred             HHHH-HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC-CChHHHHHHHHHh
Q 013497          141 DPAL-FCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRC-VNEETGKIIEDWF  217 (442)
Q Consensus       141 ~~li-~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~-p~~~t~~~li~~~  217 (442)
                      .... ..+...++.++|.+.+++..... +.+...+..+-..+...|+.++|...|.+.....-. .+...+..+...|
T Consensus       188 ~~~~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~  265 (287)
T 3qou_A          188 GLVAQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEIL  265 (287)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHH
Confidence            2222 23667788888999998887753 236778889999999999999999999999875311 1245677777777

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=97.44  E-value=0.0022  Score=50.70  Aligned_cols=97  Identities=14%  Similarity=0.019  Sum_probs=54.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAAL  178 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~l  178 (442)
                      +...|..+...+.+.|++++|...|++.. ..  .| +...+..+...|...|++++|.+.+++..... ..+...+..+
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al-~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   90 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAI-KR--NPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRK   90 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHH-TT--CTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hc--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            44555555556666666666666666555 22  22 34455555555666666666666666555432 1234555555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh
Q 013497          179 LKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       179 i~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      ...+.+.|++++|.+.|++...
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHH
Confidence            5666666666666666665544

>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=97.44  E-value=0.0037  Score=49.06  Aligned_cols=112  Identities=13%  Similarity=0.062  Sum_probs=87.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC--CCC----HHH
Q 013497          101 EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGL--SLE----QQE  174 (442)
Q Consensus       101 ~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~--~p~----~~t  174 (442)
                      ..+|..+...+...|++++|...|++.. ... ..+...+..+...|...|++++|...++.......  .++    ..+
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~-~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   81 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAK-ELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKA   81 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHH-hcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHH
Confidence            3567778888999999999999999987 432 33567788888999999999999999998876521  223    677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHH
Q 013497          175 IAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDW  216 (442)
Q Consensus       175 y~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~  216 (442)
                      |..+...+...|++++|.+.|++....  .|++.....+...
T Consensus        82 ~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~  121 (131)
T 1elr_A           82 YARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQA  121 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHHHH
Confidence            888889999999999999999998875  4566555544433

>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=97.38  E-value=0.0031  Score=59.97  Aligned_cols=143  Identities=10%  Similarity=-0.127  Sum_probs=85.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+-..|.+.|++++|+..|++..+..-....            .         ..+.+.++- .+       ...+|
T Consensus       149 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~------------~---------~~~~~~~~~-~~-------~~~~~  199 (336)
T 1p5q_A          149 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESS------------F---------SNEEAQKAQ-AL-------RLASH  199 (336)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCC------------C---------CSHHHHHHH-HH-------HHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHhhcccc------------C---------ChHHHHHHH-HH-------HHHHH
Confidence            7888888999999999999999998754321110            0         001111111 11       13455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE  184 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~  184 (442)
                      ..+-.+|.+.|++++|+..+++.. ... ..+...|..+-.+|...|++++|...|+...+..- -+...+..+...+.+
T Consensus       200 ~nla~~~~~~g~~~~A~~~~~~al-~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~  276 (336)
T 1p5q_A          200 LNLAMCHLKLQAFSAAIESCNKAL-ELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP-NNKAAKTQLAVCQQR  276 (336)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH-HhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHH
Confidence            666666677777777777776665 321 22445666666667777777777777776655421 245566666666666


Q ss_pred             cCCHHHH-HHHHHHHH
Q 013497          185 TGRVEKV-YQYLQKLR  199 (442)
Q Consensus       185 ~g~~~~a-~~ll~~m~  199 (442)
                      .|+.+++ ..++..|.
T Consensus       277 ~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          277 IRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            7776666 33445543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.34  E-value=0.0086  Score=48.25  Aligned_cols=99  Identities=10%  Similarity=-0.036  Sum_probs=85.2

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC----cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH
Q 013497           99 PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR----LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQE  174 (442)
Q Consensus        99 p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~----~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~t  174 (442)
                      .+...+..+...+...|++++|...|++.. .  ..|+    ...|..+-..|...|++++|.+.++...... ..+...
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~-~--~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  101 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQAL-G--LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKA  101 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHH-T--SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHH-H--HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHH
Confidence            467788889999999999999999999988 4  3576    6788888999999999999999999987653 225778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          175 IAALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       175 y~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      |..+-.++...|+.++|...|++....
T Consensus       102 ~~~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          102 LYRRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            888899999999999999999988764

>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=97.34  E-value=0.0036  Score=59.57  Aligned_cols=126  Identities=10%  Similarity=-0.003  Sum_probs=86.5

Q ss_pred             HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcc
Q 013497           59 HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLR  138 (442)
Q Consensus        59 ~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~  138 (442)
                      ..|..+=..+...+        ++++|.+.|++..+.......            . ..+.+.++ ..+        ...
T Consensus       148 ~~~~~~g~~~~~~g--------~~~~A~~~y~~Al~~~p~~~~------------~-~~~~~~~~-~~~--------~~~  197 (336)
T 1p5q_A          148 TIVKERGTVYFKEG--------KYKQALLQYKKIVSWLEYESS------------F-SNEEAQKA-QAL--------RLA  197 (336)
T ss_dssp             HHHHHHHHHHHHHT--------CHHHHHHHHHHHHHHTTTCCC------------C-CSHHHHHH-HHH--------HHH
T ss_pred             HHHHHHHHHHHHCC--------CHHHHHHHHHHHHHHhhcccc------------C-ChHHHHHH-HHH--------HHH
Confidence            44554544566666        899999999987664322110            0 11222211 111        246


Q ss_pred             cHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC-hHHHHHHHHHh
Q 013497          139 TYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVN-EETGKIIEDWF  217 (442)
Q Consensus       139 ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~-~~t~~~li~~~  217 (442)
                      .|..+-.+|.+.|++++|...++...+.. +.+...|..+-.+|...|++++|...|++..+.  .|+ ...+..+...+
T Consensus       198 ~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~  274 (336)
T 1p5q_A          198 SHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAVCQ  274 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHH
Confidence            78889999999999999999999998764 236788999999999999999999999998765  344 44555555444

>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=97.33  E-value=0.0015  Score=55.50  Aligned_cols=127  Identities=11%  Similarity=-0.042  Sum_probs=94.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYL-CSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEAS  103 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~-~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~t  103 (442)
                      .+..+-..+.+.|++++|+..|++..+.  .|+...+..+..+ +....        ....|...|+...+... -+...
T Consensus        42 a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~--------~~~~a~~~~~~al~~~P-~~~~~  110 (176)
T 2r5s_A           42 VKLAKADCLLETKQFELAQELLATIPLE--YQDNSYKSLIAKLELHQQA--------AESPELKRLEQELAANP-DNFEL  110 (176)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHHHHHHHHHHHHHH--------TSCHHHHHHHHHHHHST-TCHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHHHHHHHHHHHhhc--------ccchHHHHHHHHHHhCC-CCHHH
Confidence            7888888999999999999999987644  3344433332212 11111        12246788888776432 25788


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC---cccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 013497          104 VTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR---LRTYDPALFCFCENLEAEKAYEVEEHMGL  165 (442)
Q Consensus       104 y~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~---~~ty~~li~~~~~~g~~~~A~~l~~~M~~  165 (442)
                      +..+-..+...|++++|...|++.. ..  .|+   ...+..+...|...|+.++|...|+....
T Consensus       111 ~~~la~~~~~~g~~~~A~~~~~~~l-~~--~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A          111 ACELAVQYNQVGRDEEALELLWNIL-KV--NLGAQDGEVKKTFMDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH-TT--CTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHH-Hh--CcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHHH
Confidence            9999999999999999999999988 43  554   45788999999999999999999987643

>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=97.31  E-value=0.0053  Score=49.05  Aligned_cols=100  Identities=13%  Similarity=0.001  Sum_probs=84.8

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 013497           99 PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAAL  178 (442)
Q Consensus        99 p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~l  178 (442)
                      .+...|..+-..+...|++++|...|+... ... ..+...|..+-..|...|++++|...++......- .+...|..+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al-~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l   83 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAI-TRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFL   83 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHH-hhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-hhHHHHHHH
Confidence            467888999999999999999999999987 432 23467888899999999999999999999887542 257788899


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhc
Q 013497          179 LKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       179 i~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      -.++...|++++|...|.+....
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHH
Confidence            99999999999999999987653

>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=97.30  E-value=0.0039  Score=47.86  Aligned_cols=99  Identities=11%  Similarity=-0.024  Sum_probs=81.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALL  179 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li  179 (442)
                      +...+..+...+...|++++|...|++.. ... ..+...+..+...|...|++++|...++...+.. +.+...+..+.
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a   79 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAI-KLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKA   79 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHH-HHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence            34567788888999999999999999987 431 2356778888889999999999999999987753 22577888889


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhc
Q 013497          180 KVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       180 ~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      .++...|+.++|.+.+++..+.
T Consensus        80 ~~~~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           80 AALEFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHhhHHHHHHHHHHHHHc
Confidence            9999999999999999988754

>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=97.28  E-value=0.0013  Score=55.68  Aligned_cols=122  Identities=7%  Similarity=-0.016  Sum_probs=92.5

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-H
Q 013497           33 CTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARL-A  111 (442)
Q Consensus        33 ~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~-~  111 (442)
                      +...|++++|+..|.+..+.. +.+...|..+-.++...+        ++++|...|+...+... .+...+..+... +
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~--------~~~~A~~~~~~al~~~p-~~~~~~~~la~~l~   89 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQN--------DYSNSLLAYRQALQLRG-ENAELYAALATVLY   89 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHC-SCHHHHHHHHHHHH
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHH
Confidence            345788999999999877543 235667777767777777        89999999999877542 366777888888 7


Q ss_pred             HhcCCH--HHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 013497          112 ASKNDG--DYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMG  167 (442)
Q Consensus       112 ~~~g~~--~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g  167 (442)
                      ...|++  ++|...|++.. ..  .| +...+..+...|...|+.++|...|+......
T Consensus        90 ~~~~~~~~~~A~~~~~~al-~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           90 YQASQHMTAQTRAMIDKAL-AL--DSNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             HHTTTCCCHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             HhcCCcchHHHHHHHHHHH-Hh--CCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence            789998  99999999987 43  34 45678888889999999999999999988753

>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=97.28  E-value=0.0052  Score=64.20  Aligned_cols=180  Identities=7%  Similarity=-0.048  Sum_probs=133.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---------CCC------------HHHHHHHHHHHHhcCCCCCCchhhHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNL---------RLS------------LHHFNALLYLCSDSATDPSSKDSALR   83 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~---------~p~------------~~ty~~ll~~~~~~~~~~~~~~~~~~   83 (442)
                      .|-..+...-+.|++++|.++|+++.+...         .|+            ...|-..+.+..+.+        .++
T Consensus       380 Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~--------~l~  451 (679)
T 4e6h_A          380 LAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQ--------GLA  451 (679)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHH--------CHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcC--------CHH
Confidence            567788888899999999999999875310         142            235666677666655        799


Q ss_pred             HHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHH
Q 013497           84 HGFRVFDQMLSN-N-VIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEE  161 (442)
Q Consensus        84 ~a~~l~~~M~~~-g-~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~  161 (442)
                      .|..+|+...+. + ..+......+.|.-.+ .++.+.|..+|+... +. +.-+...+...+......|+.+.|..+|+
T Consensus       452 ~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~-~~d~e~Ar~ife~~L-k~-~p~~~~~w~~y~~fe~~~~~~~~AR~lfe  528 (679)
T 4e6h_A          452 ASRKIFGKCRRLKKLVTPDIYLENAYIEYHI-SKDTKTACKVLELGL-KY-FATDGEYINKYLDFLIYVNEESQVKSLFE  528 (679)
T ss_dssp             HHHHHHHHHHHTGGGSCTHHHHHHHHHHHTT-TSCCHHHHHHHHHHH-HH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCChHHHHHHHHHHHHh-CCCHHHHHHHHHHHH-HH-CCCchHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            999999999876 3 2344444444444222 345999999999987 43 22344456788888888999999999999


Q ss_pred             HHHHCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          162 HMGLMGLSL--EQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       162 ~M~~~g~~p--~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      ........+  ....|..+++.=.+.|+.+.+..+..++.+.  .|+......+.+-|
T Consensus       529 ral~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~--~P~~~~~~~f~~ry  584 (679)
T 4e6h_A          529 SSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK--FPEVNKLEEFTNKY  584 (679)
T ss_dssp             HHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH--STTCCHHHHHHHHT
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCcHHHHHHHHh
Confidence            988764322  3467888898888999999999999999887  57766777777777

>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=97.27  E-value=0.013  Score=51.43  Aligned_cols=157  Identities=13%  Similarity=-0.021  Sum_probs=119.1

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC----
Q 013497           40 TTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKN----  115 (442)
Q Consensus        40 ~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g----  115 (442)
                      .+|++.|.+..+.|   ++.++..|=..+...+        ++++|.+.|+...+.|   +...+..|-..|.. +    
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~--------~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~   67 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSG--------DYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQA   67 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSC
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCC--------CHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCC
Confidence            35778888888775   4556666655666666        8999999999998876   56677777777777 6    


Q ss_pred             CHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHh----cC
Q 013497          116 DGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCE----NLEAEKAYEVEEHMGLMGLS-LEQQEIAALLKVSAE----TG  186 (442)
Q Consensus       116 ~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~----~g~~~~A~~l~~~M~~~g~~-p~~~ty~~li~~~~~----~g  186 (442)
                      +.++|.+.|+... +.|   +...+..|-..|..    .++.++|.+.|+...+.|.. .+...+..|-..|..    .+
T Consensus        68 ~~~~A~~~~~~A~-~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~  143 (212)
T 3rjv_A           68 DYPQARQLAEKAV-EAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPE  143 (212)
T ss_dssp             CHHHHHHHHHHHH-HTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSC
T ss_pred             CHHHHHHHHHHHH-HCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCC
Confidence            8999999999987 655   56677777777776    88999999999999877632 126677888888888    88


Q ss_pred             CHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          187 RVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       187 ~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      +.++|..+|++-.+.  ..++..+..|-..|
T Consensus       144 d~~~A~~~~~~A~~~--~~~~~a~~~Lg~~y  172 (212)
T 3rjv_A          144 DDVKASEYFKGSSSL--SRTGYAEYWAGMMF  172 (212)
T ss_dssp             CHHHHHHHHHHHHHT--SCTTHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHc--CCCHHHHHHHHHHH
Confidence            999999999998776  23444455555555

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=97.27  E-value=0.086  Score=51.66  Aligned_cols=180  Identities=8%  Similarity=-0.082  Sum_probs=109.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C---CCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC-
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQ-----N---LRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN-   95 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~-----g---~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~-   95 (442)
                      .||.|=..+...|+.++|++.|++..+.     +   -.-...+|+.+-.+|...|        ++++|...|++..+. 
T Consensus        53 ~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g--------~~~~A~~~~~ka~~i~  124 (472)
T 4g1t_A           53 MCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMG--------RLSDVQIYVDKVKHVC  124 (472)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcC--------ChHHHHHHHHHHHHHh
Confidence            7999988999999999999999986531     1   2234578888877888887        899998888876541 


Q ss_pred             ----C-CCC-CHHHHHHHHHHHHh--cCCHHHHHHHHHHhHhhCCCCCCcc-cHHHHHHH---HHHcCCHHHHHHHHHHH
Q 013497           96 ----N-VIP-NEASVTSVARLAAS--KNDGDYAFVLIKRMNNEFNVVPRLR-TYDPALFC---FCENLEAEKAYEVEEHM  163 (442)
Q Consensus        96 ----g-~~p-~~~ty~~li~~~~~--~g~~~~A~~~~~~m~~~~g~~p~~~-ty~~li~~---~~~~g~~~~A~~l~~~M  163 (442)
                          + ..+ ...+|+.+-.++.+  .+++++|.+.|++.. .  +.|+.. .+..+...   +...++.++|++.++..
T Consensus       125 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal-~--~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~a  201 (472)
T 4g1t_A          125 EKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKAL-E--KKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQA  201 (472)
T ss_dssp             HHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHH-H--HSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHH
T ss_pred             HhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHH-H--hCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHH
Confidence                1 112 23455554444444  346889999998877 3  356543 23322222   44567777788777776


Q ss_pred             HHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          164 GLMGLSLEQQEIAALLKVSAE----TGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       164 ~~~g~~p~~~ty~~li~~~~~----~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      .+.. +.+...+..+...+..    .|+.++|.+++++..... ..+...+..+-..|
T Consensus       202 l~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~  257 (472)
T 4g1t_A          202 IRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFY  257 (472)
T ss_dssp             HHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHH
T ss_pred             hhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHH
Confidence            6542 1234445444444433    456677777777665432 22334455555555

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.26  E-value=0.002  Score=49.08  Aligned_cols=99  Identities=7%  Similarity=-0.100  Sum_probs=79.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHH
Q 013497          101 EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLS-LEQQEIAALL  179 (442)
Q Consensus       101 ~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~-p~~~ty~~li  179 (442)
                      ..++..+...+...|++++|...|++.. ... ..+...|..+-..|...|++++|.+.++...+..-. .+...+..+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~-~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~   83 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAI-QLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKA   83 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHH-HHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHH-HhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHH
Confidence            4456677788899999999999999987 432 235577888888999999999999999998875311 1477888888


Q ss_pred             HHHHhc-CCHHHHHHHHHHHHhc
Q 013497          180 KVSAET-GRVEKVYQYLQKLRST  201 (442)
Q Consensus       180 ~~~~~~-g~~~~a~~ll~~m~~~  201 (442)
                      ..+.+. |+.++|.+.+.+....
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhc
Confidence            999999 9999999999988765

>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=97.26  E-value=0.0022  Score=60.06  Aligned_cols=158  Identities=10%  Similarity=0.060  Sum_probs=109.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC----
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHS----QNLRL-SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN----   95 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~----~g~~p-~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~----   95 (442)
                      +|+.+-..|.+.|++++|+..|++..+    .|-.. -..+++.+-.++.. +        ++++|.+.|++..+.    
T Consensus        78 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g--------~~~~A~~~~~~Al~~~~~~  148 (307)
T 2ifu_A           78 AFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-L--------DLSKAVHLYQQAAAVFENE  148 (307)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-T--------CHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-C--------CHHHHHHHHHHHHHHHHhC
Confidence            888888999999999999999998653    22211 12455555556666 6        899999999886542    


Q ss_pred             CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhh---CCCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 013497           96 NVIP-NEASVTSVARLAASKNDGDYAFVLIKRMNNE---FNVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSL  170 (442)
Q Consensus        96 g~~p-~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~---~g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p  170 (442)
                      |-.+ -..+++.+-..|.+.|++++|+..|++....   .+..+. ..++..+...+...|+.++|...|++.. .  .|
T Consensus       149 ~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~--~p  225 (307)
T 2ifu_A          149 ERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-S--IP  225 (307)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-T--ST
T ss_pred             CChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-C--CC
Confidence            2111 1467888999999999999999999987621   111111 1356667777888899999999999987 3  33


Q ss_pred             C---H---HHHHHHHHHHHhcCCHHHHHHHH
Q 013497          171 E---Q---QEIAALLKVSAETGRVEKVYQYL  195 (442)
Q Consensus       171 ~---~---~ty~~li~~~~~~g~~~~a~~ll  195 (442)
                      +   .   .....++.++ ..|+.+.+.++.
T Consensus       226 ~~~~~~e~~~l~~l~~~~-~~~d~~~~~~~~  255 (307)
T 2ifu_A          226 GFSGSEDCAALEDLLQAY-DEQDEEQLLRVC  255 (307)
T ss_dssp             TSTTSHHHHHHHHHHHHH-HTTCHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHH-HhcCHHHHHHHH
Confidence            2   1   2345556655 678877766643

>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=97.26  E-value=0.0024  Score=50.22  Aligned_cols=106  Identities=8%  Similarity=0.001  Sum_probs=81.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCC--CCC--
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNV--IPN--  100 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~--~p~--  100 (442)
                      .|..+-..+...|++++|...|.+..+.. +.+...+..+-..+...+        ++++|...|+.......  .++  
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~--------~~~~A~~~~~~~~~~~~~~~~~~~   76 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKG--------DYNKCRELCEKAIEVGRENREDYR   76 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHHHHHHSTTCHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhc--------cHHHHHHHHHHHHhhccccchhHH
Confidence            77888889999999999999999987653 335666777766777777        89999999998876432  222  


Q ss_pred             --HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHH
Q 013497          101 --EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDP  142 (442)
Q Consensus       101 --~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~  142 (442)
                        ..+|..+...|...|++++|.+.|++.. ..  .|+......
T Consensus        77 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~~-~~--~~~~~~~~~  117 (131)
T 1elr_A           77 QIAKAYARIGNSYFKEEKYKDAIHFYNKSL-AE--HRTPDVLKK  117 (131)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHH-Hh--CCCHHHHHH
Confidence              6778888888999999999999998887 43  455433333

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=97.24  E-value=0.0055  Score=49.02  Aligned_cols=99  Identities=12%  Similarity=-0.004  Sum_probs=58.6

Q ss_pred             CCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCC
Q 013497           20 PNPET--NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNV   97 (442)
Q Consensus        20 ~~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~   97 (442)
                      ..|+.  .+...=..|.+.|++++|++.|++..+.. +-+...|..+-.++...+        ++++|.+.|+...+...
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~--------~~~~A~~~~~~al~~~p   78 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLM--------EFQRALDDCDTCIRLDS   78 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCT
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhc--------cHHHHHHHHHHHHHhhh
Confidence            34554  56666666667777777777777655432 224455555544555555        66666666666555322


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhH
Q 013497           98 IPNEASVTSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus        98 ~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                       .+..+|..+-.+|...|++++|.+.|++..
T Consensus        79 -~~~~a~~~lg~~~~~~~~~~~A~~~~~~al  108 (126)
T 4gco_A           79 -KFIKGYIRKAACLVAMREWSKAQRAYEDAL  108 (126)
T ss_dssp             -TCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             -hhhHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence             245566666666666666666666666655

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=97.23  E-value=0.0041  Score=51.76  Aligned_cols=126  Identities=10%  Similarity=-0.035  Sum_probs=87.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSL-HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEAS  103 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~-~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~t  103 (442)
                      ..+.+.+.+...+.+.+|++         +.|+. ..+..+=..+...|        ++++|.+.|+....... -+...
T Consensus        11 ~~~~l~~~~~~~~~l~~al~---------l~p~~~~~~~~lg~~~~~~g--------~~~eA~~~~~~al~~~P-~~~~~   72 (151)
T 3gyz_A           11 ISTAVIDAINSGATLKDINA---------IPDDMMDDIYSYAYDFYNKG--------RIEEAEVFFRFLCIYDF-YNVDY   72 (151)
T ss_dssp             HHHHHHHHHHTSCCTGGGCC---------SCHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCT-TCHHH
T ss_pred             HHHHHHHHHHCCCCHHHHhC---------CCHHHHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHhCC-CCHHH
Confidence            55666666666665555422         22322 22333323555566        78999999988877542 36778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH
Q 013497          104 VTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQ  173 (442)
Q Consensus       104 y~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~  173 (442)
                      |..+-.+|...|++++|...|++.. ..  .| +...|..+-.+|.+.|+.++|.+.|+...+..  |+..
T Consensus        73 ~~~lg~~~~~~g~~~~Ai~~~~~al-~l--~P~~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l~--~~~~  138 (151)
T 3gyz_A           73 IMGLAAIYQIKEQFQQAADLYAVAF-AL--GKNDYTPVFHTGQCQLRLKAPLKAKECFELVIQHS--NDEK  138 (151)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH-HH--SSSCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHH
T ss_pred             HHHHHHHHHHHccHHHHHHHHHHHH-hh--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCHH
Confidence            8888888889999999999998887 43  44 45678888888889999999999988887653  5543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=97.22  E-value=0.0035  Score=52.23  Aligned_cols=102  Identities=9%  Similarity=-0.062  Sum_probs=85.3

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013497          101 EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALL  179 (442)
Q Consensus       101 ~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li  179 (442)
                      ...+..+-..+.+.|++++|...|+... ..  .| +...|..+-.+|...|++++|.+.|+......-. +...|..+-
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al-~~--~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg  111 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLC-IY--DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTG  111 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHH
Confidence            4567777888999999999999999988 43  45 5677888889999999999999999999875422 467888899


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhccCCCChH
Q 013497          180 KVSAETGRVEKVYQYLQKLRSTVRCVNEE  208 (442)
Q Consensus       180 ~~~~~~g~~~~a~~ll~~m~~~~~~p~~~  208 (442)
                      .+|.+.|+.++|...|++....  .|+..
T Consensus       112 ~~~~~lg~~~eA~~~~~~al~l--~~~~~  138 (151)
T 3gyz_A          112 QCQLRLKAPLKAKECFELVIQH--SNDEK  138 (151)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CCCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCHH
Confidence            9999999999999999998775  35543

>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=97.17  E-value=0.0014  Score=68.75  Aligned_cols=147  Identities=7%  Similarity=-0.096  Sum_probs=114.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+-..+.+.|++++|++.|+++.+.. .-+...|..+=.++...+        ++++|.+.|++..+... -+...|
T Consensus       435 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g--------~~~~A~~~~~~al~l~P-~~~~~~  504 (681)
T 2pzi_A          435 LPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLTG--------DYDSATKHFTEVLDTFP-GELAPK  504 (681)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHHHST-TCSHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHhCC-CChHHH
Confidence            78888889999999999999999988643 224566666656777777        89999999999877543 256788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLE-QQEIAALLKVS  182 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~-~~ty~~li~~~  182 (442)
                      ..+-.+|.+.|++++ .+.|++.. +.  .| +...|..+-.+|.+.|+.++|.+.|++..+.  .|+ ...|..+..++
T Consensus       505 ~~lg~~~~~~g~~~~-~~~~~~al-~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~~~~~~  578 (681)
T 2pzi_A          505 LALAATAELAGNTDE-HKFYQTVW-ST--NDGVISAAFGLARARSAEGDRVGAVRTLDEVPPT--SRHFTTARLTSAVTL  578 (681)
T ss_dssp             HHHHHHHHHHTCCCT-TCHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCTT--STTHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCChHH-HHHHHHHH-Hh--CCchHHHHHHHHHHHHHcCCHHHHHHHHHhhccc--CcccHHHHHHHHHHH
Confidence            899999999999999 99999987 43  34 4577889999999999999999999987654  465 45666666676


Q ss_pred             HhcCC
Q 013497          183 AETGR  187 (442)
Q Consensus       183 ~~~g~  187 (442)
                      ...+.
T Consensus       579 ~~~~~  583 (681)
T 2pzi_A          579 LSGRS  583 (681)
T ss_dssp             C----
T ss_pred             HccCC
Confidence            55444

>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=97.16  E-value=0.0048  Score=50.94  Aligned_cols=98  Identities=10%  Similarity=-0.065  Sum_probs=81.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAAL  178 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~l  178 (442)
                      +...+..+-..+.+.|++++|...|+... ..  .| +...|..+-.+|...|++++|...|+......- .+...|..+
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~l   95 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALC-VL--DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDI-XEPRFPFHA   95 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHH-Hc--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHH
Confidence            44567778888999999999999999987 43  34 567788888899999999999999999877532 256778888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhc
Q 013497          179 LKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       179 i~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      -.+|...|+.++|...|++....
T Consensus        96 g~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           96 AECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            89999999999999999987654

>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=97.15  E-value=0.0071  Score=47.79  Aligned_cols=98  Identities=9%  Similarity=-0.061  Sum_probs=79.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013497          101 EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLK  180 (442)
Q Consensus       101 ~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~  180 (442)
                      ...|..+-..+.+.|++++|...|++.. ... ..+...|..+-.+|.+.|++++|...++...+..- .+...|..+-.
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al-~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~   80 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMI-KRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP-NFVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHH-HhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHH
Confidence            3456677778899999999999999987 431 23567888899999999999999999999887542 25778888889


Q ss_pred             HHHhcCCHHHHHHHHHHHHhc
Q 013497          181 VSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       181 ~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      ++...|++++|...|++....
T Consensus        81 ~~~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           81 AQIAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHHHHh
Confidence            999999999999999887654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=97.15  E-value=0.088  Score=47.25  Aligned_cols=116  Identities=9%  Similarity=-0.024  Sum_probs=85.7

Q ss_pred             hHHHHHHHHHHHHhCCCCC-C-HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC----cccHHHHHHHHHH-----
Q 013497           81 ALRHGFRVFDQMLSNNVIP-N-EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR----LRTYDPALFCFCE-----  149 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p-~-~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~----~~ty~~li~~~~~-----  149 (442)
                      ++++|.+.|+...+..... . ...+..+-.+|.+.|++++|...|+... ..  .|+    ...+..+-.++.+     
T Consensus        30 ~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l-~~--~p~~~~~~~a~~~lg~~~~~~~~~~  106 (261)
T 3qky_A           30 KYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFI-QI--YQIDPRVPQAEYERAMCYYKLSPPY  106 (261)
T ss_dssp             CHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CTTCTTHHHHHHHHHHHHHHHCCCT
T ss_pred             CHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHH-HH--CCCCchhHHHHHHHHHHHHHhcccc
Confidence            7999999999987754221 1 5677888889999999999999999988 43  343    2345566667777     


Q ss_pred             ---cCCHHHHHHHHHHHHHCCCCCC-HHHH-----------------HHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          150 ---NLEAEKAYEVEEHMGLMGLSLE-QQEI-----------------AALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       150 ---~g~~~~A~~l~~~M~~~g~~p~-~~ty-----------------~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                         .|+.++|...|++.....  |+ ....                 ..+-..|.+.|++++|...|++....
T Consensus       107 ~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~  177 (261)
T 3qky_A          107 ELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEAVFDA  177 (261)
T ss_dssp             TSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence               899999999999987653  32 1222                 34466778889999999988887764

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=97.15  E-value=0.0089  Score=47.77  Aligned_cols=101  Identities=8%  Similarity=-0.065  Sum_probs=80.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKV  181 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~  181 (442)
                      ..+...=..|.+.|++++|++.|++.. +.. +.+...|..+-.+|.+.|++++|.+.|+...+..- .+...|..+-.+
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al-~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~   90 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAV-KRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDS-KFIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHH-HhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhh-hhhHHHHHHHHH
Confidence            345556677889999999999999987 431 33567888888999999999999999999877532 257788889999


Q ss_pred             HHhcCCHHHHHHHHHHHHhccCCCCh
Q 013497          182 SAETGRVEKVYQYLQKLRSTVRCVNE  207 (442)
Q Consensus       182 ~~~~g~~~~a~~ll~~m~~~~~~p~~  207 (442)
                      +...|++++|.+.|++..+.  .|+.
T Consensus        91 ~~~~~~~~~A~~~~~~al~l--~P~~  114 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQV--DPSN  114 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHCCCHHHHHHHHHHHHHH--CcCC
Confidence            99999999999999988764  4543

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.12  E-value=0.0063  Score=50.77  Aligned_cols=98  Identities=12%  Similarity=0.024  Sum_probs=83.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAAL  178 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~l  178 (442)
                      +...|..+-..+.+.|++++|+..|++.. ..  .| +...|..+-.+|.+.|++++|...|+...+..- -+...|..+
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al-~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l   85 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQAL-SI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDP-KYSKAWSRL   85 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHH
Confidence            45677888889999999999999999987 43  34 567888899999999999999999999887642 257788899


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhc
Q 013497          179 LKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       179 i~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      -.+|...|++++|...|++....
T Consensus        86 g~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           86 GLARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHh
Confidence            99999999999999999988764

>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=97.12  E-value=0.018  Score=53.07  Aligned_cols=119  Identities=13%  Similarity=0.019  Sum_probs=87.3

Q ss_pred             hHHHHHHHHHHHHhCCC-CCCH----HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCC-CCc----ccHHHHHHHHHHc
Q 013497           81 ALRHGFRVFDQMLSNNV-IPNE----ASVTSVARLAASKNDGDYAFVLIKRMNNEFNVV-PRL----RTYDPALFCFCEN  150 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~-~p~~----~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~-p~~----~ty~~li~~~~~~  150 (442)
                      ++++|.+++++..+... .|+.    ..|..+...+...|++++|...|++.. ..... ++.    .+|+.+-..|...
T Consensus        90 ~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al-~~~~~~~~~~~~~~~~~~lg~~y~~~  168 (293)
T 3u3w_A           90 RYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLL-NQQLTGIDVYQNLYIENAIANIYAEN  168 (293)
T ss_dssp             CHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHH-HTCCCCSCTTHHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHH-HHhcccccHHHHHHHHHHHHHHHHHc
Confidence            79999999999876432 2332    234456667777889999999999987 43222 232    2688888999999


Q ss_pred             CCHHHHHHHHHHHHH----C-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          151 LEAEKAYEVEEHMGL----M-GLSLE-QQEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       151 g~~~~A~~l~~~M~~----~-g~~p~-~~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      |++++|.+.|+...+    . +..+. ..+|..+...|.+.|++++|...+++..+
T Consensus       169 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~  224 (293)
T 3u3w_A          169 GYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIE  224 (293)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence            999999999998873    1 22222 23778888899999999999999887654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.12  E-value=0.0059  Score=49.67  Aligned_cols=97  Identities=11%  Similarity=-0.046  Sum_probs=78.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013497          101 EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALL  179 (442)
Q Consensus       101 ~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li  179 (442)
                      ...+..+-..+.+.|++++|...|+... ..  .| +...|..+-.+|.+.|++++|...|+......- -+...|..+-
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al-~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg   93 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALC-ML--DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDI-NEPRFPFHAA   93 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHH-Hh--CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCcHHHHHHH
Confidence            3455566778889999999999999987 43  34 556778888889999999999999999887642 2556777888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhc
Q 013497          180 KVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       180 ~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      .+|...|++++|...|++....
T Consensus        94 ~~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           94 ECHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh
Confidence            8999999999999999887654

>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=97.11  E-value=0.0087  Score=49.32  Aligned_cols=94  Identities=6%  Similarity=-0.081  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+..+-..+.+.|++++|+..|++..... +.+...|..+-.++...+        ++++|.+.|+....... -+..+|
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g--------~~~~A~~~~~~al~l~p-~~~~~~   92 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMG--------QYDLAIHSYSYGAVMDI-XEPRFP   92 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHST-TCTHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHh--------hHHHHHHHHHHHHhcCC-CCchHH
Confidence            44445555555566666666655554332 123334443333444444        55555555555544321 133445


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      ..+-.+|...|++++|...|+...
T Consensus        93 ~~lg~~~~~~g~~~~A~~~~~~al  116 (148)
T 2vgx_A           93 FHAAECLLQXGELAEAESGLFLAQ  116 (148)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH
Confidence            555555555555555555555544

>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=97.11  E-value=0.017  Score=44.16  Aligned_cols=99  Identities=9%  Similarity=-0.034  Sum_probs=79.9

Q ss_pred             HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc
Q 013497           58 LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL  137 (442)
Q Consensus        58 ~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~  137 (442)
                      ...+..+-..+...+        ++++|.+.|+...... +.+...+..+...+...|++++|...+++.. ... ..+.
T Consensus         4 ~~~~~~~~~~~~~~~--------~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~-~~~-~~~~   72 (118)
T 1elw_A            4 VNELKEKGNKALSVG--------NIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTV-DLK-PDWG   72 (118)
T ss_dssp             HHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH-HHC-TTCH
T ss_pred             HHHHHHHHHHHHHcc--------cHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHH-HhC-cccH
Confidence            345555556666666        8999999999987754 2367888999999999999999999999987 432 2346


Q ss_pred             ccHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 013497          138 RTYDPALFCFCENLEAEKAYEVEEHMGLMG  167 (442)
Q Consensus       138 ~ty~~li~~~~~~g~~~~A~~l~~~M~~~g  167 (442)
                      ..+..+...|...|+.++|.+.++...+..
T Consensus        73 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           73 KGYSRKAAALEFLNRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHcC
Confidence            778888999999999999999999987653

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.10  E-value=0.0094  Score=48.46  Aligned_cols=94  Identities=7%  Similarity=-0.071  Sum_probs=53.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+..+-..+.+.|++++|+..|++..... +.+...|..+-.++...+        ++++|...|+....... -+..+|
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g--------~~~~A~~~~~~al~~~p-~~~~~~   89 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLG--------LYEQALQSYSYGALMDI-NEPRFP   89 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCT-TCTHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHh--------hHHHHHHHHHHHHhcCC-CCcHHH
Confidence            44455555666666666666666655432 123344444444555555        66666666666655432 234455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      ..+-.+|...|++++|...|+...
T Consensus        90 ~~lg~~~~~~g~~~~A~~~~~~al  113 (142)
T 2xcb_A           90 FHAAECHLQLGDLDGAESGFYSAR  113 (142)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH
Confidence            556666666666666666666655

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.08  E-value=0.0076  Score=45.72  Aligned_cols=95  Identities=9%  Similarity=-0.026  Sum_probs=60.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC-CCHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI-PNEAS  103 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~-p~~~t  103 (442)
                      .|..+-..+.+.|++++|...|++..+.. +.+...|..+-.++...+        ++++|.+.|++..+.... .+..+
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~--------~~~~A~~~~~~a~~~~~~~~~~~~   78 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLE--------RYEEAVDCYNYVINVIEDEYNKDV   78 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHTSCCTTCHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcc--------CHHHHHHHHHHHHHhCcccchHHH
Confidence            55566666777777777777777766542 124455555555555555        677777777776654321 14666


Q ss_pred             HHHHHHHHHhc-CCHHHHHHHHHHhH
Q 013497          104 VTSVARLAASK-NDGDYAFVLIKRMN  128 (442)
Q Consensus       104 y~~li~~~~~~-g~~~~A~~~~~~m~  128 (442)
                      +..+...+.+. |++++|.+.++...
T Consensus        79 ~~~l~~~~~~~~~~~~~A~~~~~~~~  104 (112)
T 2kck_A           79 WAAKADALRYIEGKEVEAEIAEARAK  104 (112)
T ss_dssp             HHHHHHHHTTCSSCSHHHHHHHHHHG
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHh
Confidence            67777777777 77777777777766

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=97.07  E-value=0.0045  Score=53.09  Aligned_cols=133  Identities=8%  Similarity=-0.130  Sum_probs=96.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCCC-HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC----
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHS----QNLRLS-LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN----   95 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~----~g~~p~-~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~----   95 (442)
                      .++.+-..+...|++++|+..|++..+    .|..|. ..+++.+-..+...|        ++++|.+.|++..+.    
T Consensus        28 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~al~~~~~~   99 (203)
T 3gw4_A           28 ARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAG--------NWDAARRCFLEERELLASL   99 (203)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHHHHHc
Confidence            888899999999999999999999764    233222 344555545677777        899999999876552    


Q ss_pred             CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHhHh---hCCCC-CCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 013497           96 NVIP--NEASVTSVARLAASKNDGDYAFVLIKRMNN---EFNVV-PRLRTYDPALFCFCENLEAEKAYEVEEHMGL  165 (442)
Q Consensus        96 g~~p--~~~ty~~li~~~~~~g~~~~A~~~~~~m~~---~~g~~-p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~  165 (442)
                      +-.|  ...++..+-..+...|++++|...+++...   ..+-. .-..++..+-..|...|++++|.+.+++...
T Consensus       100 ~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          100 PEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            2122  245678888899999999999999988751   11111 1123467788889999999999998877643

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.06  E-value=0.0041  Score=50.68  Aligned_cols=133  Identities=11%  Similarity=-0.031  Sum_probs=95.0

Q ss_pred             HHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHhcCCHHHHHHHHHHhHhh---C
Q 013497           60 HFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI-PN----EASVTSVARLAASKNDGDYAFVLIKRMNNE---F  131 (442)
Q Consensus        60 ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~-p~----~~ty~~li~~~~~~g~~~~A~~~~~~m~~~---~  131 (442)
                      ++..+-..+...+        ++++|.+.|++..+.... ++    ..++..+-..|...|++++|...+++....   .
T Consensus        11 ~~~~l~~~~~~~~--------~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~   82 (164)
T 3ro3_A           11 AFGNLGNTHYLLG--------NFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQL   82 (164)
T ss_dssp             HHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhc--------CHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence            4444444666666        899999999887653211 12    257888889999999999999999987621   1


Q ss_pred             CCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          132 NVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLM----GLSL-EQQEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       132 g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~----g~~p-~~~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      +-.+ ...++..+-..|...|++++|.+.+++....    +..+ ...++..+-..+...|+.++|.+.+++..+
T Consensus        83 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           83 KDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            1111 1456778888899999999999999887543    2111 234677788888999999999999987654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.06  E-value=0.0036  Score=51.01  Aligned_cols=133  Identities=10%  Similarity=-0.125  Sum_probs=96.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC----
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNL-RLS----LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN----   95 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~-~p~----~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~----   95 (442)
                      ++..+-..+...|++++|+..|.+..+..- .++    ..++..+-..+...+        ++++|.+.|++..+.    
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~a~~~~~~~   82 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLG--------EFETASEYYKKTLLLARQL   82 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHHHHHh
Confidence            788888899999999999999998764311 111    134555555677777        899999999986552    


Q ss_pred             CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhHh---hCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 013497           96 NVIP-NEASVTSVARLAASKNDGDYAFVLIKRMNN---EFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGL  165 (442)
Q Consensus        96 g~~p-~~~ty~~li~~~~~~g~~~~A~~~~~~m~~---~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~  165 (442)
                      +-.+ ...++..+-..+...|++++|...+++...   ..+-.+ ...++..+-..|...|+.++|.+.+++..+
T Consensus        83 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           83 KDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            1111 145778888899999999999999988751   111111 135678888899999999999999988654

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.05  E-value=0.022  Score=44.68  Aligned_cols=97  Identities=14%  Similarity=-0.041  Sum_probs=75.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcc----cHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC----HHHHHH
Q 013497          106 SVARLAASKNDGDYAFVLIKRMNNEFNVVPRLR----TYDPALFCFCENLEAEKAYEVEEHMGLMGLSLE----QQEIAA  177 (442)
Q Consensus       106 ~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~----ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~----~~ty~~  177 (442)
                      .+...+...|++++|...|++.. ..  .|+..    .+..+-.+|.+.|++++|...|+......  |+    ...+..
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~-~~--~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~   81 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFL-EL--YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLK   81 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHH-HH--CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHH-HH--CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHH
Confidence            34566778999999999999987 43  34443    67777888999999999999999987753  33    566777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhccCCCChHH
Q 013497          178 LLKVSAETGRVEKVYQYLQKLRSTVRCVNEET  209 (442)
Q Consensus       178 li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t  209 (442)
                      +-.++.+.|+.++|...|++....  .|+...
T Consensus        82 la~~~~~~g~~~~A~~~~~~~~~~--~p~~~~  111 (129)
T 2xev_A           82 LGLSQYGEGKNTEAQQTLQQVATQ--YPGSDA  111 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--STTSHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--CCCChH
Confidence            888899999999999999998765  355443

>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=97.00  E-value=0.013  Score=46.78  Aligned_cols=107  Identities=13%  Similarity=0.133  Sum_probs=78.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCC----HHH
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMG--LSLE----QQE  174 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g--~~p~----~~t  174 (442)
                      .++.-+=..+.+.|++++|++.|++.. +.  .| +...|+.+-.+|.+.|++++|.+.++...+..  ..++    ..+
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al-~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~   85 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAI-EL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKA   85 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHH-Hh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHH
Confidence            345556677888999999999999887 43  44 45678888889999999999999988876531  1222    235


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHH
Q 013497          175 IAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKII  213 (442)
Q Consensus       175 y~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~l  213 (442)
                      |..+-.++...|++++|.+.|++-...  .|++.+...|
T Consensus        86 ~~~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~l  122 (127)
T 4gcn_A           86 MSRAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVKKV  122 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHHHH
Confidence            666777888899999999999887653  5677665544

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=96.99  E-value=0.023  Score=55.87  Aligned_cols=153  Identities=10%  Similarity=-0.089  Sum_probs=89.3

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-
Q 013497           36 SKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASK-  114 (442)
Q Consensus        36 ~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~-  114 (442)
                      .++.++|.++|++..... +.+..++..+-..+...+        .+++|.+.|++..+... -+..++..+-..|... 
T Consensus       226 ~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~--------~~~~A~~~~~~al~~~p-~~~~~~~~lg~~y~~~~  295 (472)
T 4g1t_A          226 GEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKD--------EPDKAIELLKKALEYIP-NNAYLHCQIGCCYRAKV  295 (472)
T ss_dssp             ----CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcC--------chHHHHHHHHHHHHhCC-ChHHHHHHHHHHHHHHH
Confidence            345666777776655432 234445555555666666        67777777777665432 2344454444443221 


Q ss_pred             ------------------CCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH--H
Q 013497          115 ------------------NDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQ--E  174 (442)
Q Consensus       115 ------------------g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~--t  174 (442)
                                        +..+.|...++... ... ..+..++..+-..|...|++++|.+.|+...+....|...  .
T Consensus       296 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~-~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~  373 (472)
T 4g1t_A          296 FQVMNLRENGMYGKRKLLELIGHAVAHLKKAD-EAN-DNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLL  373 (472)
T ss_dssp             HHHHHC------CHHHHHHHHHHHHHHHHHHH-HHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHh-hcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHH
Confidence                              22455666666655 321 2345678888888999999999999999988765443321  2


Q ss_pred             HHHHHH-HHHhcCCHHHHHHHHHHHHh
Q 013497          175 IAALLK-VSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       175 y~~li~-~~~~~g~~~~a~~ll~~m~~  200 (442)
                      +..+.. .....|+.++|...+.+...
T Consensus       374 ~~~~~~~~~~~~~~~~~Ai~~y~kal~  400 (472)
T 4g1t_A          374 HLRYGNFQLYQMKCEDKAIHHFIEGVK  400 (472)
T ss_dssp             HHHHHHHHHHTSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            222222 23467889999888877654

>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=96.96  E-value=0.019  Score=45.20  Aligned_cols=94  Identities=5%  Similarity=0.001  Sum_probs=42.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+-..+.+.|++++|+..|++..+.. +.+...|..+-.++...+        ++++|.+.|+...+... -+..+|
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~--------~~~~A~~~~~~al~~~p-~~~~~~   75 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLM--------SFPEAIADCNKAIEKDP-NFVRAY   75 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCT-TCHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhc--------CHHHHHHHHHHHHHhCC-CcHHHH
Confidence            34444444555555555555555544321 112333433333444444        45555555554444321 134444


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      ..+-.+|...|++++|...|++..
T Consensus        76 ~~lg~~~~~~~~~~~A~~~~~~al   99 (126)
T 3upv_A           76 IRKATAQIAVKEYASALETLDAAR   99 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCHHHHHHHHHHHH
Confidence            444445555555555555554443

>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=96.95  E-value=0.0066  Score=63.45  Aligned_cols=166  Identities=8%  Similarity=-0.057  Sum_probs=117.7

Q ss_pred             HHHHHHHHHHhcCCHHHHH-HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCC------
Q 013497           25 NFLINLQSCTKSKDLTTAI-SLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNV------   97 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~-~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~------   97 (442)
                      .|-....-+-+.|+.++|. ++|++.... ++.+...|-..+.+....+        .+++|.++|+.+.....      
T Consensus       345 lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~--------~~e~aR~iyek~l~~l~~~~~~~  415 (679)
T 4e6h_A          345 IWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNT--------KIPEIETTILSCIDRIHLDLAAL  415 (679)
T ss_dssp             HHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhC--------CHHHHHHHHHHHHHHHHHHhhhh
Confidence            3334444455678888997 999998753 3445555666666777777        89999999999876420      


Q ss_pred             ---CCC------------HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhC--CCCCCcccHHHHHHHHHHcCCHHHHHHHH
Q 013497           98 ---IPN------------EASVTSVARLAASKNDGDYAFVLIKRMNNEF--NVVPRLRTYDPALFCFCENLEAEKAYEVE  160 (442)
Q Consensus        98 ---~p~------------~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~--g~~p~~~ty~~li~~~~~~g~~~~A~~l~  160 (442)
                         .|+            ..+|...++..-+.|..+.|..+|.... ..  ...+.+....+.|.-. ..++.+.|..+|
T Consensus       416 ~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~-~~~~~~~~~lyi~~A~lE~~-~~~d~e~Ar~if  493 (679)
T 4e6h_A          416 MEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCR-RLKKLVTPDIYLENAYIEYH-ISKDTKTACKVL  493 (679)
T ss_dssp             HHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHH-HTGGGSCTHHHHHHHHHHHT-TTSCCHHHHHHH
T ss_pred             hhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhcCCCChHHHHHHHHHHHH-hCCCHHHHHHHH
Confidence               142            3468888888889999999999999987 43  1222233333333322 235699999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 013497          161 EHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTV  202 (442)
Q Consensus       161 ~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~  202 (442)
                      +...+. ..-+...|...++.....|+.+.|..+|++.....
T Consensus       494 e~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~  534 (679)
T 4e6h_A          494 ELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKI  534 (679)
T ss_dssp             HHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTS
T ss_pred             HHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhc
Confidence            998876 33456677788888888999999999999887654

>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=96.93  E-value=0.017  Score=46.03  Aligned_cols=100  Identities=10%  Similarity=-0.061  Sum_probs=81.9

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC
Q 013497           56 LSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP  135 (442)
Q Consensus        56 p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p  135 (442)
                      .+...|..+-..+...+        ++++|...|+....... .+...|..+-..|...|++++|...++... ... ..
T Consensus         7 ~~~~~~~~~g~~~~~~~--------~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al-~~~-p~   75 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGR--------KYPEAAACYGRAITRNP-LVAVYYTNRALCYLKMQQPEQALADCRRAL-ELD-GQ   75 (137)
T ss_dssp             CCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-TT
T ss_pred             ccHHHHHHHHHHHHHhC--------cHHHHHHHHHHHHhhCc-CcHHHHHHHHHHHHHhcCHHHHHHHHHHHH-HhC-ch
Confidence            35666766666777777        89999999999877643 367899999999999999999999999988 432 22


Q ss_pred             CcccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 013497          136 RLRTYDPALFCFCENLEAEKAYEVEEHMGLM  166 (442)
Q Consensus       136 ~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~  166 (442)
                      +...|..+-.+|...|++++|...|+.....
T Consensus        76 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           76 SVKAHFFLGQCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence            4678888999999999999999999987653

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=96.92  E-value=0.061  Score=47.30  Aligned_cols=130  Identities=10%  Similarity=0.030  Sum_probs=91.4

Q ss_pred             hHHHHHHHHHHHHhCCCC-CC-HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcc----cHHHHHHHHHH-----
Q 013497           81 ALRHGFRVFDQMLSNNVI-PN-EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLR----TYDPALFCFCE-----  149 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~-p~-~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~----ty~~li~~~~~-----  149 (442)
                      ++++|...|+.+.+.... |. ...+..+..+|.+.|++++|...|++.. +.  .|+..    .+-.+-.++.+     
T Consensus        19 ~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l-~~--~P~~~~~~~a~~~~g~~~~~~~~~~   95 (225)
T 2yhc_A           19 NWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFI-RL--NPTHPNIDYVMYMRGLTNMALDDSA   95 (225)
T ss_dssp             CHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CTTCTTHHHHHHHHHHHHHHHHC--
T ss_pred             CHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH-HH--CcCCCcHHHHHHHHHHHHHhhhhhh
Confidence            899999999999875432 22 3577788899999999999999999988 43  45543    23333333333     


Q ss_pred             -------------cCCHHHHHHHHHHHHHCCCCCCH-HHH-----------------HHHHHHHHhcCCHHHHHHHHHHH
Q 013497          150 -------------NLEAEKAYEVEEHMGLMGLSLEQ-QEI-----------------AALLKVSAETGRVEKVYQYLQKL  198 (442)
Q Consensus       150 -------------~g~~~~A~~l~~~M~~~g~~p~~-~ty-----------------~~li~~~~~~g~~~~a~~ll~~m  198 (442)
                                   .|+.++|...|+...+..  |+. ..+                 -.+-..|.+.|++++|...|+++
T Consensus        96 ~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~  173 (225)
T 2yhc_A           96 LQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLVFLKDRLAKYEYSVAEYYTERGAWVAVVNRVEGM  173 (225)
T ss_dssp             ------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHH
Confidence                         578999999999998752  332 111                 23445678899999999999998


Q ss_pred             HhccCCCCh----HHHHHHHHHh
Q 013497          199 RSTVRCVNE----ETGKIIEDWF  217 (442)
Q Consensus       199 ~~~~~~p~~----~t~~~li~~~  217 (442)
                      .+.  .|+.    ..+..+..++
T Consensus       174 l~~--~p~~~~~~~a~~~l~~~~  194 (225)
T 2yhc_A          174 LRD--YPDTQATRDALPLMENAY  194 (225)
T ss_dssp             HHH--STTSHHHHHHHHHHHHHH
T ss_pred             HHH--CcCCCccHHHHHHHHHHH
Confidence            875  4543    2344555555

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=96.91  E-value=0.029  Score=46.54  Aligned_cols=94  Identities=12%  Similarity=-0.046  Sum_probs=70.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+-..+.+.|++++|+..|++..+.. +-+...|..+-.++...+        ++++|...|++..+... -+...|
T Consensus        13 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g--------~~~~A~~~~~~al~~~p-~~~~~~   82 (164)
T 3sz7_A           13 KLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASG--------QHEKAAEDAELATVVDP-KYSKAW   82 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCT-TCHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHcc--------CHHHHHHHHHHHHHhCC-CCHHHH
Confidence            77777788888888888888888876543 124566666666666666        78888888888776542 257778


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      ..+-.+|.+.|++++|...|++..
T Consensus        83 ~~lg~~~~~~g~~~~A~~~~~~al  106 (164)
T 3sz7_A           83 SRLGLARFDMADYKGAKEAYEKGI  106 (164)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHH
Confidence            888888888888888888888776

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.89  E-value=0.067  Score=42.73  Aligned_cols=93  Identities=9%  Similarity=-0.044  Sum_probs=69.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLS----LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN  100 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~----~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~  100 (442)
                      .+..+-..+.+.|++++|+..|++..+.  .|+    ...|..+-..+...+        ++++|.+.|+...+.. +.+
T Consensus        30 ~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~--------~~~~A~~~~~~~~~~~-~~~   98 (148)
T 2dba_A           30 QLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLE--------DYDKAETEASKAIEKD-GGD   98 (148)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHT-SCC
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHc--------cHHHHHHHHHHHHhhC-ccC
Confidence            7888888889999999999999988764  455    455555555666666        7888888888776643 235


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhH
Q 013497          101 EASVTSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus       101 ~~ty~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      ...+..+..+|...|++++|...|++..
T Consensus        99 ~~~~~~~a~~~~~~~~~~~A~~~~~~al  126 (148)
T 2dba_A           99 VKALYRRSQALEKLGRLDQAVLDLQRCV  126 (148)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            6677777788888888888888888776

>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=96.89  E-value=0.019  Score=49.49  Aligned_cols=154  Identities=7%  Similarity=-0.087  Sum_probs=94.5

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC-C---C--------
Q 013497           33 CTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI-P---N--------  100 (442)
Q Consensus        33 ~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~-p---~--------  100 (442)
                      ....|+++.|.+.|+.-.+... -....+..+-..+...+        ++++|.+.|++..+.... |   .        
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~g~~~~~~~--------~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~   84 (198)
T 2fbn_A           14 RENLYFQGAKKSIYDYTDEEKV-QSAFDIKEEGNEFFKKN--------EINEAIVKYKEALDFFIHTEEWDDQILLDKKK   84 (198)
T ss_dssp             --------CCCSGGGCCHHHHH-HHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHH
T ss_pred             hhhhhhccccCchhhCCHHHHH-HHHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHHHhcccccchhhHHHHHH
Confidence            3444555555555543221100 01233334434555666        899999999998874322 2   1        


Q ss_pred             ---HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 013497          101 ---EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAA  177 (442)
Q Consensus       101 ---~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~  177 (442)
                         ..+|..+-.+|.+.|++++|+..++... ... ..+...|..+-.+|...|++++|.+.|+...+..- -+...+..
T Consensus        85 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~al-~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~  161 (198)
T 2fbn_A           85 NIEISCNLNLATCYNKNKDYPKAIDHASKVL-KID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP-NNLDIRNS  161 (198)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST-TCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH-HhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHH
Confidence               2788888999999999999999999987 431 33567888888999999999999999999876531 24566667


Q ss_pred             HHHHHHhcCCHHHHH-HHHHHH
Q 013497          178 LLKVSAETGRVEKVY-QYLQKL  198 (442)
Q Consensus       178 li~~~~~~g~~~~a~-~ll~~m  198 (442)
                      +..++...++.+++. ..+..|
T Consensus       162 l~~~~~~~~~~~~~~~~~~~~~  183 (198)
T 2fbn_A          162 YELCVNKLKEARKKDKLTFGGM  183 (198)
T ss_dssp             HHHHHHHHHHHHC---------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            766666666655554 344444

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=96.88  E-value=0.3  Score=48.14  Aligned_cols=160  Identities=11%  Similarity=0.014  Sum_probs=103.2

Q ss_pred             HHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCH
Q 013497           25 NFLINLQSCTKSK---DLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNE  101 (442)
Q Consensus        25 ~~~~li~~~~k~g---~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~  101 (442)
                      .+..|-..|.+.|   +.++|++.|.+..+.|. ++...+..|-.+|..+.    ...++.++|.+.|+... .|   +.
T Consensus       178 a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g~----~~~~d~~~A~~~~~~aa-~g---~~  248 (452)
T 3e4b_A          178 CYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDAT----LGTPDEKTAQALLEKIA-PG---YP  248 (452)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCGG----GSSCCHHHHHHHHHHHG-GG---ST
T ss_pred             HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCCC----CCCCCHHHHHHHHHHHc-CC---CH
Confidence            5555666677778   88888888888887774 34444344444444431    11126888888888875 33   33


Q ss_pred             HHHHHHHHH-H--HhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcC-----CHHHHHHHHHHHHHCCCCCCHH
Q 013497          102 ASVTSVARL-A--ASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENL-----EAEKAYEVEEHMGLMGLSLEQQ  173 (442)
Q Consensus       102 ~ty~~li~~-~--~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g-----~~~~A~~l~~~M~~~g~~p~~~  173 (442)
                      ..+..|-.. |  ...++.++|.+.|++.. +.|   +...+..|-..|. .|     +.++|.+.|+... .|   +..
T Consensus       249 ~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa-~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~g---~~~  319 (452)
T 3e4b_A          249 ASWVSLAQLLYDFPELGDVEQMMKYLDNGR-AAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-GR---EVA  319 (452)
T ss_dssp             HHHHHHHHHHHHSGGGCCHHHHHHHHHHHH-HTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-TT---CHH
T ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-HCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-CC---CHH
Confidence            444444444 3  45788888888888877 655   4556666666665 55     8888888888766 33   555


Q ss_pred             HHHHHHHHHHh----cCCHHHHHHHHHHHHhcc
Q 013497          174 EIAALLKVSAE----TGRVEKVYQYLQKLRSTV  202 (442)
Q Consensus       174 ty~~li~~~~~----~g~~~~a~~ll~~m~~~~  202 (442)
                      .+..|-..|..    ..+.++|..+|++-.+.|
T Consensus       320 A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  352 (452)
T 3e4b_A          320 ADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG  352 (452)
T ss_dssp             HHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC
Confidence            66666666655    337888888888877665

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=96.86  E-value=0.068  Score=49.15  Aligned_cols=146  Identities=12%  Similarity=-0.006  Sum_probs=100.4

Q ss_pred             HHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCH-----HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCC-CC
Q 013497           63 ALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNE-----ASVTSVARLAASKNDGDYAFVLIKRMNNEFNVV-PR  136 (442)
Q Consensus        63 ~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~-----~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~-p~  136 (442)
                      ..+..+...+        ++++|.+.+++..+.....+.     ..+..+...+...|++++|+..+++.. ..... .+
T Consensus        80 ~~~~~~~~~~--------~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al-~~~~~~~~  150 (293)
T 2qfc_A           80 DQVIMLCKQK--------RYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLL-NQQLTGID  150 (293)
T ss_dssp             HHHHHHHHTT--------CHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHH-TTCCCSSC
T ss_pred             HHHHHHHHhh--------hHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHH-HHHhcCCc
Confidence            3444455555        899999999987765433211     234445667788899999999999876 32111 11


Q ss_pred             ----cccHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc----
Q 013497          137 ----LRTYDPALFCFCENLEAEKAYEVEEHMGLM-GLSLE-----QQEIAALLKVSAETGRVEKVYQYLQKLRSTV----  202 (442)
Q Consensus       137 ----~~ty~~li~~~~~~g~~~~A~~l~~~M~~~-g~~p~-----~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~----  202 (442)
                          ..+|+.+-..|...|++++|.+.|++.... ...|+     ..+|+.+-..|.+.|++++|...+++.....    
T Consensus       151 ~~~~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~  230 (293)
T 2qfc_A          151 VYQNLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRIN  230 (293)
T ss_dssp             TTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcC
Confidence                347888999999999999999999988632 11122     2588889999999999999999999875432    


Q ss_pred             CCCC-hHHHHHHHHHh
Q 013497          203 RCVN-EETGKIIEDWF  217 (442)
Q Consensus       203 ~~p~-~~t~~~li~~~  217 (442)
                      .... ..++..+-..+
T Consensus       231 ~~~~~~~~~~~lg~~y  246 (293)
T 2qfc_A          231 SMALIGQLYYQRGECL  246 (293)
T ss_dssp             BCSSHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHH
Confidence            1111 34555555555

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=96.86  E-value=0.0016  Score=51.21  Aligned_cols=82  Identities=5%  Similarity=-0.068  Sum_probs=39.4

Q ss_pred             hHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHH
Q 013497           81 ALRHGFRVFDQMLSNNV--IPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAY  157 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~--~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~  157 (442)
                      ++++|...|++..+.+.  +-+..+|..+-..|...|++++|...|++.. +.  .| +...+..+-.+|.+.|+.++|.
T Consensus         5 ~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al-~~--~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            5 LEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGV-KQ--FPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             --CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hh--CCCchHHHHHHHHHHHHcCCHHHHH
Confidence            44555555555544331  1223445555555555555555555555554 22  22 2344555555555555555555


Q ss_pred             HHHHHHHH
Q 013497          158 EVEEHMGL  165 (442)
Q Consensus       158 ~l~~~M~~  165 (442)
                      +.++....
T Consensus        82 ~~~~~al~   89 (117)
T 3k9i_A           82 ELLLKIIA   89 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555443

>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=96.77  E-value=0.02  Score=49.32  Aligned_cols=130  Identities=12%  Similarity=-0.006  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CC---C-----------HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNL-RL---S-----------LHHFNALLYLCSDSATDPSSKDSALRHGFRVF   89 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~-~p---~-----------~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~   89 (442)
                      .+..+-..+.+.|++++|+..|++..+..- .|   .           ...|..+-.++...+        ++++|...|
T Consensus        40 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~--------~~~~A~~~~  111 (198)
T 2fbn_A           40 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNK--------DYPKAIDHA  111 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTT--------CHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhc--------CHHHHHHHH
Confidence            566777788899999999999999876421 12   1           255665555777777        899999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHH-HHHHHHHHC
Q 013497           90 DQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAY-EVEEHMGLM  166 (442)
Q Consensus        90 ~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~-~l~~~M~~~  166 (442)
                      +...+.. +.+..+|..+-.+|...|++++|...|++.. ..  .| +...+..+-..+...++.+++. ..|..|...
T Consensus       112 ~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al-~~--~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          112 SKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAA-SL--NPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             HHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH-HH--STTCHHHHHHHHHHHHHHHHHHC------------
T ss_pred             HHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHH-HH--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            9987763 3477889999999999999999999999987 43  45 4456666767777777666665 445555443

>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=96.75  E-value=0.016  Score=53.45  Aligned_cols=94  Identities=10%  Similarity=-0.007  Sum_probs=77.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+..+-..+.+.|++++|+..|++..+.. +-+...|..+-.++...+        ++++|.+.|+...+.. +-+...+
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~--------~~~~A~~~~~~al~~~-p~~~~~~   75 (281)
T 2c2l_A            6 ELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQ--------QPEQALADCRRALELD-GQSVKAH   75 (281)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHTTSC-TTCHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhc--------CHHHHHHHHHHHHHhC-CCCHHHH
Confidence            67777888999999999999999987652 225666776666777777        8999999999987653 2367889


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      ..+-.+|...|++++|...|++..
T Consensus        76 ~~lg~~~~~~g~~~~A~~~~~~al   99 (281)
T 2c2l_A           76 FFLGQCQLEMESYDEAIANLQRAY   99 (281)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999999999999999999998876

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=96.74  E-value=0.011  Score=54.58  Aligned_cols=62  Identities=10%  Similarity=-0.144  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          140 YDPALFCFCENLEAEKAYEVEEHMGLMGLSLE--QQEIAALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       140 y~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~--~~ty~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      +..+=.++...|++++|+..|++.......|.  ......+-.++.+.|+.++|..+|+++...
T Consensus       174 ~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          174 GVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            33334444455555555555554443222132  112333334444555555555555555543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=96.74  E-value=0.002  Score=50.60  Aligned_cols=103  Identities=15%  Similarity=-0.098  Sum_probs=76.0

Q ss_pred             hcCCHHHHHHHHHHhHhhCCC-CC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 013497          113 SKNDGDYAFVLIKRMNNEFNV-VP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEK  190 (442)
Q Consensus       113 ~~g~~~~A~~~~~~m~~~~g~-~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~  190 (442)
                      ..|++++|+..|++.. ..+. .| +...|..+-..|.+.|++++|.+.|+...+..-. +...+..+-.++.+.|+.++
T Consensus         2 ~~g~~~~A~~~~~~al-~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~   79 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAI-ASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQ   79 (117)
T ss_dssp             -----CCCHHHHHHHH-SSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHH
T ss_pred             CCCcHHHHHHHHHHHH-HcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHH
Confidence            4688999999999988 5421 13 4577888999999999999999999999876432 57788889999999999999


Q ss_pred             HHHHHHHHHhcc-CCCChHHHHHHHHHh
Q 013497          191 VYQYLQKLRSTV-RCVNEETGKIIEDWF  217 (442)
Q Consensus       191 a~~ll~~m~~~~-~~p~~~t~~~li~~~  217 (442)
                      |...|++..... -.|+...|...+..|
T Consensus        80 A~~~~~~al~~~p~~~~~~~~~~ai~~~  107 (117)
T 3k9i_A           80 GVELLLKIIAETSDDETIQSYKQAILFY  107 (117)
T ss_dssp             HHHHHHHHHHHHCCCHHHHHTHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            999999876642 223333555666666

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=96.70  E-value=0.036  Score=48.28  Aligned_cols=135  Identities=12%  Similarity=0.032  Sum_probs=94.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 013497           29 NLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVA  108 (442)
Q Consensus        29 li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li  108 (442)
                      +-..|.+.|++++|+..|++..+.. +-+...|..+-.++...|        ++++|.+.|++..+... -+..+|..+-
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g--------~~~~A~~~~~~al~~~P-~~~~a~~~lg  129 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRG--------QEKDALRMYEKILQLEA-DNLAANIFLG  129 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHcCC-CCHHHHHHHH
Confidence            7788999999999999999988653 225667777766777777        89999999999887643 3677888888


Q ss_pred             HHHHhcCCH--HHHHHHHHHhHhhCCCCCCcc--cHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013497          109 RLAASKNDG--DYAFVLIKRMNNEFNVVPRLR--TYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLK  180 (442)
Q Consensus       109 ~~~~~~g~~--~~A~~~~~~m~~~~g~~p~~~--ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~  180 (442)
                      ..|...|..  +.+...+....     .|+..  .+..+-.++...|+.++|...|++..+  +.|+......|.+
T Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~~l~~  198 (208)
T 3urz_A          130 NYYYLTAEQEKKKLETDYKKLS-----SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQKTLDK  198 (208)
T ss_dssp             HHHHHHHHHHHHHHHHHHC--------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHHHHHH
T ss_pred             HHHHHHhHHHHHHHHHHHHHHh-----CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHHHHHH
Confidence            887666543  34455554443     33332  233334455668999999999999875  4677655444433

>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=96.70  E-value=0.023  Score=45.26  Aligned_cols=103  Identities=8%  Similarity=-0.062  Sum_probs=76.8

Q ss_pred             HHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc--
Q 013497           60 HFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL--  137 (442)
Q Consensus        60 ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~--  137 (442)
                      ++..|=..+.+.+        ++++|++.|++..+.. +-+..+|+.+-.+|.+.|++++|++.+++.. +.  .|+.  
T Consensus        10 a~~~lG~~~~~~~--------~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al-~~--~~~~~~   77 (127)
T 4gcn_A           10 AEKDLGNAAYKQK--------DFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAV-EV--GRETRA   77 (127)
T ss_dssp             HHHHHHHHHHHTT--------CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--HHHTTC
T ss_pred             HHHHHHHHHHHcC--------CHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHH-Hh--Ccccch
Confidence            3334434555556        8999999999987754 2367889999999999999999999999876 32  2322  


Q ss_pred             ------ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 013497          138 ------RTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIA  176 (442)
Q Consensus       138 ------~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~  176 (442)
                            .+|..+=.+|...|++++|.+.|+.....  .||..+..
T Consensus        78 ~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~  120 (127)
T 4gcn_A           78 DYKLIAKAMSRAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVK  120 (127)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHH
Confidence                  35666667788899999999999987663  46655443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=96.62  E-value=0.017  Score=45.66  Aligned_cols=93  Identities=12%  Similarity=-0.014  Sum_probs=75.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 013497          104 VTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVS  182 (442)
Q Consensus       104 y~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~  182 (442)
                      +-.+-..+.+.|++++|...|+... ..  .| +...|..+-.++...|+.++|...|+...+..- -+...+..+-.++
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al-~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P-~~~~~~~~la~~~   95 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVC-QK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSH   95 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH-HH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH-HH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            3445567888999999999999987 43  45 567777888889999999999999999877532 2567788888899


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 013497          183 AETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       183 ~~~g~~~~a~~ll~~m~~  200 (442)
                      ...|+.++|...|++..+
T Consensus        96 ~~~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           96 TNEHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHC
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            999999999999988764

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.58  E-value=0.051  Score=52.69  Aligned_cols=162  Identities=10%  Similarity=-0.042  Sum_probs=113.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCC-C---------------HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHh
Q 013497           31 QSCTKSKDLTTAISLYESAHSQNLRL-S---------------LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLS   94 (442)
Q Consensus        31 ~~~~k~g~~~~A~~lf~~m~~~g~~p-~---------------~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~   94 (442)
                      ..+.+.|++++|++.|.++.+..-.. +               ..++..|..+|...|        ++++|.+++.....
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~--------~~~~a~~~~~~~~~   83 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMG--------AKDKLREFIPHSTE   83 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHT--------CHHHHHHHHHHTHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHH
Confidence            34678899999999999987543211 1               123666677888888        89999999988755


Q ss_pred             C-CCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHhHh---hCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 013497           95 N-NVIPNE----ASVTSVARLAASKNDGDYAFVLIKRMNN---EFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGL  165 (442)
Q Consensus        95 ~-g~~p~~----~ty~~li~~~~~~g~~~~A~~~~~~m~~---~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~  165 (442)
                      . +..++.    .+.+.+-..+...|+.++|.+++.+...   ..+..+ ...++..+...|...|++++|..++++...
T Consensus        84 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~  163 (434)
T 4b4t_Q           84 YMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLR  163 (434)
T ss_dssp             HHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHH
Confidence            2 111222    1222333344457889999999887651   122222 245788899999999999999999988754


Q ss_pred             C--CC--CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          166 M--GL--SL-EQQEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       166 ~--g~--~p-~~~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      .  +.  .| ...+|..++..|...|++++|..++++...
T Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          164 EFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             HHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            3  21  12 245788899999999999999999988754

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=96.58  E-value=0.026  Score=51.99  Aligned_cols=98  Identities=7%  Similarity=-0.126  Sum_probs=65.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLE--QQEIAALLKVS  182 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~--~~ty~~li~~~  182 (442)
                      -.+...+...|++++|.++|+.+. ..  .|+....-.+-..+.+.+++++|...|+...... .|.  ...+..|=.++
T Consensus       106 LayA~~L~~~g~y~eA~~~l~~~~-~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al  181 (282)
T 4f3v_A          106 MGFAACEAAQGNYADAMEALEAAP-VA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAA  181 (282)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTSSC-CT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHH-hc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHH
Confidence            345566778888888888888776 43  3544344444456778888888888887544321 111  23566677788


Q ss_pred             HhcCCHHHHHHHHHHHHhccCCCC
Q 013497          183 AETGRVEKVYQYLQKLRSTVRCVN  206 (442)
Q Consensus       183 ~~~g~~~~a~~ll~~m~~~~~~p~  206 (442)
                      ...|++++|...|++-......|.
T Consensus       182 ~~LG~~~eAl~~l~~a~~g~~~P~  205 (282)
T 4f3v_A          182 ANLALFTEAERRLTEANDSPAGEA  205 (282)
T ss_dssp             HHTTCHHHHHHHHHHHHTSTTTTT
T ss_pred             HHCCCHHHHHHHHHHHhcCCCCcc
Confidence            889999999999998875433254

>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=96.55  E-value=0.007  Score=60.59  Aligned_cols=117  Identities=10%  Similarity=-0.028  Sum_probs=88.4

Q ss_pred             CCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCH
Q 013497           75 PSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEA  153 (442)
Q Consensus        75 ~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~  153 (442)
                      .+.+.|++++|.+.|++..+.. +-+..+|..+-.+|.+.|++++|.+.+++.. +.  .| +..+|..+-.+|.+.|++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al-~l--~p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAI-EL--DKKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HS--CTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHHcCCH
Confidence            3445679999999999987753 2358899999999999999999999999988 44  44 457888899999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHH--HHhcCCHHHHHHHHH
Q 013497          154 EKAYEVEEHMGLMGLSLEQQEIAALLKV--SAETGRVEKVYQYLQ  196 (442)
Q Consensus       154 ~~A~~l~~~M~~~g~~p~~~ty~~li~~--~~~~g~~~~a~~ll~  196 (442)
                      ++|.+.|++..+..-. +...+..+-.+  +.+.|++++|.++++
T Consensus        91 ~eA~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999998765311 22344444444  788899999998887

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.46  E-value=0.051  Score=52.64  Aligned_cols=168  Identities=10%  Similarity=-0.016  Sum_probs=117.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHH---HHHHHHH-HHHhcCCCCCCchhhHHHHHHHHHHHHh----C
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQ-NLRLSLH---HFNALLY-LCSDSATDPSSKDSALRHGFRVFDQMLS----N   95 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~-g~~p~~~---ty~~ll~-~~~~~~~~~~~~~~~~~~a~~l~~~M~~----~   95 (442)
                      .+..+...|.+.|++++|.+++..+... +-.++..   ....++. .+...+        ..+.|.+++.....    .
T Consensus        57 al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~  128 (434)
T 4b4t_Q           57 SILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPD--------SLDDQIFVCEKSIEFAKRE  128 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCS--------CHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCC--------CHHHHHHHHHHHHHHHHHh
Confidence            6888999999999999999999986532 1112222   2233333 223334        78888888887643    3


Q ss_pred             CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhC-CC--CC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHC----
Q 013497           96 NVIPN-EASVTSVARLAASKNDGDYAFVLIKRMNNEF-NV--VP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLM----  166 (442)
Q Consensus        96 g~~p~-~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~-g~--~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~----  166 (442)
                      +..+. ..++..+...|...|++++|..++.+..... +.  .| ...+|..++..|...|++++|..+++.....    
T Consensus       129 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~  208 (434)
T 4b4t_Q          129 KRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSI  208 (434)
T ss_dssp             SCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             CccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcC
Confidence            44443 4677889999999999999999999876221 11  11 1357889999999999999999999876532    


Q ss_pred             CCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          167 GLSLE--QQEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       167 g~~p~--~~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      +..|.  ...+..+...+...|++++|...|.+..+
T Consensus       209 ~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          209 YCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            21111  24566666677789999999988877654

>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=96.44  E-value=0.037  Score=54.92  Aligned_cols=135  Identities=8%  Similarity=-0.163  Sum_probs=74.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+=..|.+.|++++|+..|++..+..  |+...          ..         -+...+ ...+       ...+|
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~--p~~~~----------~~---------~~~~~~-~~~~-------~~~~~  320 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWL--EMEYG----------LS---------EKESKA-SESF-------LLAAF  320 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHH--TTCCS----------CC---------HHHHHH-HHHH-------HHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHh--ccccc----------CC---------hHHHHH-HHHH-------HHHHH
Confidence            77788888999999999999999977532  11100          00         000000 0011       12445


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSL-EQQEIAALLKVSA  183 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p-~~~ty~~li~~~~  183 (442)
                      ..+-.+|.+.|++++|+..+++.. ... ..+...|..+-.+|...|++++|...|+...+.  .| +...+..+-..+.
T Consensus       321 ~nla~~~~~~g~~~~A~~~~~~al-~~~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~  396 (457)
T 1kt0_A          321 LNLAMCYLKLREYTKAVECCDKAL-GLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQISMCQK  396 (457)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----CHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHH-hcC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            555666666666666666666655 321 123455556666666666666666666665543  22 2334555555555


Q ss_pred             hcCCHHHHH
Q 013497          184 ETGRVEKVY  192 (442)
Q Consensus       184 ~~g~~~~a~  192 (442)
                      +.++.+++.
T Consensus       397 ~~~~~~~a~  405 (457)
T 1kt0_A          397 KAKEHNERD  405 (457)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555543

>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=96.42  E-value=0.046  Score=50.20  Aligned_cols=95  Identities=12%  Similarity=0.005  Sum_probs=51.9

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 013497          101 EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALL  179 (442)
Q Consensus       101 ~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li  179 (442)
                      ...+..+-..+.+.|++++|...|++.. ..  .| +...|..+-.+|.+.|++++|...++...+.. .-+...|..+-
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al-~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg   79 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAI-TR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            3445555555566666666666666555 22  23 34455555556666666666666666555432 11344555555


Q ss_pred             HHHHhcCCHHHHHHHHHHHH
Q 013497          180 KVSAETGRVEKVYQYLQKLR  199 (442)
Q Consensus       180 ~~~~~~g~~~~a~~ll~~m~  199 (442)
                      .+|...|++++|...|.+..
T Consensus        80 ~~~~~~g~~~~A~~~~~~al   99 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAY   99 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHH
Confidence            55666666666666665543

>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=96.42  E-value=0.15  Score=41.10  Aligned_cols=115  Identities=10%  Similarity=0.000  Sum_probs=94.0

Q ss_pred             CchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHH----cCC
Q 013497           77 SKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCE----NLE  152 (442)
Q Consensus        77 ~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~----~g~  152 (442)
                      .-.+++++|.+.|++..+.|. |+..    |-..|...+.+++|++.|+.-. +.|   +...+..|=..|..    .++
T Consensus         6 g~~~d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa-~~g---~~~a~~~Lg~~y~~G~g~~~d   76 (138)
T 1klx_A            6 TVKKDLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKAC-ELN---SGNGCRFLGDFYENGKYVKKD   76 (138)
T ss_dssp             SHHHHHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHH-HTT---CHHHHHHHHHHHHHCSSSCCC
T ss_pred             CCccCHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHH-cCC---CHHHHHHHHHHHHcCCCCCcc
Confidence            345689999999999999883 3433    5566777778899999999988 655   66778888888888    899


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhccC
Q 013497          153 AEKAYEVEEHMGLMGLSLEQQEIAALLKVSAE----TGRVEKVYQYLQKLRSTVR  203 (442)
Q Consensus       153 ~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~----~g~~~~a~~ll~~m~~~~~  203 (442)
                      .++|.+.|+.-.+.|   +...+..|-..|..    .++.++|.++|++-.+.|.
T Consensus        77 ~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           77 LRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            999999999998886   56777888888888    8899999999998887753

>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=96.42  E-value=0.014  Score=58.34  Aligned_cols=119  Identities=13%  Similarity=0.023  Sum_probs=90.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 013497           30 LQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVAR  109 (442)
Q Consensus        30 i~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~  109 (442)
                      -..+.+.|++++|++.|++..+.. +-+..+|..+-.++...+        ++++|.+.|++..+... -+..+|..+-.
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g--------~~~~A~~~~~~al~l~p-~~~~~~~~lg~   82 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTE--------CYGYALGDATRAIELDK-KYIKGYYRRAA   82 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHSCT-TCHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhc--------CHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            345677899999999999987652 234677777777888888        99999999999988643 36788999999


Q ss_pred             HHHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHH--HHHcCCHHHHHHHHH
Q 013497          110 LAASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFC--FCENLEAEKAYEVEE  161 (442)
Q Consensus       110 ~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~--~~~~g~~~~A~~l~~  161 (442)
                      +|.+.|++++|.+.|++.. +.  .|+ ...+..+-.+  +.+.|++++|.++++
T Consensus        83 ~~~~~g~~~eA~~~~~~al-~~--~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           83 SNMALGKFRAALRDYETVV-KV--KPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHTCHHHHHHHHHHHH-HH--STTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHcCCHHHHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999999999999987 43  343 3455555555  788899999999988

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=96.39  E-value=0.032  Score=55.87  Aligned_cols=121  Identities=9%  Similarity=-0.045  Sum_probs=89.6

Q ss_pred             hHHHHHHHHHHHHhC---CCC---C-CHHHHHHHHHHHHhcCCHHHHHHHHHHhHh----hCC-CCCCc-ccHHHHHHHH
Q 013497           81 ALRHGFRVFDQMLSN---NVI---P-NEASVTSVARLAASKNDGDYAFVLIKRMNN----EFN-VVPRL-RTYDPALFCF  147 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~---g~~---p-~~~ty~~li~~~~~~g~~~~A~~~~~~m~~----~~g-~~p~~-~ty~~li~~~  147 (442)
                      ++++|..++++..+.   -..   | -..+++.|...|...|++++|..++++...    ..| -.|++ .+|+.|-..|
T Consensus       324 ~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~  403 (490)
T 3n71_A          324 LYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTN  403 (490)
T ss_dssp             CHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence            899999999887652   122   2 257899999999999999999999988651    122 12332 6799999999


Q ss_pred             HHcCCHHHHHHHHHHHHHC---CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          148 CENLEAEKAYEVEEHMGLM---GLSLE----QQEIAALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       148 ~~~g~~~~A~~l~~~M~~~---g~~p~----~~ty~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      ...|++++|..++++..+-   -+-||    ..+.+.|-.++...+.+.+|..++.++++.
T Consensus       404 ~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          404 WHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999998876431   12232    234555666777888999999999999764

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=96.27  E-value=0.048  Score=42.99  Aligned_cols=94  Identities=11%  Similarity=0.038  Sum_probs=62.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+-.+-..+.+.|++++|+..|++..+.. +-+...|..+=.++...+        ++++|...|++..+... -+...+
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g--------~~~~A~~~~~~al~l~P-~~~~~~   88 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENE--------KDGLAIIALNHARMLDP-KDIAVH   88 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCT-TCHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHhCC-CCHHHH
Confidence            34445556677788888888888776542 124445544444666666        78888888877766432 255677


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      ..+-.+|...|++++|...+++..
T Consensus        89 ~~la~~~~~~g~~~~A~~~~~~al  112 (121)
T 1hxi_A           89 AALAVSHTNEHNANAALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH
Confidence            777777788888888888887766

>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=96.18  E-value=0.055  Score=43.85  Aligned_cols=113  Identities=16%  Similarity=0.069  Sum_probs=90.7

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--
Q 013497           36 SKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAAS--  113 (442)
Q Consensus        36 ~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~--  113 (442)
                      ..+.++|++.|.+..+.|. |+..    |=..|..+.        .+++|.+.|+...+.|   +...+..|-..|..  
T Consensus         8 ~~d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~--------~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~   71 (138)
T 1klx_A            8 KKDLKKAIQYYVKACELNE-MFGC----LSLVSNSQI--------NKQKLFQYLSKACELN---SGNGCRFLGDFYENGK   71 (138)
T ss_dssp             HHHHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTS--------CHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCS
T ss_pred             ccCHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCC--------CHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCC
Confidence            4578999999999998883 4443    222555555        6888999999998876   56777888888887  


Q ss_pred             --cCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHH----cCCHHHHHHHHHHHHHCCC
Q 013497          114 --KNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCE----NLEAEKAYEVEEHMGLMGL  168 (442)
Q Consensus       114 --~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~----~g~~~~A~~l~~~M~~~g~  168 (442)
                        .++.++|++.|+.-. +.|   +...+..|-..|..    .++.++|.+.|+.-.+.|.
T Consensus        72 g~~~d~~~A~~~~~~Aa-~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           72 YVKKDLRKAAQYYSKAC-GLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             SSCCCHHHHHHHHHHHH-HTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             CCCccHHHHHHHHHHHH-cCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence              889999999999988 665   56678888888888    8999999999999988774

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=96.17  E-value=0.16  Score=39.56  Aligned_cols=90  Identities=9%  Similarity=-0.004  Sum_probs=40.8

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCC-CC-HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC--HHHHHH
Q 013497           31 QSCTKSKDLTTAISLYESAHSQNLR-LS-LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN--EASVTS  106 (442)
Q Consensus        31 ~~~~k~g~~~~A~~lf~~m~~~g~~-p~-~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~--~~ty~~  106 (442)
                      ..+.+.|++++|...|++..+..-. |. ...+..+-.++...+        ++++|...|+...+......  ..++..
T Consensus        10 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~--------~~~~A~~~~~~~~~~~p~~~~~~~~~~~   81 (129)
T 2xev_A           10 FDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATR--------NFQLAEAQFRDLVSRYPTHDKAAGGLLK   81 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCTTSTTHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhc--------cHHHHHHHHHHHHHHCCCCcccHHHHHH
Confidence            3444556666666666655442210 10 012222222344444        55555555555544321110  334444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhH
Q 013497          107 VARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus       107 li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      +-.+|.+.|++++|...|++..
T Consensus        82 la~~~~~~g~~~~A~~~~~~~~  103 (129)
T 2xev_A           82 LGLSQYGEGKNTEAQQTLQQVA  103 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH
Confidence            5555555555555555555554

>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=95.91  E-value=0.09  Score=52.05  Aligned_cols=124  Identities=8%  Similarity=-0.037  Sum_probs=82.6

Q ss_pred             HHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcc
Q 013497           60 HFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI-PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLR  138 (442)
Q Consensus        60 ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~-p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~  138 (442)
                      .|..+=..+...+        ++++|...|++..+.... ++   +           .-+...    +.. .    -...
T Consensus       270 ~~~~~G~~~~~~g--------~~~~A~~~y~~Al~~~p~~~~---~-----------~~~~~~----~~~-~----~~~~  318 (457)
T 1kt0_A          270 IVKEKGTVYFKGG--------KYMQAVIQYGKIVSWLEMEYG---L-----------SEKESK----ASE-S----FLLA  318 (457)
T ss_dssp             HHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHTTCCS---C-----------CHHHHH----HHH-H----HHHH
T ss_pred             HHHHHHHHHHhCC--------CHHHHHHHHHHHHHHhccccc---C-----------ChHHHH----HHH-H----HHHH
Confidence            4444444555666        899999999987653211 11   0           011111    111 1    1246


Q ss_pred             cHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCh-HHHHHHHHHh
Q 013497          139 TYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNE-ETGKIIEDWF  217 (442)
Q Consensus       139 ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~-~t~~~li~~~  217 (442)
                      .|..+-.+|.+.|++++|...++...+..- .+...|..+-.+|...|++++|...|++..+.  .|+. ..+..+...+
T Consensus       319 ~~~nla~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~  395 (457)
T 1kt0_A          319 AFLNLAMCYLKLREYTKAVECCDKALGLDS-ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQISMCQ  395 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----CHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            788899999999999999999999887642 36788899999999999999999999998764  4433 3444444444

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=95.88  E-value=0.12  Score=42.63  Aligned_cols=102  Identities=9%  Similarity=0.005  Sum_probs=78.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhHhhC-------C----------CCCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMNNEF-------N----------VVPRLRTYDPALFCFCENLEAEKAYEVEEHMG  164 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~~~~-------g----------~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~  164 (442)
                      ..+...-..+.+.|++++|...|.+.. ..       .          -.-+...|..+-.+|.+.|++++|...++...
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDAL-TRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH-HHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHH-HHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            345566677888999999999998876 32       0          01123578888899999999999999999988


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCh
Q 013497          165 LMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNE  207 (442)
Q Consensus       165 ~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~  207 (442)
                      ... +.+...|..+-.+|...|++++|...|.+....  .|+.
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            753 235778888999999999999999999987765  4543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=95.70  E-value=0.48  Score=44.13  Aligned_cols=165  Identities=12%  Similarity=0.020  Sum_probs=121.7

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHH--HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 013497           37 KDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALR--HGFRVFDQMLSNNVIPNEASVTSVARLAASK  114 (442)
Q Consensus        37 g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~--~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~  114 (442)
                      +++++++++++++.+.. +-|-.+|+---.+....+        ..+  ++++.++.|.+..+. |-..|+---..+.+.
T Consensus       124 ~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~--------~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l  193 (306)
T 3dra_A          124 FDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFD--------LHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSK  193 (306)
T ss_dssp             CCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSS
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhc--------ccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhc
Confidence            78999999999998654 236677776655555555        455  899999999887654 888888777777777


Q ss_pred             CC------HHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHH-HHHHHHHHHHCC--CCCCHHHHHHHHHHHHhc
Q 013497          115 ND------GDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEK-AYEVEEHMGLMG--LSLEQQEIAALLKVSAET  185 (442)
Q Consensus       115 g~------~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~-A~~l~~~M~~~g--~~p~~~ty~~li~~~~~~  185 (442)
                      +.      ++++++.++++. ... .-|...|+-+-..+.+.|.... +.++.+...+.+  -..+...+..+.+.|.+.
T Consensus       194 ~~~~~~~~~~eEl~~~~~aI-~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~  271 (306)
T 3dra_A          194 KHLATDNTIDEELNYVKDKI-VKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQ  271 (306)
T ss_dssp             GGGCCHHHHHHHHHHHHHHH-HHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHT
T ss_pred             cccchhhhHHHHHHHHHHHH-HhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHcc
Confidence            76      899999999887 432 3366778888888888887444 455666655432  244778899999999999


Q ss_pred             CCHHHHHHHHHHHHhccCCCChHHHHHH
Q 013497          186 GRVEKVYQYLQKLRSTVRCVNEETGKII  213 (442)
Q Consensus       186 g~~~~a~~ll~~m~~~~~~p~~~t~~~l  213 (442)
                      |+.++|.++++.+.+.-.+....-|+-.
T Consensus       272 ~~~~~A~~~~~~l~~~~Dpir~~yW~~~  299 (306)
T 3dra_A          272 KKYNESRTVYDLLKSKYNPIRSNFWDYQ  299 (306)
T ss_dssp             TCHHHHHHHHHHHHHTTCGGGHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhccChHHHHHHHHH
Confidence            9999999999999864334444455443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=95.61  E-value=0.094  Score=52.46  Aligned_cols=127  Identities=8%  Similarity=-0.098  Sum_probs=93.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHh---CCCCC----CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHh-----CCCC-
Q 013497           32 SCTKSKDLTTAISLYESAHS---QNLRL----SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLS-----NNVI-   98 (442)
Q Consensus        32 ~~~k~g~~~~A~~lf~~m~~---~g~~p----~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~-----~g~~-   98 (442)
                      .+-..|++++|+.++.+..+   .-+-|    ...+++.|-.+|...|        ++++|..++++..+     .|.. 
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g--------~~~eA~~~~~~aL~i~~~~lG~~H  389 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQ--------AYEEASHYARRMVDGYMKLYHHNN  389 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHHSCTTC
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhc--------CHHHHHHHHHHHHHHHHHHcCCCC
Confidence            35678999999999998653   22223    2367788878888888        99999999988654     3322 


Q ss_pred             CC-HHHHHHHHHHHHhcCCHHHHHHHHHHhHh--hCCCCCCc----ccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 013497           99 PN-EASVTSVARLAASKNDGDYAFVLIKRMNN--EFNVVPRL----RTYDPALFCFCENLEAEKAYEVEEHMGLM  166 (442)
Q Consensus        99 p~-~~ty~~li~~~~~~g~~~~A~~~~~~m~~--~~g~~p~~----~ty~~li~~~~~~g~~~~A~~l~~~M~~~  166 (442)
                      |+ ..+++.|-..|...|++++|+.++++...  ..-+-|+.    .+.+.+-.++...+..++|+.+|..+.+.
T Consensus       390 p~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          390 AQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33 47899999999999999999999987541  11122332    34566667777888899999999998753

>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=95.59  E-value=0.1  Score=50.19  Aligned_cols=136  Identities=14%  Similarity=0.003  Sum_probs=78.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+-..+.+.|++++|+..|++..+.-  |      .    +....        ..+++.++-        +-+..+|
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~--~------~----~~~~~--------~~~~~~~~~--------~~~~~~~  276 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYV--E------G----SRAAA--------EDADGAKLQ--------PVALSCV  276 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHH--H------H----HHHHS--------CHHHHGGGH--------HHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHh--h------c----Ccccc--------ChHHHHHHH--------HHHHHHH
Confidence            57777888999999999999999876410  0      0    00000        111111100        0124556


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      ..+-.+|.+.|++++|+..+++.. +  +.| +...|..+-.+|...|++++|.+.|++..+..- -+...+..+-..+.
T Consensus       277 ~nla~~~~~~g~~~~A~~~~~~al-~--~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P-~~~~~~~~l~~~~~  352 (370)
T 1ihg_A          277 LNIGACKLKMSDWQGAVDSCLEAL-E--IDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLKVKQ  352 (370)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-T--TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHH-H--hCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            666666777777777777777666 3  233 345566666667777777777777776655421 14455555555555


Q ss_pred             hcCCHHHHH
Q 013497          184 ETGRVEKVY  192 (442)
Q Consensus       184 ~~g~~~~a~  192 (442)
                      ..++.+++.
T Consensus       353 ~~~~~~~a~  361 (370)
T 1ihg_A          353 KIKAQKDKE  361 (370)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555555554

>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=95.42  E-value=0.14  Score=49.27  Aligned_cols=79  Identities=6%  Similarity=-0.109  Sum_probs=62.2

Q ss_pred             CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC-hHHHHHHH
Q 013497          136 RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVN-EETGKIIE  214 (442)
Q Consensus       136 ~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~-~~t~~~li  214 (442)
                      +..+|..+-.+|.+.|++++|.+.++...+.. .-+...|..+-.+|...|++++|...|++..+.  .|+ ...+..+.
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~  348 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELL  348 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            45778899999999999999999999998753 225778888999999999999999999988765  354 34444444


Q ss_pred             HHh
Q 013497          215 DWF  217 (442)
Q Consensus       215 ~~~  217 (442)
                      ..+
T Consensus       349 ~~~  351 (370)
T 1ihg_A          349 KVK  351 (370)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            433

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=95.26  E-value=0.16  Score=38.95  Aligned_cols=77  Identities=13%  Similarity=-0.020  Sum_probs=47.5

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHH
Q 013497           85 GFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHM  163 (442)
Q Consensus        85 a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M  163 (442)
                      |.+.|++..+.. +-+...+..+-..|...|++++|...|++.. ..  .| +...|..+-..|...|+.++|...|+..
T Consensus         4 a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al-~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            4 ITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAAL-DF--DPTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             HHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHH-HH--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            455566555433 2355666677777777777777777777766 32  23 3445666666666777777777666665


Q ss_pred             HH
Q 013497          164 GL  165 (442)
Q Consensus       164 ~~  165 (442)
                      ..
T Consensus        80 l~   81 (115)
T 2kat_A           80 LA   81 (115)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=95.23  E-value=0.62  Score=46.51  Aligned_cols=154  Identities=8%  Similarity=0.001  Sum_probs=88.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhC---------
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSN---------   95 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~---------   95 (442)
                      .|-..+.-+.+.|++++|..+|++....   |.....-.   .+....        ..+   ++++.+.+.         
T Consensus       215 lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~~l~~---~y~~~~--------e~~---~~~~~l~~~~~~~~~~~~  277 (493)
T 2uy1_A          215 VYFFYSEYLIGIGQKEKAKKVVERGIEM---SDGMFLSL---YYGLVM--------DEE---AVYGDLKRKYSMGEAESA  277 (493)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHH---HHHHHT--------TCT---HHHHHHHHHTC-------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCcHHHHH---HHHhhc--------chh---HHHHHHHHHHHhhccchh
Confidence            5666666777899999999999998876   44322111   122110        000   111211110         


Q ss_pred             CCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH
Q 013497           96 NVI---PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQ  172 (442)
Q Consensus        96 g~~---p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~  172 (442)
                      +..   .....|...++.+-+.+.++.|..+|+... ..+..+.+....+.+... ..++.+.|..+|+...+.- .-+.
T Consensus       278 ~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A~-~~~~~~~v~i~~A~lE~~-~~~d~~~ar~ife~al~~~-~~~~  354 (493)
T 2uy1_A          278 EKVFSKELDLLRINHLNYVLKKRGLELFRKLFIELG-NEGVGPHVFIYCAFIEYY-ATGSRATPYNIFSSGLLKH-PDST  354 (493)
T ss_dssp             ---CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHT-TSCCCHHHHHHHHHHHHH-HHCCSHHHHHHHHHHHHHC-TTCH
T ss_pred             hhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHhh-CCCCChHHHHHHHHHHHH-HCCChHHHHHHHHHHHHHC-CCCH
Confidence            011   123556777777777778888888888764 322211111111222222 2336888888888877642 1134


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHH
Q 013497          173 QEIAALLKVSAETGRVEKVYQYLQKL  198 (442)
Q Consensus       173 ~ty~~li~~~~~~g~~~~a~~ll~~m  198 (442)
                      ..|...++...+.|+.+.|..+|++.
T Consensus       355 ~~~~~yid~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          355 LLKEEFFLFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            45566777777788888888888876

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=95.20  E-value=0.18  Score=36.31  Aligned_cols=79  Identities=9%  Similarity=-0.005  Sum_probs=48.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 013497          101 EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLK  180 (442)
Q Consensus       101 ~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~  180 (442)
                      ...+..+-..+...|++++|...|++.. ... ..+...+..+-..|.+.|++++|.+.+++..+..- .+...+..+-.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~-~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~l~~   85 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKAL-ELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHH-hcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCHHHHHHHHH
Confidence            3456666677777788888888777766 321 22345666667777777777777777777665421 13444444444


Q ss_pred             HH
Q 013497          181 VS  182 (442)
Q Consensus       181 ~~  182 (442)
                      .+
T Consensus        86 ~~   87 (91)
T 1na3_A           86 AK   87 (91)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=95.13  E-value=0.073  Score=40.25  Aligned_cols=65  Identities=6%  Similarity=-0.141  Sum_probs=48.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLM  166 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~  166 (442)
                      +...|..+-..+...|++++|.+.|++.. ... ..+...|..+-.+|.+.|++++|.+.++...+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al-~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLI-TAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHH-hcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            45567777778888888888888888876 331 224566777778888888888888888887754

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=95.05  E-value=0.44  Score=39.02  Aligned_cols=27  Identities=22%  Similarity=0.175  Sum_probs=23.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHS   51 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~   51 (442)
                      .+...=..+.+.|++++|+..|.+..+
T Consensus        13 ~~~~~G~~~~~~~~~~~A~~~y~~al~   39 (162)
T 3rkv_A           13 ALRQKGNELFVQKDYKEAIDAYRDALT   39 (162)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            677777889999999999999998764

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=95.05  E-value=0.085  Score=49.90  Aligned_cols=145  Identities=10%  Similarity=-0.089  Sum_probs=79.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+..+-..+.+.|++++|+..|.+..+.  .|+...       +...+        ..+++...+.          ..+|
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~--------~~~~~~~~l~----------~~~~  233 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYG--------KYQDMALAVK----------NPCH  233 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCH--------HHHHHHHHHH----------THHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcc--------cHHHHHHHHH----------HHHH
Confidence            6777778888999999999999997754  233321       11122        4444443321          1367


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHH-
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLE-QQEIAALLKV-  181 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~-~~ty~~li~~-  181 (442)
                      ..+-.+|.+.|++++|+..++... ..  .| +...|..+-.+|...|++++|...|+...+.  .|+ ...+..|... 
T Consensus       234 ~nla~~~~~~g~~~~A~~~~~~al-~~--~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~  308 (338)
T 2if4_A          234 LNIAACLIKLKRYDEAIGHCNIVL-TE--EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALA  308 (338)
T ss_dssp             HHHHHHHHTTTCCHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC------------------
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHH
Confidence            788888889999999999998877 43  34 5577888888899999999999998887643  343 3334444433 


Q ss_pred             HHhcCCHHHHHHHHHHHHhc
Q 013497          182 SAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       182 ~~~~g~~~~a~~ll~~m~~~  201 (442)
                      ....+..+++..+|..|...
T Consensus       309 ~~~~~~~~~a~~~~~~~l~~  328 (338)
T 2if4_A          309 EQEKALYQKQKEMYKGIFKG  328 (338)
T ss_dssp             --------------------
T ss_pred             HHHHHHHHHHHHHHHHhhCC
Confidence            23356677788888877543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=94.96  E-value=0.14  Score=39.27  Aligned_cols=79  Identities=9%  Similarity=-0.180  Sum_probs=64.3

Q ss_pred             HHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 013497          119 YAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQK  197 (442)
Q Consensus       119 ~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~  197 (442)
                      +|+..|++.. ..  .| +...+..+-..|...|++++|...|+......- .+...|..+-.+|...|+.++|...|++
T Consensus         3 ~a~~~~~~al-~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~   78 (115)
T 2kat_A            3 AITERLEAML-AQ--GTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDP-TYSVAWKWLGKTLQGQGDRAGARQAWES   78 (115)
T ss_dssp             CHHHHHHHHH-TT--TCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHH-Hh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            5677787776 32  34 567788888999999999999999999887542 3567888899999999999999999998


Q ss_pred             HHhc
Q 013497          198 LRST  201 (442)
Q Consensus       198 m~~~  201 (442)
                      ....
T Consensus        79 al~~   82 (115)
T 2kat_A           79 GLAA   82 (115)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            7653

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=94.75  E-value=0.13  Score=38.72  Aligned_cols=63  Identities=13%  Similarity=0.044  Sum_probs=47.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGL  165 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~  165 (442)
                      +..++..+-..|.+.|++++|...|++.. +.  .| +...|..+-.+|.+.|++++|.+.|+...+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al-~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELV-ET--DPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHH-Hh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            56677777888888888888888888877 43  33 345677778888888888888888777653

>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=94.63  E-value=0.29  Score=40.81  Aligned_cols=94  Identities=12%  Similarity=-0.035  Sum_probs=73.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC--------c-----ccHHHHHHHHHHcCCHHHHHHHHHHHHHC----
Q 013497          104 VTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR--------L-----RTYDPALFCFCENLEAEKAYEVEEHMGLM----  166 (442)
Q Consensus       104 y~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~--------~-----~ty~~li~~~~~~g~~~~A~~l~~~M~~~----  166 (442)
                      +...-..+.+.|++++|+..|+... +  +.|+        .     ..|+.+-.++.+.|++++|...++...+.    
T Consensus        14 ~~~~G~~l~~~g~~eeAi~~Y~kAL-~--l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~   90 (159)
T 2hr2_A           14 ALSDAQRQLVAGEYDEAAANCRRAM-E--ISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   90 (159)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHH-H--HHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHH-h--hCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            4445556788999999999999877 3  3454        1     27888899999999999999999988764    


Q ss_pred             -CCCCCH-HHH----HHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          167 -GLSLEQ-QEI----AALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       167 -g~~p~~-~ty----~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                       .+.|+. ..|    ...-.++...|++++|...|++-.+
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             235654 466    7777888899999999999988754

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=94.57  E-value=0.13  Score=38.82  Aligned_cols=69  Identities=9%  Similarity=0.030  Sum_probs=54.4

Q ss_pred             CHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC
Q 013497           57 SLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR  136 (442)
Q Consensus        57 ~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~  136 (442)
                      +...|..+-..+...+        ++++|.+.|++..+.. +.+..+|..+-.+|.+.|++++|...+++.. .  +.|+
T Consensus         3 ~~~~~~~~g~~~~~~~--------~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al-~--~~p~   70 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQG--------LYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGL-R--YTST   70 (111)
T ss_dssp             HHHHHHHHHHHHHTTT--------CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-T--SCSS
T ss_pred             hHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHH-H--hCCC
Confidence            3445555555666666        8999999999987754 3367889999999999999999999999988 4  4666


Q ss_pred             c
Q 013497          137 L  137 (442)
Q Consensus       137 ~  137 (442)
                      .
T Consensus        71 ~   71 (111)
T 2l6j_A           71 A   71 (111)
T ss_dssp             T
T ss_pred             c
Confidence            4

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=94.21  E-value=2  Score=42.10  Aligned_cols=155  Identities=11%  Similarity=0.027  Sum_probs=108.6

Q ss_pred             HHHHHHHHHHhc----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-H--HhcCCCCCCchhhHHHHHHHHHHHHhCCC
Q 013497           25 NFLINLQSCTKS----KDLTTAISLYESAHSQNLRLSLHHFNALLYL-C--SDSATDPSSKDSALRHGFRVFDQMLSNNV   97 (442)
Q Consensus        25 ~~~~li~~~~k~----g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~-~--~~~~~~~~~~~~~~~~a~~l~~~M~~~g~   97 (442)
                      .+..|-..|...    ++.++|+..|++.. .|.   +..+..|=.+ +  ...+        ++++|.+.|++..+.| 
T Consensus       215 ~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g~---~~a~~~Lg~~~~~~~~~~--------d~~~A~~~~~~Aa~~g-  281 (452)
T 3e4b_A          215 RVDSVARVLGDATLGTPDEKTAQALLEKIA-PGY---PASWVSLAQLLYDFPELG--------DVEQMMKYLDNGRAAD-  281 (452)
T ss_dssp             HHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GGS---THHHHHHHHHHHHSGGGC--------CHHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CCC---HHHHHHHHHHHHhCCCCC--------CHHHHHHHHHHHHHCC-
Confidence            334455555444    69999999999987 443   3444444333 3  2334        8999999999998887 


Q ss_pred             CCCHHHHHHHHHHHHhcC-----CHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHH----cCCHHHHHHHHHHHHHCCC
Q 013497           98 IPNEASVTSVARLAASKN-----DGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCE----NLEAEKAYEVEEHMGLMGL  168 (442)
Q Consensus        98 ~p~~~ty~~li~~~~~~g-----~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~----~g~~~~A~~l~~~M~~~g~  168 (442)
                        +...+..|-..|. .|     +.++|.+.|+...     .-+...+..|-..|..    ..+.++|.+.|+.-.+.|.
T Consensus       282 --~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  353 (452)
T 3e4b_A          282 --QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ  353 (452)
T ss_dssp             --CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC
T ss_pred             --CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh
Confidence              5667777777776 55     9999999997644     3355566666666655    3389999999999988875


Q ss_pred             CCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhccC
Q 013497          169 SLEQQEIAALLKVSAE----TGRVEKVYQYLQKLRSTVR  203 (442)
Q Consensus       169 ~p~~~ty~~li~~~~~----~g~~~~a~~ll~~m~~~~~  203 (442)
                      .   .....|-..|..    ..+.++|..+|..-.+.|.
T Consensus       354 ~---~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~  389 (452)
T 3e4b_A          354 N---SADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDT  389 (452)
T ss_dssp             T---THHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCC
T ss_pred             H---HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCC
Confidence            3   344455555543    4588999999988877763

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=93.92  E-value=0.17  Score=47.88  Aligned_cols=95  Identities=8%  Similarity=-0.073  Sum_probs=77.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcc------------------cHHHHHHHHHHcCCHHHHHHHHHHH
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLR------------------TYDPALFCFCENLEAEKAYEVEEHM  163 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~------------------ty~~li~~~~~~g~~~~A~~l~~~M  163 (442)
                      ..+..+-..+.+.|++++|...|++.. .  +.|+..                  .|..+-.+|.+.|++++|...++..
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al-~--~~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~a  256 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAI-A--YMGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIV  256 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHH-H--HSCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHH-H--HhccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            345666677888999999999998876 3  245433                  7888889999999999999999998


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          164 GLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       164 ~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      .+.. ..+...|..+-.+|...|++++|...|++...
T Consensus       257 l~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~  292 (338)
T 2if4_A          257 LTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQK  292 (338)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7753 23678889999999999999999999987754

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=93.83  E-value=0.63  Score=48.97  Aligned_cols=96  Identities=8%  Similarity=0.054  Sum_probs=62.1

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVE  160 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~  160 (442)
                      ++++|+++.+.+      .+...|..|-..+.+.|+++.|.+.|..+. .         |..+...|...|+.+...++-
T Consensus       667 ~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~-d---------~~~l~~l~~~~~~~~~~~~~~  730 (814)
T 3mkq_A          667 QLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAH-D---------LESLFLLHSSFNNKEGLVTLA  730 (814)
T ss_dssp             CHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHT-C---------HHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHcc-C---------hhhhHHHHHHcCCHHHHHHHH
Confidence            566666665433      466788888888888888888888887776 2         555666666677776666555


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 013497          161 EHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKL  198 (442)
Q Consensus       161 ~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m  198 (442)
                      +.....|-      ++.-..+|.+.|++++|.+++.++
T Consensus       731 ~~a~~~~~------~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          731 KDAETTGK------FNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHcCc------hHHHHHHHHHcCCHHHHHHHHHHc
Confidence            55544432      244444556667777777776655

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=93.81  E-value=3.2  Score=38.40  Aligned_cols=186  Identities=8%  Similarity=0.102  Sum_probs=125.5

Q ss_pred             HHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH----HhcCCCCCCchhhHHHHHHHHHHHHhCCCC
Q 013497           25 NFLINLQSCTKSK--DLTTAISLYESAHSQNLRLSLHHFNALLYLC----SDSATDPSSKDSALRHGFRVFDQMLSNNVI   98 (442)
Q Consensus        25 ~~~~li~~~~k~g--~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~----~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~   98 (442)
                      .||.-=..+...+  ++++++++++.+...+-+ +..+|+.--.+.    ...+.     .+.+++++++++.+.+... 
T Consensus        69 aWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~-----~~~~~~EL~~~~~~l~~~p-  141 (306)
T 3dra_A           69 IWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNN-----DFDPYREFDILEAMLSSDP-  141 (306)
T ss_dssp             HHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTT-----CCCTHHHHHHHHHHHHHCT-
T ss_pred             HHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccc-----cCCHHHHHHHHHHHHHhCC-
Confidence            4555555566667  899999999998765422 234454443322    33310     0168899999999988653 


Q ss_pred             CCHHHHHHHHHHHHhcCCHH--HHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCC------HHHHHHHHHHHHHCCCCC
Q 013497           99 PNEASVTSVARLAASKNDGD--YAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLE------AEKAYEVEEHMGLMGLSL  170 (442)
Q Consensus        99 p~~~ty~~li~~~~~~g~~~--~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~------~~~A~~l~~~M~~~g~~p  170 (442)
                      -|-.+|+----.+.+.|.++  ++++.++.+. +.. .-|-..|+.--..+.+.|.      ++++++.++.+...... 
T Consensus       142 kny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i-~~d-~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~-  218 (306)
T 3dra_A          142 KNHHVWSYRKWLVDTFDLHNDAKELSFVDKVI-DTD-LKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQ-  218 (306)
T ss_dssp             TCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSS-
T ss_pred             CCHHHHHHHHHHHHHhcccChHHHHHHHHHHH-HhC-CCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCCC-
Confidence            37888888888888889888  9999999998 542 2245566655555556665      88999999998876544 


Q ss_pred             CHHHHHHHHHHHHhcCCH-HHHHHHHHHHHhcc--CCCChHHHHHHHHHhccccC
Q 013497          171 EQQEIAALLKVSAETGRV-EKVYQYLQKLRSTV--RCVNEETGKIIEDWFSGQKV  222 (442)
Q Consensus       171 ~~~ty~~li~~~~~~g~~-~~a~~ll~~m~~~~--~~p~~~t~~~li~~~~~~~~  222 (442)
                      |...|+-+-..+.+.|+. +.+..+..++...+  -..++.....+...+  .+.
T Consensus       219 n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~--~~~  271 (306)
T 3dra_A          219 NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIY--TQQ  271 (306)
T ss_dssp             CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHH--HHT
T ss_pred             CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHH--Hcc
Confidence            788898888888888874 33555666554432  133556667777777  544

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=93.79  E-value=0.93  Score=32.31  Aligned_cols=61  Identities=13%  Similarity=0.120  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHh
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLS   94 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~   94 (442)
                      .|..+-..+.+.|++++|+..|++..+.. +.+...+..+-.++...+        ++++|.+.|++..+
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~--------~~~~A~~~~~~a~~   71 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQG--------DYDEAIEYYQKALE   71 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHh--------hHHHHHHHHHHHHh
Confidence            44555555555666666666666554332 112333444333444444        55555555555444

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=93.45  E-value=0.32  Score=36.42  Aligned_cols=81  Identities=10%  Similarity=-0.109  Sum_probs=61.1

Q ss_pred             CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc-CCCChHHHHHHH
Q 013497          136 RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTV-RCVNEETGKIIE  214 (442)
Q Consensus       136 ~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~-~~p~~~t~~~li  214 (442)
                      +...+..+-..|.+.|++++|.+.|+...+..-. +...|..+-.+|.+.|++++|.+.|++..... -.++.....-+.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~l~   84 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQKDLSELQ   84 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhcCCchhHHHHHH
Confidence            4567888889999999999999999999876422 45688899999999999999999998876531 223444444444


Q ss_pred             HHh
Q 013497          215 DWF  217 (442)
Q Consensus       215 ~~~  217 (442)
                      ..+
T Consensus        85 ~~l   87 (100)
T 3ma5_A           85 DAK   87 (100)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            444

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=93.29  E-value=0.8  Score=45.69  Aligned_cols=123  Identities=8%  Similarity=0.006  Sum_probs=83.6

Q ss_pred             HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHH--HHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC
Q 013497           59 HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVT--SVARLAASKNDGDYAFVLIKRMNNEFNVVPR  136 (442)
Q Consensus        59 ~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~--~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~  136 (442)
                      ..|-..+....+.+        .++.|..+|+.. .. ..++...|.  +.+...+ .++.+.|..+|+...+..   |+
T Consensus       287 ~lw~~y~~~~~r~~--------~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~-~~d~~~ar~ife~al~~~---~~  352 (493)
T 2uy1_A          287 LLRINHLNYVLKKR--------GLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYA-TGSRATPYNIFSSGLLKH---PD  352 (493)
T ss_dssp             HHHHHHHHHHHHHH--------CHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHH-HCCSHHHHHHHHHHHHHC---TT
T ss_pred             HHHHHHHHHHHHcC--------CHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHH-CCChHHHHHHHHHHHHHC---CC
Confidence            44555555555554        688899999888 22 112333443  3333323 236899999999887233   33


Q ss_pred             -cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          137 -LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       137 -~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                       ...+...+....+.|+.+.|..+|+....     ....|...++.=...|+.+.+..++++...
T Consensus       353 ~~~~~~~yid~e~~~~~~~~aR~l~er~~k-----~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          353 STLLKEEFFLFLLRIGDEENARALFKRLEK-----TSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHSCC-----BHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-----HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             22355567777788999999999999742     567888888877788999999998988875

>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=92.97  E-value=0.61  Score=45.68  Aligned_cols=93  Identities=9%  Similarity=-0.069  Sum_probs=71.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHhh--CCCCCC----cccHHHHHHHHHHcCCHHHHHHHHHHHHHC-----C-CCC-CHH
Q 013497          107 VARLAASKNDGDYAFVLIKRMNNE--FNVVPR----LRTYDPALFCFCENLEAEKAYEVEEHMGLM-----G-LSL-EQQ  173 (442)
Q Consensus       107 li~~~~~~g~~~~A~~~~~~m~~~--~g~~p~----~~ty~~li~~~~~~g~~~~A~~l~~~M~~~-----g-~~p-~~~  173 (442)
                      .+..+.+.|++++|+.++++....  .-+-|+    ..+++.|...|...|++++|..++++...-     | --| ...
T Consensus       293 ~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~  372 (429)
T 3qwp_A          293 KIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGV  372 (429)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHH
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHH
Confidence            355667789999999999987621  112232    368999999999999999999999987532     2 122 245


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 013497          174 EIAALLKVSAETGRVEKVYQYLQKLR  199 (442)
Q Consensus       174 ty~~li~~~~~~g~~~~a~~ll~~m~  199 (442)
                      +|+.|-..|...|++++|..++++..
T Consensus       373 ~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          373 QVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            78899999999999999999998764

>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=92.88  E-value=0.53  Score=46.14  Aligned_cols=87  Identities=10%  Similarity=-0.097  Sum_probs=66.9

Q ss_pred             hcCCHHHHHHHHHHhHh--hCCCCCC----cccHHHHHHHHHHcCCHHHHHHHHHHHHHC-----C-CCCC-HHHHHHHH
Q 013497          113 SKNDGDYAFVLIKRMNN--EFNVVPR----LRTYDPALFCFCENLEAEKAYEVEEHMGLM-----G-LSLE-QQEIAALL  179 (442)
Q Consensus       113 ~~g~~~~A~~~~~~m~~--~~g~~p~----~~ty~~li~~~~~~g~~~~A~~l~~~M~~~-----g-~~p~-~~ty~~li  179 (442)
                      ..|++++|+.++++...  +.-+-|+    ..+++.|...|...|++++|..++++..+-     | --|+ ..+|+.|-
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            35788999999987652  1223333    278999999999999999999999987532     2 1222 45789999


Q ss_pred             HHHHhcCCHHHHHHHHHHHH
Q 013497          180 KVSAETGRVEKVYQYLQKLR  199 (442)
Q Consensus       180 ~~~~~~g~~~~a~~ll~~m~  199 (442)
                      ..|...|++++|..++++-.
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHH
Confidence            99999999999999998754

>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=92.86  E-value=1.2  Score=37.04  Aligned_cols=96  Identities=13%  Similarity=-0.012  Sum_probs=66.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-C-----CHH-----HHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLR-L-----SLH-----HFNALLYLCSDSATDPSSKDSALRHGFRVFDQML   93 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~-p-----~~~-----ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~   93 (442)
                      .+...=..+.+.|++++|+..|++..+..-. |     +..     .|+.+=.++...+        ++++|+..|+...
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lg--------r~~eAl~~~~kAL   84 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLR--------SFDEALHSADKAL   84 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCC--------CHHHHHHHHHHHH
Confidence            4555566678899999999999997753211 1     222     6666655677777        8999999999877


Q ss_pred             hC-----CCCCC-HHHH----HHHHHHHHhcCCHHHHHHHHHHhH
Q 013497           94 SN-----NVIPN-EASV----TSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus        94 ~~-----g~~p~-~~ty----~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      +.     -+.|+ ...|    ...-.++...|++++|+..|++..
T Consensus        85 ~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAl  129 (159)
T 2hr2_A           85 HYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  129 (159)
T ss_dssp             HHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHH
Confidence            63     11444 3455    666677777888888888877764

>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=92.84  E-value=0.51  Score=46.28  Aligned_cols=84  Identities=2%  Similarity=-0.128  Sum_probs=65.4

Q ss_pred             hHHHHHHHHHHHHh---CCCCC---C-HHHHHHHHHHHHhcCCHHHHHHHHHHhHh----hCC-CCCCc-ccHHHHHHHH
Q 013497           81 ALRHGFRVFDQMLS---NNVIP---N-EASVTSVARLAASKNDGDYAFVLIKRMNN----EFN-VVPRL-RTYDPALFCF  147 (442)
Q Consensus        81 ~~~~a~~l~~~M~~---~g~~p---~-~~ty~~li~~~~~~g~~~~A~~~~~~m~~----~~g-~~p~~-~ty~~li~~~  147 (442)
                      ++++|..++++..+   .-..|   + ..+++.|..+|...|++++|+.++++...    ..| -.|++ .+|+.|-..|
T Consensus       313 ~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~  392 (433)
T 3qww_A          313 SPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLY  392 (433)
T ss_dssp             CHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHH
Confidence            68899999987655   22223   2 47899999999999999999999998752    122 12333 6799999999


Q ss_pred             HHcCCHHHHHHHHHHHH
Q 013497          148 CENLEAEKAYEVEEHMG  164 (442)
Q Consensus       148 ~~~g~~~~A~~l~~~M~  164 (442)
                      ...|++++|..++++..
T Consensus       393 ~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          393 MGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHTTCHHHHHHHHHHHH
T ss_pred             HhccCHHHHHHHHHHHH
Confidence            99999999999998764

>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=92.26  E-value=4.1  Score=38.47  Aligned_cols=171  Identities=13%  Similarity=0.042  Sum_probs=104.1

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-
Q 013497           38 DLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKND-  116 (442)
Q Consensus        38 ~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~-  116 (442)
                      +.++++++++++.+..- -|-.+|+---.+....+.........+.++++.++++.+..+. |..+|+-.-..+.+.+. 
T Consensus       140 ~~~~EL~~~~k~L~~dp-kNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SAW~~R~~lL~~l~~~  217 (349)
T 3q7a_A          140 DPVSEIEYIHGSLLPDP-KNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSAWGWRWYLRVSRPGA  217 (349)
T ss_dssp             CCHHHHHHHHHHTSSCT-TCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHTTSTTC
T ss_pred             ChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcccc
Confidence            55666666666654331 2444444433222222200000011234899999999887644 88899988888888876 


Q ss_pred             ------HHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCH--------------------HHHHHHHHHHHHCC--
Q 013497          117 ------GDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEA--------------------EKAYEVEEHMGLMG--  167 (442)
Q Consensus       117 ------~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~--------------------~~A~~l~~~M~~~g--  167 (442)
                            ++++++.+++.. ..  .| |...|+-+-..+.+.|..                    .+..+...++...+  
T Consensus       218 ~~~~~~~~eELe~~~~aI-~~--~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  294 (349)
T 3q7a_A          218 ETSSRSLQDELIYILKSI-HL--IPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLP  294 (349)
T ss_dssp             CCCHHHHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCC
T ss_pred             ccchHHHHHHHHHHHHHH-Hh--CCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccc
Confidence                  688999998877 43  34 556777766666666654                    22333333333222  


Q ss_pred             ---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHH
Q 013497          168 ---LSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKII  213 (442)
Q Consensus       168 ---~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~l  213 (442)
                         -.++...+..|.+.|...|+.++|.++++.+.+.-.+....-|+-.
T Consensus       295 ~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw~~~  343 (349)
T 3q7a_A          295 EDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWEFR  343 (349)
T ss_dssp             SSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHH
T ss_pred             cccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHHHHH
Confidence               1467888999999999999999999999999765444444444433

>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=92.23  E-value=0.8  Score=44.83  Aligned_cols=94  Identities=12%  Similarity=0.080  Sum_probs=70.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhC--C-CCCC----HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHh-----
Q 013497           27 LINLQSCTKSKDLTTAISLYESAHSQ--N-LRLS----LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLS-----   94 (442)
Q Consensus        27 ~~li~~~~k~g~~~~A~~lf~~m~~~--g-~~p~----~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~-----   94 (442)
                      ...|..+.+.|++++|+.++++..+.  . +.|+    ..+++.|..+|...|        ++++|+.++++...     
T Consensus       291 l~~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g--------~~~eA~~~~~~~L~i~~~~  362 (429)
T 3qwp_A          291 LKKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLG--------LLEEALFYGTRTMEPYRIF  362 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhc--------cHHHHHHHHHHHHHhHHHH
Confidence            34466777889999999999998743  2 2332    357777777888888        89999999997754     


Q ss_pred             CCCC-CC-HHHHHHHHHHHHhcCCHHHHHHHHHHhH
Q 013497           95 NNVI-PN-EASVTSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus        95 ~g~~-p~-~~ty~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      .|.. |+ ..+|+.|-..|...|++++|+.++++..
T Consensus       363 lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          363 FPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             SCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            2322 33 4678888899999999999998888765

>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=92.14  E-value=1  Score=37.34  Aligned_cols=98  Identities=6%  Similarity=-0.092  Sum_probs=67.1

Q ss_pred             chhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH----------HHHHHHHHHhHhhCCCCCCc-ccHHHHHHH
Q 013497           78 KDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDG----------DYAFVLIKRMNNEFNVVPRL-RTYDPALFC  146 (442)
Q Consensus        78 ~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~----------~~A~~~~~~m~~~~g~~p~~-~ty~~li~~  146 (442)
                      +.+.+++|.+.++...+... -+...|+.+=.++...+++          ++|+..|++.. +  +.|+. ..|..+=.+
T Consensus        14 r~~~feeA~~~~~~Ai~l~P-~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL-~--ldP~~~~A~~~LG~a   89 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSNP-LDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEAL-L--IDPKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHH-H--HCTTCHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHH-H--hCcCcHHHHHHHHHH
Confidence            45688899999998877653 3677777777777777664          58888888876 3  35543 567777777


Q ss_pred             HHHcC-----------CHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013497          147 FCENL-----------EAEKAYEVEEHMGLMGLSLEQQEIAALLKV  181 (442)
Q Consensus       147 ~~~~g-----------~~~~A~~l~~~M~~~g~~p~~~ty~~li~~  181 (442)
                      |...|           ++++|.+.|+...+.  .|+...|..-+..
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~al~~  133 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLKSLEM  133 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            77664           677777777776653  4655555444443

>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=91.95  E-value=3.7  Score=41.65  Aligned_cols=175  Identities=9%  Similarity=-0.016  Sum_probs=117.2

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCC--CCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 013497           36 SKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDP--SSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAAS  113 (442)
Q Consensus        36 ~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~--~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~  113 (442)
                      ...-++|++.++++.+.+- -+...|+.-=.+....+.+.  ......++++++.++.+.+...+ +-.+|+----.+.+
T Consensus        42 ~~~~eeal~~~~~~l~~nP-~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~  119 (567)
T 1dce_A           42 GELDESVLELTSQILGANP-DFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSR  119 (567)
T ss_dssp             TCCSHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHCc-hhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            3445688999999886542 12344443322222222000  00001289999999999886544 77888888888888


Q ss_pred             cC--CHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-----
Q 013497          114 KN--DGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENL-EAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAET-----  185 (442)
Q Consensus       114 ~g--~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g-~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~-----  185 (442)
                      .+  +++++++.++.+. +.. .-|-..|+.---.+.+.| ..+++.+.++.+.+.... |...|+..-..+.+.     
T Consensus       120 l~~~~~~~el~~~~k~l-~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~  196 (567)
T 1dce_A          120 LPEPNWARELELCARFL-EAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPD  196 (567)
T ss_dssp             CSSCCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCC
T ss_pred             cccccHHHHHHHHHHHH-hhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhccccc
Confidence            89  7799999999998 542 225566777777777888 899999999999876544 777888777766653     


Q ss_pred             ---------CCHHHHHHHHHHHHhccCCC-ChHHHHHHHHHh
Q 013497          186 ---------GRVEKVYQYLQKLRSTVRCV-NEETGKIIEDWF  217 (442)
Q Consensus       186 ---------g~~~~a~~ll~~m~~~~~~p-~~~t~~~li~~~  217 (442)
                               +.++++.+.+.+....  .| +.+.|.-.--.+
T Consensus       197 ~~~~~~~~~~~~~eel~~~~~ai~~--~P~~~saW~y~~~ll  236 (567)
T 1dce_A          197 SGPQGRLPENVLLKELELVQNAFFT--DPNDQSAWFYHRWLL  236 (567)
T ss_dssp             SSSCCSSCHHHHHHHHHHHHHHHHH--CSSCSHHHHHHHHHH
T ss_pred             ccccccccHHHHHHHHHHHHHHHhh--CCCCccHHHHHHHHH
Confidence                     4578888888877654  34 455666554444

>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=91.75  E-value=8.8  Score=36.17  Aligned_cols=179  Identities=9%  Similarity=-0.006  Sum_probs=118.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .++.+-....+....++|+++++++...+- -+...|+.-=.+....+.       .+++++++++.+.....+ +-.+|
T Consensus        56 ~~~~~r~~~~~~e~se~AL~lt~~~L~~nP-~~ytaWn~R~~iL~~l~~-------~l~eEL~~~~~~L~~nPK-ny~aW  126 (349)
T 3q7a_A           56 AMDYFRAIAAKEEKSERALELTEIIVRMNP-AHYTVWQYRFSLLTSLNK-------SLEDELRLMNEFAVQNLK-SYQVW  126 (349)
T ss_dssp             HHHHHHHHHHTTCCSHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTC-------CHHHHHHHHHHHHHTTCC-CHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHhCc-hhHHHHHHHHHHHHHhhh-------hHHHHHHHHHHHHHhCCC-cHHHH
Confidence            344444445556667799999999886542 133445544333333330       489999999999887654 77788


Q ss_pred             HHHHHHHHhc-C-CHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHH--------HHHHHHHHHHHCCCCCCHHH
Q 013497          105 TSVARLAASK-N-DGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAE--------KAYEVEEHMGLMGLSLEQQE  174 (442)
Q Consensus       105 ~~li~~~~~~-g-~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~--------~A~~l~~~M~~~g~~p~~~t  174 (442)
                      +---..+.+. + ++++++++++.+. ... .-|-..|+.---.+.+.|..+        ++++.++.+.+.... |...
T Consensus       127 ~hR~wlL~~l~~~~~~~EL~~~~k~L-~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~-N~SA  203 (349)
T 3q7a_A          127 HHRLLLLDRISPQDPVSEIEYIHGSL-LPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGR-NNSA  203 (349)
T ss_dssp             HHHHHHHHHHCCSCCHHHHHHHHHHT-SSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             HHHHHHHHHhcCCChHHHHHHHHHHH-HhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCC-CHHH
Confidence            8777777766 6 8999999999988 431 224445554444444445555        899999999887644 7788


Q ss_pred             HHHHHHHHHhcCC-------HHHHHHHHHHHHhccCCC-ChHHHHHHHHHh
Q 013497          175 IAALLKVSAETGR-------VEKVYQYLQKLRSTVRCV-NEETGKIIEDWF  217 (442)
Q Consensus       175 y~~li~~~~~~g~-------~~~a~~ll~~m~~~~~~p-~~~t~~~li~~~  217 (442)
                      |+-.-..+.+.+.       ++++.+.+.+....  .| |.+.|+-+--.+
T Consensus       204 W~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~--~P~n~SaW~Ylr~Ll  252 (349)
T 3q7a_A          204 WGWRWYLRVSRPGAETSSRSLQDELIYILKSIHL--IPHNVSAWNYLRGFL  252 (349)
T ss_dssp             HHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccccchHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            8887777777765       67888888877754  34 445555443333

>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=90.86  E-value=3.8  Score=38.93  Aligned_cols=152  Identities=11%  Similarity=-0.013  Sum_probs=97.3

Q ss_pred             CCCCHHHHHHHHHHHH--hcCCCCCCchhhHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHh----cC-CHHHHH---H
Q 013497           54 LRLSLHHFNALLYLCS--DSATDPSSKDSALRHGFRVFDQMLSNNVIPN-EASVTSVARLAAS----KN-DGDYAF---V  122 (442)
Q Consensus        54 ~~p~~~ty~~ll~~~~--~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~-~~ty~~li~~~~~----~g-~~~~A~---~  122 (442)
                      .+.+...|...+.+..  ..+     ....+.+|.++|++..+.  .|+ ...|..+.-+|..    .+ ......   .
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~-----~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~  262 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHG-----DDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNT  262 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHC-----SHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcC-----CHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHH
Confidence            3456677888876322  211     122678999999998775  354 3444443333321    11 111111   1


Q ss_pred             HHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 013497          123 LIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTV  202 (442)
Q Consensus       123 ~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~  202 (442)
                      -++.......-..+..+|..+-..+...|++++|...++.....+  |+...|..+-..+.-.|+.++|.+.+.+-... 
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            111111011224567888888777777899999999999999886  88888877777788899999999999876654 


Q ss_pred             CCCChHHHHHHHHH
Q 013497          203 RCVNEETGKIIEDW  216 (442)
Q Consensus       203 ~~p~~~t~~~li~~  216 (442)
                       .|...||...-..
T Consensus       340 -~P~~~t~~~~~~l  352 (372)
T 3ly7_A          340 -RPGANTLYWIENG  352 (372)
T ss_dssp             -SCSHHHHHHHHHS
T ss_pred             -CCCcChHHHHhCc
Confidence             6787777555443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=90.58  E-value=5.7  Score=33.42  Aligned_cols=97  Identities=7%  Similarity=0.100  Sum_probs=77.1

Q ss_pred             hhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHH
Q 013497           80 SALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEV  159 (442)
Q Consensus        80 ~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l  159 (442)
                      |+++.|.++-+++      -+...|..|-+...+.|+++-|.+.|.... .         |..|.--|.-.|+.++-.++
T Consensus        19 g~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~-D---------~~~L~~Ly~~tg~~e~L~kl   82 (177)
T 3mkq_B           19 GNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQH-S---------FDKLSFLYLVTGDVNKLSKM   82 (177)
T ss_dssp             TCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT-C---------HHHHHHHHHHHTCHHHHHHH
T ss_pred             CCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhC-C---------HHHHHHHHHHhCCHHHHHHH
Confidence            3899999998877      478999999999999999999999998877 2         67777778889998887766


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 013497          160 EEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKL  198 (442)
Q Consensus       160 ~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m  198 (442)
                      -+.-...|      -++.-...+.-.|+++++.++|.+.
T Consensus        83 a~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           83 QNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC
Confidence            55554444      2466666677789999998888543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=90.38  E-value=2.2  Score=44.72  Aligned_cols=85  Identities=13%  Similarity=0.076  Sum_probs=65.6

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC
Q 013497           56 LSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP  135 (442)
Q Consensus        56 p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p  135 (442)
                      .+...|..|-..|...+        +++.|.+.|..+..         |..+...|...|+.+...++-+... ..|   
T Consensus       679 ~~~~~W~~la~~al~~~--------~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~-~~~---  737 (814)
T 3mkq_A          679 SAEMKWRALGDASLQRF--------NFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAE-TTG---  737 (814)
T ss_dssp             CCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHH-HTT---
T ss_pred             CcHhHHHHHHHHHHHcC--------CHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHH-HcC---
Confidence            46688999888888888        99999999998843         5677777777888887777766655 433   


Q ss_pred             CcccHHHHHHHHHHcCCHHHHHHHHHHHH
Q 013497          136 RLRTYDPALFCFCENLEAEKAYEVEEHMG  164 (442)
Q Consensus       136 ~~~ty~~li~~~~~~g~~~~A~~l~~~M~  164 (442)
                         -|+....+|.+.|++++|.+++.++.
T Consensus       738 ---~~~~A~~~~~~~g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          738 ---KFNLAFNAYWIAGDIQGAKDLLIKSQ  763 (814)
T ss_dssp             ---CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             ---chHHHHHHHHHcCCHHHHHHHHHHcC
Confidence               36777777888888888888877663

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=90.28  E-value=1.2  Score=32.52  Aligned_cols=53  Identities=11%  Similarity=-0.040  Sum_probs=25.6

Q ss_pred             HHHhcCCHHHHHHHHHHhHhhCCCCCC-cc-cHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 013497          110 LAASKNDGDYAFVLIKRMNNEFNVVPR-LR-TYDPALFCFCENLEAEKAYEVEEHMGL  165 (442)
Q Consensus       110 ~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~-ty~~li~~~~~~g~~~~A~~l~~~M~~  165 (442)
                      .+.+.|++++|...|++.. ..  .|+ .. .|..+-.+|...|++++|.+.|+...+
T Consensus         9 ~~~~~~~~~~A~~~~~~al-~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~   63 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFL-QT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIE   63 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHH-HH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHH-HH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3444555555555555544 21  222 23 444444455555555555555555444

>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=90.23  E-value=2.5  Score=40.17  Aligned_cols=144  Identities=10%  Similarity=-0.061  Sum_probs=91.0

Q ss_pred             HHHHHHHHHHh--c---CCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHH-hcCCCCCCchhhHHHHHHHHHHHHh-CC
Q 013497           25 NFLINLQSCTK--S---KDLTTAISLYESAHSQNLRLS-LHHFNALLYLCS-DSATDPSSKDSALRHGFRVFDQMLS-NN   96 (442)
Q Consensus        25 ~~~~li~~~~k--~---g~~~~A~~lf~~m~~~g~~p~-~~ty~~ll~~~~-~~~~~~~~~~~~~~~a~~l~~~M~~-~g   96 (442)
                      .|...+.+...  .   .+..+|..+|++..+.  .|+ ...|..+--++. ....... .........+-++.... ..
T Consensus       196 Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~-~~~~~~~l~~a~~a~~a~~~  272 (372)
T 3ly7_A          196 LLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPL-DEKQLAALNTEIDNIVTLPE  272 (372)
T ss_dssp             GHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCC-CHHHHHHHHHHHHHHHTCGG
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCC-chhhHHHHHHHHHHHHhccc
Confidence            77777766543  2   3358999999998864  343 234443322221 1100000 01122222222222111 22


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 013497           97 VIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIA  176 (442)
Q Consensus        97 ~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~  176 (442)
                      -+.+..+|.++--.+...|++++|...++... ..+  |+...|..+=..+.-.|+.++|.+.|++....  .|...||.
T Consensus       273 ~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl-~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~  347 (372)
T 3ly7_A          273 LNNLSIIYQIKAVSALVKGKTDESYQAINTGI-DLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLY  347 (372)
T ss_dssp             GTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH-HHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHH
T ss_pred             CCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHH-hcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHH
Confidence            35688899988888888899999999999998 654  88777777777888999999999999887664  57776654

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=90.11  E-value=2.6  Score=34.56  Aligned_cols=50  Identities=12%  Similarity=0.027  Sum_probs=31.3

Q ss_pred             chhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHhH
Q 013497           78 KDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKN---DGDYAFVLIKRMN  128 (442)
Q Consensus        78 ~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g---~~~~A~~~~~~m~  128 (442)
                      ....+..+.+-|.+....|. ++..+--.+--++++..   +.+++..+|++..
T Consensus        10 ~~~~l~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll   62 (152)
T 1pc2_A           10 SVEDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELL   62 (152)
T ss_dssp             CHHHHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence            33456666666766666554 45666556666667766   4557777777766

>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=88.95  E-value=4.1  Score=37.32  Aligned_cols=130  Identities=7%  Similarity=-0.013  Sum_probs=91.9

Q ss_pred             CHHHHHHHHH-HHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhc-----CCHHHHHHHHHHh
Q 013497           57 SLHHFNALLY-LCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN---EASVTSVARLAASK-----NDGDYAFVLIKRM  127 (442)
Q Consensus        57 ~~~ty~~ll~-~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~---~~ty~~li~~~~~~-----g~~~~A~~~~~~m  127 (442)
                      ....|..++. .+......+..-.+.+.+|..++++..+.  .|+   -..|+.|-..|.+.     |+.++|.+.|++-
T Consensus       153 e~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferA  230 (301)
T 3u64_A          153 GTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHL  230 (301)
T ss_dssp             HHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHH
Confidence            3455666655 33333234455556788888888887664  455   67899999999994     9999999999998


Q ss_pred             HhhCCCCCC--cccHHHHHHHHHHc-CCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 013497          128 NNEFNVVPR--LRTYDPALFCFCEN-LEAEKAYEVEEHMGLMGLS--LEQQEIAALLKVSAETGRVEKVYQYLQKLR  199 (442)
Q Consensus       128 ~~~~g~~p~--~~ty~~li~~~~~~-g~~~~A~~l~~~M~~~g~~--p~~~ty~~li~~~~~~g~~~~a~~ll~~m~  199 (442)
                      . .  +.|+  .-++...-..+|.. |+.++|.+.+++-......  |+....|.+-        -.+|..++.+..
T Consensus       231 L-~--LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~~~P~~~lan~~~--------q~eA~~LL~~~~  296 (301)
T 3u64_A          231 T-R--YCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPESVPHNKLLVILS--------QKRARWLKAHVQ  296 (301)
T ss_dssp             H-H--HCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGGGCSSCHHHHHHH--------HHHHHHHHHTHH
T ss_pred             H-H--hCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCCCCCChhHHHHHH--------HHHHHHHHHHhH
Confidence            7 4  4673  67788888888884 9999999999999888766  7754444332        245555555443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=87.50  E-value=2.5  Score=30.69  Aligned_cols=58  Identities=10%  Similarity=0.008  Sum_probs=48.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          143 ALFCFCENLEAEKAYEVEEHMGLMGLSLEQQ-EIAALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       143 li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~-ty~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      ....+.+.|++++|.+.|+...+..- .+.. .|..+-.+|...|++++|...|++....
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEP-VGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCS-STHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            34567789999999999999887532 2456 7888888999999999999999998765

>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=87.12  E-value=16  Score=34.12  Aligned_cols=64  Identities=13%  Similarity=0.152  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhh-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 013497           39 LTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSA-LRHGFRVFDQMLSNNVIPNEASVTSVARLAA  112 (442)
Q Consensus        39 ~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~-~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~  112 (442)
                      +++++.+++++.+... -|-.+|+---.+....+        . .+++++.++.+.+..+. |..+|+-.-..+.
T Consensus       126 ~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~--------~~~~eel~~~~~~I~~~p~-N~SAW~~R~~ll~  190 (331)
T 3dss_A          126 WARELELCARFLEADE-RNFHCWDYRRFVAAQAA--------VAPAEELAFTDSLITRNFS-NYSSWHYRSCLLP  190 (331)
T ss_dssp             HHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTT--------CCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhC--------cCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHH
Confidence            5566666666554331 23444444433333333        2 35555666555554432 5555554444433

>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=86.65  E-value=1.7  Score=35.98  Aligned_cols=122  Identities=12%  Similarity=0.043  Sum_probs=79.7

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--CCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 013497           34 TKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSA--TDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLA  111 (442)
Q Consensus        34 ~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~--~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~  111 (442)
                      .+.+.+++|++.+++..+.. +-+...|+.+=.++...+  ..+....+.+++|+..|++..+.... +..+|..+=.+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHH
Confidence            45567889999999987654 235566665544443332  00000011367999999998775433 567888888888


Q ss_pred             HhcC-----------CHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 013497          112 ASKN-----------DGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLM  166 (442)
Q Consensus       112 ~~~g-----------~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~  166 (442)
                      ...|           ++++|.+.|++.. +  +.|+...|...+...      ++|-+++.+....
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl-~--l~P~~~~y~~al~~~------~ka~el~~~~~~~  147 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAV-D--EQPDNTHYLKSLEMT------AKAPQLHAEAYKQ  147 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHH-H--HCTTCHHHHHHHHHH------HTHHHHHHHHHHS
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHH-H--hCCCCHHHHHHHHHH------HhCHhccCccccc
Confidence            8764           8999999999988 4  578877776665543      4455555555444

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=86.19  E-value=3.8  Score=32.96  Aligned_cols=147  Identities=10%  Similarity=-0.005  Sum_probs=69.7

Q ss_pred             HHHHHHHH--HHhcCCHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCH
Q 013497           25 NFLINLQS--CTKSKDLTTAISLYESAHS-QNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNE  101 (442)
Q Consensus        25 ~~~~li~~--~~k~g~~~~A~~lf~~m~~-~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~  101 (442)
                      +...|+++  ..-.|.+++..++..+... +++    .-||=+|.-.....        .-+-..++++..   |--.|.
T Consensus         7 l~kkLmeAK~~ildG~v~qGveii~k~~~ssni----~E~NW~ICNiiD~a--------~C~y~v~vLd~I---GkiFDi   71 (172)
T 1wy6_A            7 IIRKLMDAKKFLLDGYIDEGVKIVLEITKSSTK----SEYNWFICNLLESI--------DCRYMFQVLDKI---GSYFDL   71 (172)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCH----HHHTHHHHHHHHHC--------CHHHHHHHHHHH---GGGSCG
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHcCCCCc----cccceeeeecchhh--------chhHHHHHHHHH---hhhcCc
Confidence            34445544  3446889999999998764 333    34444443111111        122223333322   211121


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 013497          102 ASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKV  181 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~  181 (442)
                                ..+|++.....-+-.+-      .+...++..|+.+...|.-|.-.+++.++.. +..|+....-.+-.+
T Consensus        72 ----------s~C~NlKrVi~C~~~~n------~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~A  134 (172)
T 1wy6_A           72 ----------DKCQNLKSVVECGVINN------TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANA  134 (172)
T ss_dssp             ----------GGCSCTHHHHHHHHHTT------CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHH
T ss_pred             ----------HhhhcHHHHHHHHHHhc------chHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHH
Confidence                      23444444444443322      1334445555555555555555555555422 233444455555555


Q ss_pred             HHhcCCHHHHHHHHHHHHhccC
Q 013497          182 SAETGRVEKVYQYLQKLRSTVR  203 (442)
Q Consensus       182 ~~~~g~~~~a~~ll~~m~~~~~  203 (442)
                      |.+.|+..+|.+++.+--+.|+
T Consensus       135 y~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A          135 LRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHhcchhhHHHHHHHHHHhhh
Confidence            5555555555555555555543

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A

Probab=85.92  E-value=1.7  Score=37.94  Aligned_cols=147  Identities=12%  Similarity=0.043  Sum_probs=83.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           28 INLQSCTKSKDLTTAISLYESAHSQNLRLSL---HHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        28 ~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~---~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      +.|...++.|+.+.+..+++.+.+.|..++.   .-++.|..++..+.             .++++.+.+.|..|+....
T Consensus        11 t~L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~~~~~g~t~L~~A~~~~~-------------~~~v~~Ll~~g~~~~~~~~   77 (241)
T 1k1a_A           11 TPLHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTL-------------PSVVRLLVTAGASPMALDR   77 (241)
T ss_dssp             CHHHHHHHTTCHHHHHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTC-------------HHHHHHHHHTTCCTTCCCT
T ss_pred             cHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcccccCCCHHHHHHHcCC-------------HHHHHHHHHcCCCccccCC
Confidence            3456677889999888888877777755443   23344544555543             4566677777776643221


Q ss_pred             --HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc---ccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH---HH
Q 013497          105 --TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL---RTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQE---IA  176 (442)
Q Consensus       105 --~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~---~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~t---y~  176 (442)
                        .+.+...+..|+.+-+..+++... ..++.++.   .-.++ +...+..|..+    +++.+.+.|..++...   -.
T Consensus        78 ~g~t~l~~A~~~~~~~~~~~Ll~~~~-~~~~~~~~~~~~g~t~-L~~A~~~~~~~----~~~~Ll~~g~~~~~~~~~~g~  151 (241)
T 1k1a_A           78 HGQTAAHLACEHRSPTCLRALLDSAA-PGTLDLEARNYDGLTA-LHVAVNTECQE----TVQLLLERGADIDAVDIKSGR  151 (241)
T ss_dssp             TSCCHHHHHHHTTCHHHHHHHHHHSC-TTSCCTTCCCTTSCCH-HHHHHHHTCHH----HHHHHHHTTCCTTCCCTTTCC
T ss_pred             CCCCHHHHHHHcCCHHHHHHHHHcCC-CccccccccCcCCCcH-HHHHHHcCCHH----HHHHHHHcCCCcccccccCCC
Confidence              244555577888887777776654 32333332   23344 44455667754    4445555665554321   22


Q ss_pred             HHHHHHHhcCCHHHHHH
Q 013497          177 ALLKVSAETGRVEKVYQ  193 (442)
Q Consensus       177 ~li~~~~~~g~~~~a~~  193 (442)
                      +.+...+..|..+-+..
T Consensus       152 t~L~~A~~~~~~~~v~~  168 (241)
T 1k1a_A          152 SPLIHAVENNSLSMVQL  168 (241)
T ss_dssp             CHHHHHHHTTCHHHHHH
T ss_pred             cHHHHHHHcCCHHHHHH
Confidence            34444456677654433

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=84.00  E-value=9.7  Score=31.15  Aligned_cols=96  Identities=15%  Similarity=0.043  Sum_probs=68.2

Q ss_pred             HHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcC---CHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHH
Q 013497          117 GDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENL---EAEKAYEVEEHMGLMGLSL--EQQEIAALLKVSAETGRVEKV  191 (442)
Q Consensus       117 ~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g---~~~~A~~l~~~M~~~g~~p--~~~ty~~li~~~~~~g~~~~a  191 (442)
                      ...+.+-|.+.. ..+- ++..+--.+--++++..   +++++..++++..+.. .|  ....+-.|--+|.+.|++++|
T Consensus        14 l~~~~~~y~~e~-~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           14 LLKFEKKFQSEK-AAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHH-HTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHH-ccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            445566666655 4443 56666666666788887   7779999999998865 34  234444556677899999999


Q ss_pred             HHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          192 YQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       192 ~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      .+.++.+.+.  .|+..-...+...+
T Consensus        91 ~~y~~~lL~i--eP~n~QA~~Lk~~i  114 (152)
T 1pc2_A           91 LKYVRGLLQT--EPQNNQAKELERLI  114 (152)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhc--CCCCHHHHHHHHHH
Confidence            9999999875  68766666666555

>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=83.51  E-value=29  Score=32.33  Aligned_cols=156  Identities=10%  Similarity=-0.006  Sum_probs=100.7

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-H
Q 013497           39 LTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKND-G  117 (442)
Q Consensus        39 ~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~-~  117 (442)
                      +++++.+++.+....- -+..+|+.--.++...+.      ..+++++++++.|.+... -|-.+|+----.+...|. +
T Consensus        90 l~~EL~~~~~~L~~~P-Kny~aW~hR~wlL~~l~~------~~~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~~~~  161 (331)
T 3dss_A           90 VKAELGFLESCLRVNP-KSYGTWHHRCWLLSRLPE------PNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAP  161 (331)
T ss_dssp             HHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHCSS------CCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCH
T ss_pred             HHHHHHHHHHHHHhCC-CCHHHHHHHHHHHhccCc------ccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCcCH
Confidence            6788888888776432 355666655544444430      037889999999887654 377788777777777887 5


Q ss_pred             HHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHc--------------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 013497          118 DYAFVLIKRMNNEFNVVPRLRTYDPALFCFCEN--------------LEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSA  183 (442)
Q Consensus       118 ~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~--------------g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~  183 (442)
                      +++++.++.+. ... .-|...|+..-..+.+.              +.++++++.+........ -|...|+-+--.+.
T Consensus       162 ~eel~~~~~~I-~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P-~d~SaW~Y~r~ll~  238 (331)
T 3dss_A          162 AEELAFTDSLI-TRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDP-NDQSAWFYHRWLLG  238 (331)
T ss_dssp             HHHHHHHHHHH-HHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH-HHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHH
Confidence            88999998888 442 23555666655555544              447788888887776532 26666665544444


Q ss_pred             hc-----------CCHHHHHHHHHHHHhccCCCCh
Q 013497          184 ET-----------GRVEKVYQYLQKLRSTVRCVNE  207 (442)
Q Consensus       184 ~~-----------g~~~~a~~ll~~m~~~~~~p~~  207 (442)
                      +.           +.++++.+.+.++.+.  .|+.
T Consensus       239 ~~~~~~~~~~~~~~~l~~el~~~~elle~--~pd~  271 (331)
T 3dss_A          239 AGSGRCELSVEKSTVLQSELESCKELQEL--EPEN  271 (331)
T ss_dssp             SSSCGGGCCHHHHHHHHHHHHHHHHHHHH--CTTC
T ss_pred             hccCccccchHHHHHHHHHHHHHHHHHhh--Cccc
Confidence            43           3467777777777654  4543

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=81.79  E-value=22  Score=29.80  Aligned_cols=128  Identities=9%  Similarity=0.022  Sum_probs=92.6

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 013497           32 SCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLA  111 (442)
Q Consensus        32 ~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~  111 (442)
                      ...+.|+++.|.++-+++      -+...|..|=..+...+        +++-|.+.|.....         |..+.-.|
T Consensus        14 LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~g--------n~~lAe~cy~~~~D---------~~~L~~Ly   70 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL------NDSITWERLIQEALAQG--------NASLAEMIYQTQHS---------FDKLSFLY   70 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTT--------CHHHHHHHHHHTTC---------HHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcC--------ChHHHHHHHHHhCC---------HHHHHHHH
Confidence            345689999999998876      35689999998777777        89999999998742         56677777


Q ss_pred             HhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 013497          112 ASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKV  191 (442)
Q Consensus       112 ~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a  191 (442)
                      .-.|+.+.-.++-+.-. ..|      -+|.....+.-.|+++++.++|.+.   |..|....      .....|..+.|
T Consensus        71 ~~tg~~e~L~kla~iA~-~~g------~~n~af~~~l~lGdv~~~i~lL~~~---~r~~eA~~------~A~t~g~~~~a  134 (177)
T 3mkq_B           71 LVTGDVNKLSKMQNIAQ-TRE------DFGSMLLNTFYNNSTKERSSIFAEG---GSLPLAYA------VAKANGDEAAA  134 (177)
T ss_dssp             HHHTCHHHHHHHHHHHH-HTT------CHHHHHHHHHHHTCHHHHHHHHHHT---TCHHHHHH------HHHHTTCHHHH
T ss_pred             HHhCCHHHHHHHHHHHH-HCc------cHHHHHHHHHHcCCHHHHHHHHHHC---CChHHHHH------HHHHcCcHHHH
Confidence            78888877666654443 333      4788888899999999999998554   33332111      11236777788


Q ss_pred             HHHHHHH
Q 013497          192 YQYLQKL  198 (442)
Q Consensus       192 ~~ll~~m  198 (442)
                      .+++.++
T Consensus       135 ~~~~~~~  141 (177)
T 3mkq_B          135 SAFLEQA  141 (177)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHh
Confidence            8887765

>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=81.09  E-value=6.3  Score=37.76  Aligned_cols=118  Identities=8%  Similarity=-0.068  Sum_probs=82.5

Q ss_pred             CCHHHHHHHHHHHH---hcCCHHHHHHHHHHhHhh-CC-CCCCc------------------ccHHHHHHHHHHcCCHHH
Q 013497           99 PNEASVTSVARLAA---SKNDGDYAFVLIKRMNNE-FN-VVPRL------------------RTYDPALFCFCENLEAEK  155 (442)
Q Consensus        99 p~~~ty~~li~~~~---~~g~~~~A~~~~~~m~~~-~g-~~p~~------------------~ty~~li~~~~~~g~~~~  155 (442)
                      .|...|..++....   ..|+.+.|...+.+...- .| +-|+.                  .+...++..+...|+.++
T Consensus       110 ~D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~~~~w~~~~r~~l~~~~~~a~~~~~~~~l~~g~~~~  189 (388)
T 2ff4_A          110 CDLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASA  189 (388)
T ss_dssp             BHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             chHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHH
Confidence            35556666665432   357788887777776511 11 22222                  122345677778999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----ccCCCChHHHHHHHHHh
Q 013497          156 AYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRS-----TVRCVNEETGKIIEDWF  217 (442)
Q Consensus       156 A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~-----~~~~p~~~t~~~li~~~  217 (442)
                      |...+..+.... +.++..|..||.++.+.|+..+|.+.|++++.     .|+.|++.+-...-...
T Consensus       190 a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~~~il  255 (388)
T 2ff4_A          190 VIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALNERIL  255 (388)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            998888886542 44888999999999999999999999998755     59999998765554444

---

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	442
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.71
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	98.61
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.58
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.44
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.27
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.23
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	97.79
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	97.49
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	97.41
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	97.4
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	97.29
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	97.21
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.19
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.12
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	97.03
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	96.99
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	96.95
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	96.95
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	96.91
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.87
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	96.85
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	96.82
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	96.79
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	96.76
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	96.64
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	96.41
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	96.38
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	96.01
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	95.97
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	95.87
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	95.81
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	95.7
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	95.52
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	95.24
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	95.23
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	94.92
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	94.61
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	94.59
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	94.47
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	94.33
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	93.65
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	93.64
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	92.73
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	92.62
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	92.51
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	91.94
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	91.02
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	90.3
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	81.95
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	81.04
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	80.81
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	80.2

>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=98.71  E-value=1.9e-06  Score=80.04  Aligned_cols=133  Identities=8%  Similarity=-0.027  Sum_probs=70.9

Q ss_pred             hhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHH
Q 013497           80 SALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEV  159 (442)
Q Consensus        80 ~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l  159 (442)
                      +..++|...++...+... -+..+|..+...+...|++++|...++... ... ..+...+..+-..|.+.|++++|.+.
T Consensus       183 ~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~  259 (388)
T d1w3ba_         183 GEIWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDRAVAAYLRAL-SLS-PNHAVVHGNLACVYYEQGLIDLAIDT  259 (388)
T ss_dssp             TCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHhCc-ccHHHHHHHhhhhhccccHHHHHHHHHHhH-HHh-hhHHHHHHHHHHHHHHCCCHHHHHHH
Confidence            345555555555544321 234555666666666666666666666655 322 22334455555666666666666666


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHh
Q 013497          160 EEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWF  217 (442)
Q Consensus       160 ~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~  217 (442)
                      |+...+.. +-+..+|..+...+...|+.++|.+.++..... ...+...+..+...+
T Consensus       260 ~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~  315 (388)
T d1w3ba_         260 YRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHH
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchhhhHHHHHH
Confidence            66655432 113455566666666666666666666655443 122333444444444

>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=98.61  E-value=2.6e-06  Score=79.09  Aligned_cols=162  Identities=9%  Similarity=-0.015  Sum_probs=86.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+-..+...|++++|+..|.+....+. .+...+..+-..+...+        ++++|.+.|++..+... -+..+|
T Consensus       205 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~--------~~~~A~~~~~~al~~~p-~~~~~~  274 (388)
T d1w3ba_         205 AYINLGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVYYEQG--------LIDLAIDTYRRAIELQP-HFPDAY  274 (388)
T ss_dssp             HHHHHHHHHHTTTCTTHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHTCS-SCHHHH
T ss_pred             HHHHHhhhhhccccHHHHHHHHHHhHHHhh-hHHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHHhCC-CCHHHH
Confidence            445555555555555566555555544322 23334444434444444        56666666665554321 234555


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSL-EQQEIAALLKVSA  183 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p-~~~ty~~li~~~~  183 (442)
                      ..+...+...|++++|.+.++... .. ...+...+..+...|.+.|++++|.+.|++..+.  .| +..+|..+-..|.
T Consensus       275 ~~l~~~~~~~~~~~~A~~~~~~~~-~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~  350 (388)
T d1w3ba_         275 CNLANALKEKGSVAEAEDCYNTAL-RL-CPTHADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQ  350 (388)
T ss_dssp             HHHHHHHHHHSCHHHHHHHHHHHH-HH-CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTS--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHhhh-cc-CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            556666666666666666665554 22 1334455555556666666666666666655442  23 3444555555666


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 013497          184 ETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       184 ~~g~~~~a~~ll~~m~~  200 (442)
                      +.|++++|...|++..+
T Consensus       351 ~~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         351 QQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             TTTCCHHHHHHHHHHHT
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            66666666666655543

>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=98.58  E-value=3e-06  Score=77.68  Aligned_cols=225  Identities=11%  Similarity=0.029  Sum_probs=160.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 013497           31 QSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARL  110 (442)
Q Consensus        31 ~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~  110 (442)
                      ..+.+.|++++|+..|+++.+.. +-+..+|..+-.++...+        ++++|...|++..+... -+...|..+...
T Consensus        27 ~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~--------~~~~A~~~~~~al~~~p-~~~~~~~~la~~   96 (323)
T d1fcha_          27 LRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENE--------QELLAISALRRCLELKP-DNQTALMALAVS   96 (323)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC--------ChHHHHHHHHhhhcccc-cccccccccccc
Confidence            34778999999999999988764 224677777777888888        89999999999877543 367888999999


Q ss_pred             HHhcCCHHHHHHHHHHhHhhCCCCCCcc----------------cHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCCHH
Q 013497          111 AASKNDGDYAFVLIKRMNNEFNVVPRLR----------------TYDPALFCFCENLEAEKAYEVEEHMGLM-GLSLEQQ  173 (442)
Q Consensus       111 ~~~~g~~~~A~~~~~~m~~~~g~~p~~~----------------ty~~li~~~~~~g~~~~A~~l~~~M~~~-g~~p~~~  173 (442)
                      |...|++++|.+.+++.. ..  .|+..                .+...+..+...+..++|.+.|...... .-.++..
T Consensus        97 ~~~~~~~~~A~~~~~~~~-~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~  173 (323)
T d1fcha_          97 FTNESLQRQACEILRDWL-RY--TPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPD  173 (323)
T ss_dssp             HHHTTCHHHHHHHHHHHH-HT--STTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHH
T ss_pred             ccccccccccccchhhHH-Hh--ccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccc
Confidence            999999999999999987 32  33321                1112233445566788888888877654 2344677


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC-hHHHHHHHHHhccccCCCcccchhhHHHHHHhcCCcccCCcccccc
Q 013497          174 EIAALLKVSAETGRVEKVYQYLQKLRSTVRCVN-EETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNGGGWHGLGWIGQG  252 (442)
Q Consensus       174 ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  252 (442)
                      .+..+-..+...|++++|...|++....  .|+ ...+..+-..+  ...       +...+|+..+.            
T Consensus       174 ~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~--~~~-------g~~~~A~~~~~------------  230 (323)
T d1fcha_         174 VQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATL--ANG-------NQSEEAVAAYR------------  230 (323)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH--HHT-------TCHHHHHHHHH------------
T ss_pred             cchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcc--ccc-------ccchhHHHHHH------------
Confidence            8888889999999999999999998764  344 45666666666  444       44555554321            


Q ss_pred             ceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHH
Q 013497          253 KWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLEK  313 (442)
Q Consensus       253 ~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~~  313 (442)
                                            +.+.+.|.+...|..+-..+...|+.++|++.|++-++-
T Consensus       231 ----------------------~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         231 ----------------------RALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             ----------------------HHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             ----------------------HHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence                                  001112224456666767788899999999999998874

>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=98.44  E-value=1.1e-05  Score=73.95  Aligned_cols=165  Identities=10%  Similarity=0.023  Sum_probs=105.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|...+...-+.|+.++|..+|+++.+.........|...+.++.+.+        .++.|.++|+...+.+.... ..|
T Consensus       101 l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~--------~~~~ar~i~~~al~~~~~~~-~~~  171 (308)
T d2onda1         101 LYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAE--------GIKSGRMIFKKAREDARTRH-HVY  171 (308)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHH--------CHHHHHHHHHHHHTSTTCCT-HHH
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcC--------ChHHHHHHHHHHHHhCCCcH-HHH
Confidence            566666777777777777777777765443333456777777666655        67777777777766554322 223


Q ss_pred             HHHHH-HHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCC--HHHHHHHHH
Q 013497          105 TSVAR-LAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMG-LSLE--QQEIAALLK  180 (442)
Q Consensus       105 ~~li~-~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g-~~p~--~~ty~~li~  180 (442)
                      ..... -+...|+.+.|..+|+.+. .. ..-+...|...+..+.+.|+.+.|..+|++..... ..|+  ...|...+.
T Consensus       172 ~~~a~~e~~~~~~~~~a~~i~e~~l-~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~  249 (308)
T d2onda1         172 VTAALMEYYCSKDKSVAFKIFELGL-KK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLA  249 (308)
T ss_dssp             HHHHHHHHHTSCCHHHHHHHHHHHH-HH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHH-Hh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence            22222 2334567777777777776 32 22334567777777777777777777777766542 3332  446777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHh
Q 013497          181 VSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       181 ~~~~~g~~~~a~~ll~~m~~  200 (442)
                      .-...|+.+.+.++.+++.+
T Consensus       250 fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         250 FESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             HHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            66677777777777777655

>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=98.27  E-value=5.2e-05  Score=69.11  Aligned_cols=169  Identities=11%  Similarity=0.049  Sum_probs=126.9

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 013497           37 KDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKND  116 (442)
Q Consensus        37 g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~  116 (442)
                      +..++|..+|++..+...+-+...|..........+        .++.|..+|+.+.+........+|...+..+.+.|.
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~--------~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~  149 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRM--------KYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEG  149 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHC
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcc--------cHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCC
Confidence            345788899999887655556667777777777777        899999999999876554446689999999999999


Q ss_pred             HHHHHHHHHHhHhhCCCCCCcccHHHHHHH-HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 013497          117 GDYAFVLIKRMNNEFNVVPRLRTYDPALFC-FCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYL  195 (442)
Q Consensus       117 ~~~A~~~~~~m~~~~g~~p~~~ty~~li~~-~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll  195 (442)
                      .+.|.++|+... ... ..+...|-..... +...|+.+.|..+|+.+... ...+...|...++.+.+.|+.++|..+|
T Consensus       150 ~~~ar~i~~~al-~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~f  226 (308)
T d2onda1         150 IKSGRMIFKKAR-EDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLF  226 (308)
T ss_dssp             HHHHHHHHHHHH-TST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             hHHHHHHHHHHH-HhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHH
Confidence            999999999988 432 2223333333322 33468999999999999875 3345788999999999999999999999


Q ss_pred             HHHHhcc-CCCC--hHHHHHHHHH
Q 013497          196 QKLRSTV-RCVN--EETGKIIEDW  216 (442)
Q Consensus       196 ~~m~~~~-~~p~--~~t~~~li~~  216 (442)
                      ++-.... ..|.  ...|...+..
T Consensus       227 e~ai~~~~~~~~~~~~iw~~~~~f  250 (308)
T d2onda1         227 ERVLTSGSLPPEKSGEIWARFLAF  250 (308)
T ss_dssp             HHHHHSSSSCGGGCHHHHHHHHHH
T ss_pred             HHHHHhCCCChHHHHHHHHHHHHH
Confidence            9987654 3443  2356655553

>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=98.23  E-value=9.6e-05  Score=67.15  Aligned_cols=200  Identities=9%  Similarity=-0.131  Sum_probs=119.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC------
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI------   98 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~------   98 (442)
                      .|..+-..|.+.|++++|+..|.+..+.. +-+...|..+...+...+        .+++|.+.++........      
T Consensus        55 a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~--------~~~~A~~~~~~~~~~~~~~~~~~~  125 (323)
T d1fcha_          55 AWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES--------LQRQACEILRDWLRYTPAYAHLVT  125 (323)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHTSTTTGGGCC
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc--------cccccccchhhHHHhccchHHHHH
Confidence            88888999999999999999999987643 124566666666777776        777777777776553211      


Q ss_pred             --------CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 013497           99 --------PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSL  170 (442)
Q Consensus        99 --------p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p  170 (442)
                              .+.......+..+...+...+|.+.|.+......-.++...+..+-..+...|++++|...|+......- -
T Consensus       126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~  204 (323)
T d1fcha_         126 PAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRP-N  204 (323)
T ss_dssp             ---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-T
T ss_pred             hhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhccccccccccc-c
Confidence                    0011111122233344556666666666551111122334555666667777777777777777655421 1


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC-hHHHHHHHHHhccccCCCcccchhhHHHHHHh
Q 013497          171 EQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVN-EETGKIIEDWFSGQKVNGVSCDLGLVKNAVLK  238 (442)
Q Consensus       171 ~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~-~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~  238 (442)
                      +...|..+-..|.+.|++++|.+.|++..+.  .|+ +..+..+-..|  ...|...-....+++|+..
T Consensus       205 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~--~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         205 DYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISC--INLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH--HHHTCHHHHHHHHHHHHHH
T ss_pred             cccchhhhhhcccccccchhHHHHHHHHHHH--hhccHHHHHHHHHHH--HHCCCHHHHHHHHHHHHHh
Confidence            4556666777777777777777777766553  233 33455555555  4444334444556666654

>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=97.79  E-value=0.0022  Score=58.13  Aligned_cols=182  Identities=10%  Similarity=0.026  Sum_probs=137.8

Q ss_pred             CCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCC
Q 013497           21 NPET--NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVI   98 (442)
Q Consensus        21 ~p~~--~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~   98 (442)
                      .|+-  .|+-+=..+.+.+..++|+++++++.+.+ +-+...|+..-.++...+.       .+++|++.++...+....
T Consensus        39 ~p~~~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~-------~~~eal~~~~~al~~~p~  110 (315)
T d2h6fa1          39 SDKFRDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQK-------DLHEEMNYITAIIEEQPK  110 (315)
T ss_dssp             CHHHHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC-------CHHHHHHHHHHHHHHCTT
T ss_pred             CHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCc-------CHHHHHHHHHHHHHHHHh
Confidence            4554  77878778889999999999999998753 2244566666555555430       589999999998776433


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 013497           99 PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAA  177 (442)
Q Consensus        99 p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~  177 (442)
                       +..+|+.+-..+.+.|++++|++.++.+. +.  .| +...|+.+...+.+.|++++|.+.++...+.... +...|+.
T Consensus       111 -~~~a~~~~~~~~~~l~~~~eAl~~~~kal-~~--dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~  185 (315)
T d2h6fa1         111 -NYQVWHHRRVLVEWLRDPSQELEFIADIL-NQ--DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQ  185 (315)
T ss_dssp             -CHHHHHHHHHHHHHHTCCTTHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHH
T ss_pred             -hhhHHHHHhHHHHhhccHHHHHHHHhhhh-hh--hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHH
Confidence             68899999999999999999999999998 43  34 5688999999999999999999999999886533 5667877


Q ss_pred             HHHHHHhcCC------HHHHHHHHHHHHhccCCC-ChHHHHHHHHHh
Q 013497          178 LLKVSAETGR------VEKVYQYLQKLRSTVRCV-NEETGKIIEDWF  217 (442)
Q Consensus       178 li~~~~~~g~------~~~a~~ll~~m~~~~~~p-~~~t~~~li~~~  217 (442)
                      +-..+.+.+.      +++|.+.+.+....  .| ++..|.-+...+
T Consensus       186 r~~~l~~~~~~~~~~~~~~ai~~~~~al~~--~P~~~~~~~~l~~ll  230 (315)
T d2h6fa1         186 RYFVISNTTGYNDRAVLEREVQYTLEMIKL--VPHNESAWNYLKGIL  230 (315)
T ss_dssp             HHHHHHHTTCSCSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHH
T ss_pred             HHHHHHHccccchhhhhHHhHHHHHHHHHh--CCCchHHHHHHHHHH
Confidence            6666666554      57788888776654  34 455665555555

>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=97.49  E-value=0.024  Score=48.58  Aligned_cols=149  Identities=9%  Similarity=-0.093  Sum_probs=100.9

Q ss_pred             HHHHHHHHHHHHhCC-CCCC--HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 013497           39 LTTAISLYESAHSQN-LRLS--LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKN  115 (442)
Q Consensus        39 ~~~A~~lf~~m~~~g-~~p~--~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g  115 (442)
                      .+.|+.-+++....- ..++  ..+|..+=.++...|        ++++|.+.|++..+... -+..+|+.+-.+|.+.|
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g--------~~~~A~~~~~~al~l~p-~~~~a~~~lg~~~~~~g   85 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLG--------LRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAG   85 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCC--------CHHHHHHHHHHhhccCC-CCHHHHhhhchHHHHHH
Confidence            455666666766432 2221  122322223666666        89999999999887542 36788999999999999


Q ss_pred             CHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 013497          116 DGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQY  194 (442)
Q Consensus       116 ~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~l  194 (442)
                      ++++|.+.|++.. ..  .|+ ..+|..+-..|...|+.++|.+.|+...+... .+......+..++.+.+..+.+..+
T Consensus        86 ~~~~A~~~~~~al-~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~  161 (259)
T d1xnfa_          86 NFDAAYEAFDSVL-EL--DPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVL  161 (259)
T ss_dssp             CHHHHHHHHHHHH-HH--CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHhhhhhhHHH-HH--HhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHH
Confidence            9999999999988 43  454 45678888889999999999999998876532 2344433444444555555555555


Q ss_pred             HHHHHh
Q 013497          195 LQKLRS  200 (442)
Q Consensus       195 l~~m~~  200 (442)
                      ......
T Consensus       162 ~~~~~~  167 (259)
T d1xnfa_         162 KQHFEK  167 (259)
T ss_dssp             HHHHHH
T ss_pred             HHHhhc
Confidence            554443

>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=97.41  E-value=0.0025  Score=56.84  Aligned_cols=200  Identities=7%  Similarity=-0.087  Sum_probs=132.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHh----C
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQ----NLRLS-LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLS----N   95 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~----g~~p~-~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~----~   95 (442)
                      .|...-..|...+++++|.+.|.++.+.    +-.++ ..+|+.+-.+|...+        .+++|.+.|+...+    .
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~--------~~~~A~~~~~~a~~~~~~~  110 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGG--------NSVNAVDSLENAIQIFTHR  110 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhC--------CcHHHHHHHHHhhHHhhhc
Confidence            6888889999999999999999997642    22222 356677666888887        89999999987544    2


Q ss_pred             CCC-CCHHHHHHHHHHHH-hcCCHHHHHHHHHHhHh---hCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 013497           96 NVI-PNEASVTSVARLAA-SKNDGDYAFVLIKRMNN---EFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLS  169 (442)
Q Consensus        96 g~~-p~~~ty~~li~~~~-~~g~~~~A~~~~~~m~~---~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~  169 (442)
                      |-. ....++..+...|- ..|++++|.+.+.+...   ..+-.+ -..+|..+...|.+.|++++|.+.|+........
T Consensus       111 ~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~  190 (290)
T d1qqea_         111 GQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMG  190 (290)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSS
T ss_pred             ccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCcc
Confidence            211 12455566666664 46999999999987651   112111 1356888899999999999999999998765322


Q ss_pred             C-----CH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhccCC-CC---hHHHHHHHHHhccccCCCcccchhhHHHHHHhc
Q 013497          170 L-----EQ-QEIAALLKVSAETGRVEKVYQYLQKLRSTVRC-VN---EETGKIIEDWFSGQKVNGVSCDLGLVKNAVLKN  239 (442)
Q Consensus       170 p-----~~-~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~-p~---~~t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~  239 (442)
                      .     .. ..|..++..+...|+.+.|...|++..+.... ++   ......++.++..       .+.+.+.+|+..+
T Consensus       191 ~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~-------~d~e~~~eai~~y  263 (290)
T d1qqea_         191 NRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNE-------GDSEQLSEHCKEF  263 (290)
T ss_dssp             CTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHT-------TCTTTHHHHHHHH
T ss_pred             chhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHh-------cCHHHHHHHHHHH
Confidence            1     11 12334445666799999999999987654211 11   1244566677732       1235677776643

>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=97.40  E-value=0.024  Score=48.55  Aligned_cols=168  Identities=10%  Similarity=-0.072  Sum_probs=114.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .|..+=..|.+.|++++|+..|++..+.. +-++.+|+.+=.++...|        ++++|.+.|++..+.... +..++
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g--------~~~~A~~~~~~al~~~p~-~~~a~  108 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAG--------NFDAAYEAFDSVLELDPT-YNYAH  108 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCTT-CTHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHH--------HHHHhhhhhhHHHHHHhh-hhhhH
Confidence            77777788999999999999999987642 235677777766888888        999999999999875432 45678


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC--------------
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLS--------------  169 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~--------------  169 (442)
                      ..+-..|...|++++|...|+... +.  .|+ ......+..++.+.+..+.+..+........-.              
T Consensus       109 ~~lg~~~~~~g~~~~A~~~~~~al-~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  185 (259)
T d1xnfa_         109 LNRGIALYYGGRDKLAQDDLLAFY-QD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWNIVEFYLGNI  185 (259)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHH-hh--ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhhHHHHHHHHH
Confidence            888899999999999999999887 43  343 333333333444444444333333333221110              


Q ss_pred             --------------------CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCh
Q 013497          170 --------------------LE-QQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNE  207 (442)
Q Consensus       170 --------------------p~-~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~  207 (442)
                                          |+ ..+|..|-..|...|+.++|.+.|++....  .|+.
T Consensus       186 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~  242 (259)
T d1xnfa_         186 SEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NVHN  242 (259)
T ss_dssp             CHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CCTT
T ss_pred             HHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCC
Confidence                                11 124455667788899999999999887654  4543

>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=97.29  E-value=0.0052  Score=51.21  Aligned_cols=83  Identities=10%  Similarity=0.038  Sum_probs=49.7

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 013497           33 CTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAA  112 (442)
Q Consensus        33 ~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~  112 (442)
                      +...|++++|++.|.++    ..|++.+|..+=.++...|        ++++|.+.|++..+... -+...|+.+-.+|.
T Consensus        15 ~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g--------~~~~A~~~~~kAl~ldp-~~~~a~~~~g~~~~   81 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILK--------NMTEAEKAFTRSINRDK-HLAVAYFQRGMLYY   81 (192)
T ss_dssp             HHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcC--------CchhHHHHHHHHHHHhh-hhhhhHHHHHHHHH
Confidence            34566677776666543    2445555555444555555        67777777766655432 24556666666666


Q ss_pred             hcCCHHHHHHHHHHhH
Q 013497          113 SKNDGDYAFVLIKRMN  128 (442)
Q Consensus       113 ~~g~~~~A~~~~~~m~  128 (442)
                      +.|+.++|+..|++..
T Consensus        82 ~~g~~~~A~~~~~kAl   97 (192)
T d1hh8a_          82 QTEKYDLAIKDLKEAL   97 (192)
T ss_dssp             HTTCHHHHHHHHHHHH
T ss_pred             hhccHHHHHHHHHHHH
Confidence            7777777766666643

>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=97.21  E-value=0.0055  Score=51.07  Aligned_cols=123  Identities=10%  Similarity=-0.050  Sum_probs=96.3

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEV  159 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l  159 (442)
                      +++.|.+.|+++    ..|+..+|..+=.+|...|++++|++.|++.. +.  .| +...|..+-.+|.+.|+.++|.+.
T Consensus        20 d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl-~l--dp~~~~a~~~~g~~~~~~g~~~~A~~~   92 (192)
T d1hh8a_          20 DWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSI-NR--DKHLAVAYFQRGMLYYQTEKYDLAIKD   92 (192)
T ss_dssp             CHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHH-HH--hhhhhhhHHHHHHHHHhhccHHHHHHH
Confidence            799999999875    46788899999999999999999999999988 43  34 457788888999999999999999


Q ss_pred             HHHHHHCC------------C--CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHH
Q 013497          160 EEHMGLMG------------L--SLE-QQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETG  210 (442)
Q Consensus       160 ~~~M~~~g------------~--~p~-~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~  210 (442)
                      |+......            +  .++ ..++..+-.++.+.|++++|.+.|.+.......+.....
T Consensus        93 ~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~~~~  158 (192)
T d1hh8a_          93 LKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKI  158 (192)
T ss_dssp             HHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHH
T ss_pred             HHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcchHHH
Confidence            99876431            1  111 245556777889999999999999887765444444333

>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=97.19  E-value=0.003  Score=52.44  Aligned_cols=98  Identities=13%  Similarity=0.012  Sum_probs=66.8

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHH
Q 013497           99 PNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSL-EQQEIAA  177 (442)
Q Consensus        99 p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p-~~~ty~~  177 (442)
                      |+...+.-.=..|.+.|++++|+..|.+.. ... +-+...|+.+-.+|.+.|++++|...|+.....  .| +..+|..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal-~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~   77 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAI-TRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFF   77 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHH
Confidence            555555555567777788888888887765 321 234456777777777888888888877777643  34 4566777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHh
Q 013497          178 LLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       178 li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      +-.+|.+.|++++|...|++...
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            77777778888888777776543

>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=97.12  E-value=0.0046  Score=46.96  Aligned_cols=95  Identities=13%  Similarity=-0.019  Sum_probs=72.4

Q ss_pred             HHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 013497          109 RLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRV  188 (442)
Q Consensus       109 ~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~  188 (442)
                      ..+.+.|++++|+..|.+.. ... +-+...|..+-.+|.+.|++++|.+.++...+.. +.+...|..+-.++...|++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al-~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAI-KLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHH-hcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCH
Confidence            45677888899999888887 431 3345668888888888899999988888887664 33677888888888889999


Q ss_pred             HHHHHHHHHHHhccCCCChH
Q 013497          189 EKVYQYLQKLRSTVRCVNEE  208 (442)
Q Consensus       189 ~~a~~ll~~m~~~~~~p~~~  208 (442)
                      ++|...|++..+.  .|+..
T Consensus        88 ~~A~~~~~~a~~~--~p~~~  105 (117)
T d1elwa_          88 EEAKRTYEEGLKH--EANNP  105 (117)
T ss_dssp             HHHHHHHHHHHTT--CTTCH
T ss_pred             HHHHHHHHHHHHh--CCCCH
Confidence            9998888887753  45543

>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=97.03  E-value=0.0053  Score=49.25  Aligned_cols=81  Identities=12%  Similarity=0.004  Sum_probs=38.5

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEV  159 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l  159 (442)
                      ++++|...|++..+... -+...|..+-.+|...|++++|...|+... +.  .|+ ..+|..+..+|...|++++|.+.
T Consensus        25 ~y~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~kal-~~--~p~~~~a~~~~g~~~~~~g~~~eA~~~  100 (159)
T d1a17a_          25 DYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAI-EL--DKKYIKGYYRRAASNMALGKFRAALRD  100 (159)
T ss_dssp             CHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CHHHHHHHhhhccccch-hhhhhhhhhHHHHHhccccchHHHHHHHHH-HH--cccchHHHHHHHHHHHHcCCHHHHHHH
Confidence            45555555554444321 244444555555555555555555555544 22  222 24455555555555555555555


Q ss_pred             HHHHHH
Q 013497          160 EEHMGL  165 (442)
Q Consensus       160 ~~~M~~  165 (442)
                      +++...
T Consensus       101 ~~~a~~  106 (159)
T d1a17a_         101 YETVVK  106 (159)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555444

>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=96.99  E-value=0.0085  Score=45.35  Aligned_cols=82  Identities=11%  Similarity=-0.011  Sum_probs=39.5

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVE  160 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~  160 (442)
                      ++++|..+|++..+.. +-+...|..+-.+|.+.|++++|+..+.... +.. +.+...|..+-.+|...|++++|...|
T Consensus        18 ~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al-~~~-p~~~~~~~~~g~~~~~~~~~~~A~~~~   94 (117)
T d1elwa_          18 NIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTV-DLK-PDWGKGYSRKAAALEFLNRFEEAKRTY   94 (117)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHH-Hhc-cchhhHHHHHHHHHHHccCHHHHHHHH
Confidence            4555555555544432 1234445555555555555555555555544 221 223344555555555555555555555


Q ss_pred             HHHHH
Q 013497          161 EHMGL  165 (442)
Q Consensus       161 ~~M~~  165 (442)
                      +...+
T Consensus        95 ~~a~~   99 (117)
T d1elwa_          95 EEGLK   99 (117)
T ss_dssp             HHHHT
T ss_pred             HHHHH
Confidence            55443

>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=96.95  E-value=0.025  Score=50.77  Aligned_cols=182  Identities=8%  Similarity=0.020  Sum_probs=131.3

Q ss_pred             CCHH--HHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCC
Q 013497           21 NPET--NFLINLQSCTKSK-DLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNV   97 (442)
Q Consensus        21 ~p~~--~~~~li~~~~k~g-~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~   97 (442)
                      .|+-  .|+..-..+.+.| ++++|+..+++..+..- -+..+|+.+-.++...+        ++++|++.|+.+.+...
T Consensus        73 nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p-~~~~a~~~~~~~~~~l~--------~~~eAl~~~~kal~~dp  143 (315)
T d2h6fa1          73 NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRVLVEWLR--------DPSQELEFIADILNQDA  143 (315)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHT--------CCTTHHHHHHHHHHHCT
T ss_pred             CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHH-hhhhHHHHHhHHHHhhc--------cHHHHHHHHhhhhhhhh
Confidence            3554  7777777777766 59999999999876532 35677777766777777        89999999999987543


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCC------HHHHHHHHHHHHHCCCCC
Q 013497           98 IPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLE------AEKAYEVEEHMGLMGLSL  170 (442)
Q Consensus        98 ~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~------~~~A~~l~~~M~~~g~~p  170 (442)
                       -+..+|+.+...+.+.|++++|++.++... +.  .| +...|+.+-..+.+.+.      .++|.+.+....+.. +-
T Consensus       144 -~n~~a~~~~~~~~~~~~~~~~Al~~~~~al-~~--~p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~-P~  218 (315)
T d2h6fa1         144 -KNYHAWQHRQWVIQEFKLWDNELQYVDQLL-KE--DVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-PH  218 (315)
T ss_dssp             -TCHHHHHHHHHHHHHHTCCTTHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TT
T ss_pred             -cchHHHHHHHHHHHHHHhhHHHHHHHHHHH-HH--CCccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhC-CC
Confidence             378999999999999999999999999998 43  44 45567766666666555      578888888877653 22


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCC-ChHHHHHHHHHh
Q 013497          171 EQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCV-NEETGKIIEDWF  217 (442)
Q Consensus       171 ~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p-~~~t~~~li~~~  217 (442)
                      +...|+.+...+. ....+++.+.++...+....+ +...+..+...|
T Consensus       219 ~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y  265 (315)
T d2h6fa1         219 NESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIY  265 (315)
T ss_dssp             CHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHH
Confidence            5677776655554 444677888887776543332 344555666666

>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=96.95  E-value=0.11  Score=45.65  Aligned_cols=243  Identities=9%  Similarity=-0.025  Sum_probs=145.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHh----C
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQ----NLRLS-LHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLS----N   95 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~----g~~p~-~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~----~   95 (442)
                      .++.+-..|...|++++|+..|.+..+.    +..+. ..++..+...+...+        ++..+...+.....    .
T Consensus        53 a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~a~~~~~~al~~~~~~  124 (366)
T d1hz4a_          53 ATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQG--------FLQTAWETQEKAFQLINEQ  124 (366)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHhHhc
Confidence            6777778899999999999999987642    22111 123333333556666        78888888876543    2


Q ss_pred             CCC--CC-HHHHHHHHHHHHhcCCHHHHHHHHHHhHhh---CCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC---
Q 013497           96 NVI--PN-EASVTSVARLAASKNDGDYAFVLIKRMNNE---FNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLM---  166 (442)
Q Consensus        96 g~~--p~-~~ty~~li~~~~~~g~~~~A~~~~~~m~~~---~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~---  166 (442)
                      +..  +. ..++..+-..+...|+++.|...+......   .+......++..+...+...|+...+...+.+....   
T Consensus       125 ~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~  204 (366)
T d1hz4a_         125 HLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGN  204 (366)
T ss_dssp             TCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTT
T ss_pred             ccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHH
Confidence            222  22 235566778899999999999999887621   122223345566667788899999998887765432   


Q ss_pred             -CCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChH---HHHHHHHHhccccCCCcccchhhHHHHHHhcC
Q 013497          167 -GLSLE--QQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEE---TGKIIEDWFSGQKVNGVSCDLGLVKNAVLKNG  240 (442)
Q Consensus       167 -g~~p~--~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~---t~~~li~~~~~~~~~~~~~~~~~~~~a~~~~~  240 (442)
                       +..+.  ...+..+...+...|+.++|...+.+........+..   .+..+...+  ...|........+++++... 
T Consensus       205 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~--~~~g~~~~A~~~~~~al~~~-  281 (366)
T d1hz4a_         205 GKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQ--ILLGEFEPAEIVLEELNENA-  281 (366)
T ss_dssp             SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHH--HHTTCHHHHHHHHHHHHHHH-
T ss_pred             hcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHH--HHcCCHHHHHHHHHHHHHHH-
Confidence             21111  2345566667888999999999988765443222222   233344444  33321111112222222210 


Q ss_pred             CcccCCccccccceEEeeeccCCCCCCCcCCCcccccCCCHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHH
Q 013497          241 GGWHGLGWIGQGKWVVKRGSVDESGKCCSCGDQLACVDIDDAETERFAQSVAALAMEREVKANFSEFQDWLE  312 (442)
Q Consensus       241 ~~~~~~~~~~~~~w~v~~~~~~~~g~c~~c~~~l~~~~l~~~d~~~~~~~I~~~~~~g~~~~a~~~F~~m~~  312 (442)
                                                        ......+.....+..+-..+...|+.++|++.|++-++
T Consensus       282 ----------------------------------~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         282 ----------------------------------RSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             ----------------------------------HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             ----------------------------------hhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                                              00112223344455555567789999999999998765

>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=96.91  E-value=0.0046  Score=49.64  Aligned_cols=90  Identities=8%  Similarity=-0.044  Sum_probs=76.7

Q ss_pred             HHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 013497          109 RLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRV  188 (442)
Q Consensus       109 ~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~  188 (442)
                      ..|.+.|++++|+..|++.. ... +-+...|..+-.+|...|++++|...|+...+.. +-+...|..+..++...|++
T Consensus        18 n~~~~~~~y~~A~~~~~~al-~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAI-ELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH-HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHhhhcc-ccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCH
Confidence            46779999999999999988 442 3355778888899999999999999999998764 23567899999999999999


Q ss_pred             HHHHHHHHHHHhc
Q 013497          189 EKVYQYLQKLRST  201 (442)
Q Consensus       189 ~~a~~ll~~m~~~  201 (442)
                      ++|...+++....
T Consensus        95 ~eA~~~~~~a~~~  107 (159)
T d1a17a_          95 RAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc
Confidence            9999999998775

>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=96.87  E-value=0.011  Score=48.64  Aligned_cols=103  Identities=9%  Similarity=-0.081  Sum_probs=78.3

Q ss_pred             HHHhcCCHHHHHHHHHHhHhhC--C-CCCC------------------cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 013497          110 LAASKNDGDYAFVLIKRMNNEF--N-VVPR------------------LRTYDPALFCFCENLEAEKAYEVEEHMGLMGL  168 (442)
Q Consensus       110 ~~~~~g~~~~A~~~~~~m~~~~--g-~~p~------------------~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~  168 (442)
                      .....|++++|.+.|.+-. ..  | ..++                  ...+..+...+.+.|++++|...++.+....-
T Consensus        20 ~~~~~g~~e~A~~~~~~AL-~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al~~~P   98 (179)
T d2ff4a2          20 HAAAAGRFEQASRHLSAAL-REWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALTFEHP   98 (179)
T ss_dssp             HHHHTTCHHHHHHHHHHHH-TTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHCCCHHHHHHHHHHHH-hhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCC
Confidence            4566777777777776655 21  1 1111                  13567888999999999999999999987642


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----ccCCCChHHHHHHH
Q 013497          169 SLEQQEIAALLKVSAETGRVEKVYQYLQKLRS-----TVRCVNEETGKIIE  214 (442)
Q Consensus       169 ~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~-----~~~~p~~~t~~~li  214 (442)
                       -++..|..++.+|.+.|+.++|.+.|++++.     .|+.|++.|-...-
T Consensus        99 -~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~l~~  148 (179)
T d2ff4a2          99 -YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALNE  148 (179)
T ss_dssp             -TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHH
T ss_pred             -ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHHHHH
Confidence             3788999999999999999999999999744     69999987754433

>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=96.85  E-value=0.0081  Score=49.62  Aligned_cols=79  Identities=10%  Similarity=-0.027  Sum_probs=38.3

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-cccHHHHHHHHHHcCCHHHHHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-LRTYDPALFCFCENLEAEKAYEV  159 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~~~~~~g~~~~A~~l  159 (442)
                      ++++|...|++..+.. +-+..+|+.+-.+|.+.|++++|+..|+...   .+.|+ ..+|..+-.+|.+.|++++|...
T Consensus        19 ~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al---~l~p~~~~a~~~lg~~~~~l~~~~~A~~~   94 (201)
T d2c2la1          19 KYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRAL---ELDGQSVKAHFFLGQCQLEMESYDEAIAN   94 (201)
T ss_dssp             CHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHH---HhCCCcHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4555555555444332 2244445555555555555555555555544   22332 33445555555555555555555


Q ss_pred             HHHH
Q 013497          160 EEHM  163 (442)
Q Consensus       160 ~~~M  163 (442)
                      |+..
T Consensus        95 ~~~a   98 (201)
T d2c2la1          95 LQRA   98 (201)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5544

>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=96.82  E-value=0.0033  Score=48.38  Aligned_cols=106  Identities=17%  Similarity=0.033  Sum_probs=68.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCC---HHHHHHHHHHHHHCCCCCCH-HHHHHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLE---AEKAYEVEEHMGLMGLSLEQ-QEIAALLK  180 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~---~~~A~~l~~~M~~~g~~p~~-~ty~~li~  180 (442)
                      ..+++.+...+++++|.+.|+... ..+ ..+..++..+-.++.+.++   .++|.++++........|+. .+|..|-.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL-~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEK-AAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH-HHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHH-hhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            356677777788888888888776 321 2344666666666665443   44688888877765544432 35666777


Q ss_pred             HHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHH
Q 013497          181 VSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIE  214 (442)
Q Consensus       181 ~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li  214 (442)
                      +|.+.|++++|.+.|++..+.  .|+..-+..+.
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~--~P~~~~A~~l~  112 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQT--EPQNNQAKELE  112 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHh--CcCCHHHHHHH
Confidence            777888888888888877764  46655444443

>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=96.79  E-value=0.035  Score=48.93  Aligned_cols=165  Identities=10%  Similarity=0.070  Sum_probs=108.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh----CCC-CCCHHHHHHHHHHHH-hcCCCCCCchhhHHHHHHHHHHHHh----
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHS----QNL-RLSLHHFNALLYLCS-DSATDPSSKDSALRHGFRVFDQMLS----   94 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~----~g~-~p~~~ty~~ll~~~~-~~~~~~~~~~~~~~~a~~l~~~M~~----   94 (442)
                      +|+.+-.+|.+.|++++|++.|++..+    .|- .....++..+...|. ..+        ++++|.+.|++..+    
T Consensus        79 ~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--------~~~~A~~~~~~A~~l~~~  150 (290)
T d1qqea_          79 TYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLH--------DYAKAIDCYELAGEWYAQ  150 (290)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC--------CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHH--------HHHHHHHHHHHHHHHHHh
Confidence            899999999999999999999998543    222 111233444444453 346        89999999987653    


Q ss_pred             CCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcc------cHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 013497           95 NNVIPN-EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLR------TYDPALFCFCENLEAEKAYEVEEHMGLMG  167 (442)
Q Consensus        95 ~g~~p~-~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~------ty~~li~~~~~~g~~~~A~~l~~~M~~~g  167 (442)
                      .+-.+. ..+|..+...|.+.|++++|...|++.. .........      .|..++..+...|+.+.|...++...+..
T Consensus       151 ~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         151 DQSVALSNKCFIKCADLKALDGQYIEASDIYSKLI-KSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             cCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHH-HhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            222221 3567888999999999999999999987 432111111      13345556778999999999999887653


Q ss_pred             CC-CC---HHHHHHHHHHHHh--cCCHHHHHHHHHHH
Q 013497          168 LS-LE---QQEIAALLKVSAE--TGRVEKVYQYLQKL  198 (442)
Q Consensus       168 ~~-p~---~~ty~~li~~~~~--~g~~~~a~~ll~~m  198 (442)
                      .. ++   ......|+.++-.  .+.+++|...|+++
T Consensus       230 ~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~  266 (290)
T d1qqea_         230 PNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (290)
T ss_dssp             --------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             CCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            11 22   2345667777644  34467777766543

>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=96.76  E-value=0.0035  Score=48.19  Aligned_cols=47  Identities=13%  Similarity=0.192  Sum_probs=21.1

Q ss_pred             HHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHhH
Q 013497           82 LRHGFRVFDQMLSNNVIPNE-ASVTSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus        82 ~~~a~~l~~~M~~~g~~p~~-~ty~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      +++|..+|++.......|+. .+|..|-.+|.+.|++++|.+.|+...
T Consensus        52 ~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~~~g~~~~A~~~~~~aL   99 (122)
T d1nzna_          52 IRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLL   99 (122)
T ss_dssp             HHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCCchHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            34455555554433322221 234444445555555555555555544

>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=96.64  E-value=0.006  Score=45.89  Aligned_cols=87  Identities=13%  Similarity=0.027  Sum_probs=71.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 013497          108 ARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETG  186 (442)
Q Consensus       108 i~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g  186 (442)
                      -..+.+.|++++|...|++.. ..  .| +...|..+-.+|.+.|++++|...|+...+.. +-+...|..|-..|...|
T Consensus        23 g~~~~~~g~~~~A~~~~~~al-~~--~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVC-QK--EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHH-HH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhc-cc--ccccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCC
Confidence            345778899999999999987 43  45 46788888899999999999999999987653 225778888999999999


Q ss_pred             CHHHHHHHHHHH
Q 013497          187 RVEKVYQYLQKL  198 (442)
Q Consensus       187 ~~~~a~~ll~~m  198 (442)
                      +.++|.+.|++.
T Consensus        99 ~~~~A~~~l~~~  110 (112)
T d1hxia_          99 NANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHH
Confidence            999999998875

>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=96.41  E-value=0.15  Score=44.78  Aligned_cols=167  Identities=12%  Similarity=-0.016  Sum_probs=115.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHh----CC
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQ----NLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLS----NN   96 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~----g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~----~g   96 (442)
                      .+..+-..+...|+++.|...+......    +......++..+...+...+        ...++...+.+...    .+
T Consensus       135 ~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~a~~~~~~a~~~~~~~~  206 (366)
T d1hz4a_         135 LVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARG--------DLDNARSQLNRLENLLGNGK  206 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhh--------hHHHHHHHHHHHHHHHHHhc
Confidence            5666677888999999999999987643    22233344444444454555        57777777665443    22


Q ss_pred             CCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC---cccHHHHHHHHHHcCCHHHHHHHHHHHHH----CC
Q 013497           97 VIP--NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR---LRTYDPALFCFCENLEAEKAYEVEEHMGL----MG  167 (442)
Q Consensus        97 ~~p--~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~---~~ty~~li~~~~~~g~~~~A~~l~~~M~~----~g  167 (442)
                      ..+  ....+..+...+...|++++|...+.... ...-..+   ..++..+...|...|+.++|...++....    .+
T Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~-~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~  285 (366)
T d1hz4a_         207 YHSDWISNANKVRVIYWQMTGDKAAAANWLRHTA-KPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLR  285 (366)
T ss_dssp             CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSC-CCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             ccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHH-HhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcc
Confidence            211  23456677778899999999999998876 3321111   23455677889999999999999988753    35


Q ss_pred             CCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          168 LSLEQ-QEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       168 ~~p~~-~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                      ..|+. .++..+-..|...|+.++|.+.+++-..
T Consensus       286 ~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         286 LMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            55543 4677777889999999999999987543

>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=96.38  E-value=0.0062  Score=45.79  Aligned_cols=79  Identities=11%  Similarity=0.113  Sum_probs=69.1

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHH
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEV  159 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l  159 (442)
                      ++++|...|++....... +..+|..+-.++.+.|++++|...|+... +.  .| +...|..+-..|...|+.++|.+.
T Consensus        31 ~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~A~~~~~~al-~~--~p~~~~a~~~la~~y~~~g~~~~A~~~  106 (112)
T d1hxia_          31 NLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHAR-ML--DPKDIAVHAALAVSHTNEHNANAALAS  106 (112)
T ss_dssp             CHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHhhhcccccc-cchhhhhhhhhhhhhhhHHHhhccccccc-cc--ccccccchHHHHHHHHHCCCHHHHHHH
Confidence            899999999998876532 68999999999999999999999999987 43  45 467888999999999999999999


Q ss_pred             HHHH
Q 013497          160 EEHM  163 (442)
Q Consensus       160 ~~~M  163 (442)
                      +++.
T Consensus       107 l~~~  110 (112)
T d1hxia_         107 LRAW  110 (112)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9875

>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=96.01  E-value=0.042  Score=44.91  Aligned_cols=92  Identities=8%  Similarity=0.029  Sum_probs=73.1

Q ss_pred             hHHHHHHHHHHHHhC--CCC-C------------------CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCccc
Q 013497           81 ALRHGFRVFDQMLSN--NVI-P------------------NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRT  139 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~--g~~-p------------------~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~t  139 (442)
                      ++++|.+.|..-...  |.. +                  -...+..+...+.+.|++++|+..++... ... .-+...
T Consensus        26 ~~e~A~~~~~~AL~l~rG~~l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~~~~~al-~~~-P~~e~~  103 (179)
T d2ff4a2          26 RFEQASRHLSAALREWRGPVLDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIAELEALT-FEH-PYREPL  103 (179)
T ss_dssp             CHHHHHHHHHHHHTTCCSSTTGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHS-TTCHHH
T ss_pred             CHHHHHHHHHHHHhhCcccccccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHH-HhC-CccHHH
Confidence            788888888877663  221 1                  12467888999999999999999999998 431 336788


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH-----HCCCCCCHHH
Q 013497          140 YDPALFCFCENLEAEKAYEVEEHMG-----LMGLSLEQQE  174 (442)
Q Consensus       140 y~~li~~~~~~g~~~~A~~l~~~M~-----~~g~~p~~~t  174 (442)
                      |..++.+|.+.|+.++|.+.|+.+.     +.|+.|...+
T Consensus       104 ~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2         104 WTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            9999999999999999999999974     3599998765

>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=95.97  E-value=0.25  Score=43.85  Aligned_cols=161  Identities=7%  Similarity=-0.018  Sum_probs=106.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcC--CCCCCchhhHHHHHHHHHHHHhCCCCCCHH
Q 013497           26 FLINLQSCTKSKDLTTAISLYESAHSQNLRLSLH-HFNALLYLCSDSA--TDPSSKDSALRHGFRVFDQMLSNNVIPNEA  102 (442)
Q Consensus        26 ~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~-ty~~ll~~~~~~~--~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~  102 (442)
                      +..++...-+....++|++++++..+.  .|+.. .|+..=.++...+  ...+...+.+++|+.+|+...+.. +-+..
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            344444444444458999999998764  35543 3443322222111  122334457899999999987754 33677


Q ss_pred             HHHHHHHHHHhcCC--HHHHHHHHHHhHhhCCCCC-CcccHHHHH-HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 013497          103 SVTSVARLAASKND--GDYAFVLIKRMNNEFNVVP-RLRTYDPAL-FCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAAL  178 (442)
Q Consensus       103 ty~~li~~~~~~g~--~~~A~~~~~~m~~~~g~~p-~~~ty~~li-~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~l  178 (442)
                      .|..+..++...+.  +++|...+..+. ..  .| +...+...+ ..+-..+..++|...++........ +...|+.+
T Consensus       109 ~~~~~~~~~~~~~~~~~~~a~~~~~~al-~~--~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~-~~~a~~~l  184 (334)
T d1dcea1         109 TWHHRCWLLSRLPEPNWARELELCARFL-EA--DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYR  184 (334)
T ss_dssp             HHHHHHHHHHTCSSCCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHH
T ss_pred             HHHHhhHHHHHhccccHHHHHHHHHHHH-hh--CchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCC-CHHHHHHH
Confidence            77777777777664  789999999987 43  34 344444444 5666789999999999988776543 67788888


Q ss_pred             HHHHHhcCCHHHHHH
Q 013497          179 LKVSAETGRVEKVYQ  193 (442)
Q Consensus       179 i~~~~~~g~~~~a~~  193 (442)
                      -..+.+.|+.++|..
T Consensus       185 ~~~~~~~~~~~~A~~  199 (334)
T d1dcea1         185 SCLLPQLHPQPDSGP  199 (334)
T ss_dssp             HHHHHHHSCCCCSSS
T ss_pred             HHHHHHhcCHHHHHH
Confidence            888888888766543

>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=95.87  E-value=0.084  Score=42.43  Aligned_cols=96  Identities=11%  Similarity=0.018  Sum_probs=68.5

Q ss_pred             HHHHhcCCHHHHHHHHHHhHhhCCCCCC-------------cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 013497          109 RLAASKNDGDYAFVLIKRMNNEFNVVPR-------------LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEI  175 (442)
Q Consensus       109 ~~~~~~g~~~~A~~~~~~m~~~~g~~p~-------------~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty  175 (442)
                      ..+.+.|++++|...|.+...-....+.             ..+|+.+-.+|.+.|++++|...++...... +.+...|
T Consensus        21 ~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~   99 (170)
T d1p5qa1          21 TVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGL   99 (170)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhcc-ccchhhh
Confidence            4567778888888888766511111111             2346667788889999999999988887654 2267788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhccCCCCh
Q 013497          176 AALLKVSAETGRVEKVYQYLQKLRSTVRCVNE  207 (442)
Q Consensus       176 ~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~  207 (442)
                      ..+-.+|...|++++|...|++..+.  .|+.
T Consensus       100 ~~~g~~~~~~g~~~~A~~~~~~al~l--~P~n  129 (170)
T d1p5qa1         100 SRRGEAHLAVNDFELARADFQKVLQL--YPNN  129 (170)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CSSC
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHh--CCCC
Confidence            88888899999999999999888664  4543

>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=95.81  E-value=0.042  Score=41.96  Aligned_cols=90  Identities=14%  Similarity=0.097  Sum_probs=55.7

Q ss_pred             HHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCC----HHHHHHHHHHH
Q 013497          109 RLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMG--LSLE----QQEIAALLKVS  182 (442)
Q Consensus       109 ~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g--~~p~----~~ty~~li~~~  182 (442)
                      ..|.+.|++++|+..|.+.. +.. +.+..+|..+-.+|.+.|++++|.+.++...+..  ....    ..+|..+-..+
T Consensus        12 ~~~~~~~~y~~Ai~~y~~al-~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~~   89 (128)
T d1elra_          12 NDAYKKKDFDTALKHYDKAK-ELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSY   89 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHH-HhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHH
Confidence            35666777777777777766 331 2245666667777777777777777777765421  1101    13555566666


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 013497          183 AETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       183 ~~~g~~~~a~~ll~~m~~  200 (442)
                      ...+++++|.+.|.+-..
T Consensus        90 ~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          90 FKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHh
Confidence            667777777777766544

>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=95.70  E-value=0.17  Score=39.65  Aligned_cols=98  Identities=17%  Similarity=0.062  Sum_probs=73.7

Q ss_pred             HHHHhcCCHHHHHHHHHHhHhhC-CCCC--------------CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH
Q 013497          109 RLAASKNDGDYAFVLIKRMNNEF-NVVP--------------RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQ  173 (442)
Q Consensus       109 ~~~~~~g~~~~A~~~~~~m~~~~-g~~p--------------~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~  173 (442)
                      ..+.+.|++.+|+..|.+.. .. ...+              ...+|+.+-.+|.+.|++++|.+.+....+.. +.+..
T Consensus        25 ~~~f~~~~y~~A~~~Y~~al-~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~k  102 (153)
T d2fbna1          25 NEFFKKNEINEAIVKYKEAL-DFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVK  102 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH-HTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHH-hhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-chhhh
Confidence            35567788888888887765 21 1111              12467778888999999999999999988764 33778


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHH
Q 013497          174 EIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETG  210 (442)
Q Consensus       174 ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~  210 (442)
                      +|..+..++...|++++|...|.+....  .|+....
T Consensus       103 a~~~~g~~~~~lg~~~~A~~~~~~al~l--~P~n~~~  137 (153)
T d2fbna1         103 ALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDI  137 (153)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHH
T ss_pred             hhHHhHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHH
Confidence            9999999999999999999999887765  4654433

>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=95.52  E-value=0.0091  Score=52.50  Aligned_cols=120  Identities=9%  Similarity=0.061  Sum_probs=77.4

Q ss_pred             chhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCc-ccHHHHHHHHHHcCCHHHH
Q 013497           78 KDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRL-RTYDPALFCFCENLEAEKA  156 (442)
Q Consensus        78 ~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~-~ty~~li~~~~~~g~~~~A  156 (442)
                      +.|++++|.+.|++-.+... -|...+..+...|+..|++++|...|+... +.  .|+. ..+..+-..+...+..+++
T Consensus         8 ~~G~l~eAl~~l~~al~~~P-~d~~ar~~La~lL~~~G~~e~A~~~l~~a~-~l--~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKASP-KDASLRSSFIELLCIDGDFERADEQLMQSI-KL--FPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHH-HH--CGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHH-Hh--CCCcHHHHHHHHHHHHhccccHHH
Confidence            34589999999999888753 488999999999999999999999999988 43  5654 3333333333222222221


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 013497          157 YEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRST  201 (442)
Q Consensus       157 ~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~  201 (442)
                      ..-...-...+-.++...+......+...|+.++|.+++.+..+.
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            111000000011222334444556677899999999999888664

>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=95.24  E-value=0.099  Score=41.96  Aligned_cols=107  Identities=11%  Similarity=-0.114  Sum_probs=73.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 013497           28 INLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSV  107 (442)
Q Consensus        28 ~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~l  107 (442)
                      ..=..+.+.|++++|+..|.+..+.--               ...  ... .........++           ..+|+-+
T Consensus        18 ~~G~~~~~~~~~~~Ai~~y~~al~~~~---------------~~~--~~~-~~~~~~~~~~~-----------~~~~~nl   68 (170)
T d1p5qa1          18 ERGTVYFKEGKYKQALLQYKKIVSWLE---------------YES--SFS-NEEAQKAQALR-----------LASHLNL   68 (170)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHTT---------------TCC--CCC-SHHHHHHHHHH-----------HHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHhh---------------hcc--ccc-hHHHhhhchhH-----------HHHHHHH
Confidence            333478889999999999998764210               000  000 00111111111           2357778


Q ss_pred             HHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 013497          108 ARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLM  166 (442)
Q Consensus       108 i~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~  166 (442)
                      ..+|.+.|++++|+..++... ..  .| +..+|..+-.+|...|++++|...|+...+.
T Consensus        69 a~~y~k~~~~~~A~~~~~~al-~~--~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          69 AMCHLKLQAFSAAIESCNKAL-EL--DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHH-HH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhcccccchhhhhh-hc--cccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            888999999999999998887 43  45 6678888888899999999999999998774

>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=95.23  E-value=0.25  Score=38.65  Aligned_cols=109  Identities=10%  Similarity=-0.057  Sum_probs=75.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCC----CCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNL----RLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN  100 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~----~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~  100 (442)
                      .+...=..+.+.|++.+|+..|.+..+.-.    .++...                         ..-...+       .
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~-------------------------~~~~~~~-------~   66 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQIL-------------------------LDKKKNI-------E   66 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHH-------------------------HHHHHHH-------H
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHH-------------------------HHhhhhH-------H
Confidence            344445678899999999999998764210    011100                         0000111       2


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 013497          101 EASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMG  167 (442)
Q Consensus       101 ~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g  167 (442)
                      ..+|+.+..+|.+.|++++|++.+.... ... +.+..+|-.+-.+|...|++++|...|+......
T Consensus        67 ~~~~~Nla~~~~~l~~~~~Al~~~~~al-~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~  131 (153)
T d2fbna1          67 ISCNLNLATCYNKNKDYPKAIDHASKVL-KID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  131 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHH-HHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHhhHHHHHHHhcccchhhhhhhccc-ccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            3477788888999999999999998877 432 3366888888999999999999999998887653

>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=94.92  E-value=0.064  Score=40.88  Aligned_cols=82  Identities=12%  Similarity=0.060  Sum_probs=66.1

Q ss_pred             hHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCC-c-------ccHHHHHHHHHHcCC
Q 013497           81 ALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPR-L-------RTYDPALFCFCENLE  152 (442)
Q Consensus        81 ~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~-~-------~ty~~li~~~~~~g~  152 (442)
                      ++++|.+.|.+..+... .+..+|..+-.+|.+.|++++|+..+++.. ..  .|+ .       .+|..+-..+...++
T Consensus        19 ~y~~Ai~~y~~al~~~p-~~~~~~~~~a~~~~~~~~~~~A~~~~~~al-~l--~~~~~~~~~~~a~~~~~lg~~~~~~~~   94 (128)
T d1elra_          19 DFDTALKHYDKAKELDP-TNMTYITNQAAVYFEKGDYNKCRELCEKAI-EV--GRENREDYRQIAKAYARIGNSYFKEEK   94 (128)
T ss_dssp             CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHH-HH--HHHSTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHHHHhCc-ccHHHHHhHHHHHHHcCchHHHHHHHHHHH-Hh--CcccHHHHHHHHHHHHHHHHHHHHhCC
Confidence            89999999999888653 478999999999999999999999999977 32  222 1       356666677788889


Q ss_pred             HHHHHHHHHHHHHC
Q 013497          153 AEKAYEVEEHMGLM  166 (442)
Q Consensus       153 ~~~A~~l~~~M~~~  166 (442)
                      +++|.+.|+.-...
T Consensus        95 ~~~A~~~~~kal~~  108 (128)
T d1elra_          95 YKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999876543

>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=94.61  E-value=0.097  Score=46.75  Aligned_cols=178  Identities=9%  Similarity=-0.009  Sum_probs=116.1

Q ss_pred             HHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCCCCHHHHHHHHH-HHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCH
Q 013497           25 NFLINLQSCTKS--KDLTTAISLYESAHSQNLRLSLHHFNALLY-LCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNE  101 (442)
Q Consensus        25 ~~~~li~~~~k~--g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~-~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~  101 (442)
                      .|..+-.++...  ++.++|+..+.++.+.. +++...+..++. .+...+        ..++|++.++...+... -+.
T Consensus       109 ~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~--------~~~~Al~~~~~~i~~~p-~~~  178 (334)
T d1dcea1         109 TWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAV--------APAEELAFTDSLITRNF-SNY  178 (334)
T ss_dssp             HHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCC--------CHHHHHHHHHTTTTTTC-CCH
T ss_pred             HHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhcc--------ccHHHHHHHHHHHHcCC-CCH
Confidence            455554444444  45889999999887653 234566555554 555556        78899999988876654 367


Q ss_pred             HHHHHHHHHHHhcCCHHHH------------------------------HHHHHHhHhhCCCCCCcccHHHHHHHHHHcC
Q 013497          102 ASVTSVARLAASKNDGDYA------------------------------FVLIKRMNNEFNVVPRLRTYDPALFCFCENL  151 (442)
Q Consensus       102 ~ty~~li~~~~~~g~~~~A------------------------------~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g  151 (442)
                      .+|+.+-..+.+.|+.++|                              ...+.... .. -.++...+..+...+...|
T Consensus       179 ~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~a~~~~~~~l-~~-~~~~~~~~~~l~~~~~~~~  256 (334)
T d1dcea1         179 SSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWL-LG-RAEPLFRCELSVEKSTVLQ  256 (334)
T ss_dssp             HHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHH-HS-CCCCSSSCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHhHHhHHHHHHHHHHHHHhcchhHHHHHHHHHH-Hh-CcchhhHHHHHHHHHHHHh
Confidence            7787777777777765432                              22222222 11 1334556666777778888


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChH-HHHHHHHHh
Q 013497          152 EAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEE-TGKIIEDWF  217 (442)
Q Consensus       152 ~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~-t~~~li~~~  217 (442)
                      +.++|.+.+.+...... -+..+|..+...+...|+.++|.+.+++..+.  .|+.. -|..|...|
T Consensus       257 ~~~~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l--dP~~~~y~~~L~~~~  320 (334)
T d1dcea1         257 SELESCKELQELEPENK-WCLLTIILLMRALDPLLYEKETLQYFSTLKAV--DPMRAAYLDDLRSKF  320 (334)
T ss_dssp             HHHHHHHHHHHHCTTCH-HHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH--CGGGHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhCc-hHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CcccHHHHHHHHHHH
Confidence            89999888887765431 14566777888899999999999999998764  55433 445554444

>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=94.59  E-value=0.33  Score=37.93  Aligned_cols=99  Identities=10%  Similarity=0.006  Sum_probs=71.1

Q ss_pred             HHHHHH--HHHHHhcCCHHHHHHHHHHhHhhCCCCCC----------cccHHHHHHHHHHcCCHHHHHHHHHHHHHC---
Q 013497          102 ASVTSV--ARLAASKNDGDYAFVLIKRMNNEFNVVPR----------LRTYDPALFCFCENLEAEKAYEVEEHMGLM---  166 (442)
Q Consensus       102 ~ty~~l--i~~~~~~g~~~~A~~~~~~m~~~~g~~p~----------~~ty~~li~~~~~~g~~~~A~~l~~~M~~~---  166 (442)
                      .+|..+  ...+...|++++|+..|++..+-..-.|+          ..+|+.+-.+|.+.|++++|.+-+++....   
T Consensus         8 ~a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~   87 (156)
T d2hr2a1           8 GAYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNR   87 (156)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccc
Confidence            345555  44566789999999999987621111232          356888999999999999999988887542   


Q ss_pred             --CCCCCH-----HHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 013497          167 --GLSLEQ-----QEIAALLKVSAETGRVEKVYQYLQKLRS  200 (442)
Q Consensus       167 --g~~p~~-----~ty~~li~~~~~~g~~~~a~~ll~~m~~  200 (442)
                        ...++.     ..|+.+-.+|...|++++|...|++..+
T Consensus        88 ~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          88 RGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence              222222     2466677889999999999999988653

>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=94.47  E-value=0.83  Score=35.88  Aligned_cols=111  Identities=13%  Similarity=-0.014  Sum_probs=71.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+...-..+.+.|++.+|+..|.++.+.            +.......        .......+ +       +.+...|
T Consensus        29 ~~~~~~~~~~~~~~y~~Ai~~y~~al~~------------~~~~~~~~--------~~~~~~~~-~-------~~~~~~~   80 (169)
T d1ihga1          29 DLKNIGNTFFKSQNWEMAIKKYTKVLRY------------VEGSRAAA--------EDADGAKL-Q-------PVALSCV   80 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH------------HHHHHHHS--------CHHHHGGG-H-------HHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh------------hhhhhhhh--------hhHHHHHh-C-------hhhHHHH
Confidence            4455566677888888888888776421            11000000        01111100 0       1134566


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLM  166 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~  166 (442)
                      +.+-.+|.+.|++++|+..+.... +.  .| +...|..+-.+|.+.|++++|.+.|+...+.
T Consensus        81 ~nla~~~~~~~~~~~Ai~~~~~al-~~--~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          81 LNIGACKLKMSDWQGAVDSCLEAL-EI--DPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-TT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcccchhhhhhhhhh-hh--hhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            777788888999999999998887 43  34 4567888888888999999999888888764

>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=94.33  E-value=0.036  Score=48.44  Aligned_cols=122  Identities=9%  Similarity=-0.012  Sum_probs=79.8

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHH
Q 013497           33 CTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPN-EASVTSVARLA  111 (442)
Q Consensus        33 ~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~-~~ty~~li~~~  111 (442)
                      ..+.|++++|+..|++..+.. +-|...+..|..++...|        ++++|...|+...+..  |+ ..++..+...+
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G--------~~e~A~~~l~~a~~l~--P~~~~~~~~l~~ll   74 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDG--------DFERADEQLMQSIKLF--PEYLPGASQLRHLV   74 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHT--------CHHHHHHHHHHHHHHC--GGGHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHHhC--CCcHHHHHHHHHHH
Confidence            456799999999999988764 346788888888777777        8999999999987753  43 44444444444


Q ss_pred             HhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 013497          112 ASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLM  166 (442)
Q Consensus       112 ~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~  166 (442)
                      ...+..+++..-...-. ..+-.++...+......+.+.|+.++|.++++...+.
T Consensus        75 ~a~~~~~~a~~~~~~~~-~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          75 KAAQARKDFAQGAATAK-VLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HHHHHHHHHTTSCCCEE-CCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HhccccHHHHHHhhhhh-cccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            33333333222111111 1111223344555566788899999999999988654

>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=93.65  E-value=0.5  Score=37.28  Aligned_cols=99  Identities=7%  Similarity=-0.025  Sum_probs=73.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhHh-------------hCCCCC-CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC
Q 013497          106 SVARLAASKNDGDYAFVLIKRMNN-------------EFNVVP-RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLE  171 (442)
Q Consensus       106 ~li~~~~~~g~~~~A~~~~~~m~~-------------~~g~~p-~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~  171 (442)
                      ..-..+.+.|++++|++.|.+..+             ...+.| +...|..+-.+|.+.|++++|+..++...+.. +.+
T Consensus        32 ~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~  110 (169)
T d1ihga1          32 NIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSN  110 (169)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhh
Confidence            344456777888888877766530             001122 33456777788999999999999999998764 236


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCh
Q 013497          172 QQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNE  207 (442)
Q Consensus       172 ~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~  207 (442)
                      ...|..+-.++.+.|++++|.+.|++..+.  .|+.
T Consensus       111 ~~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n  144 (169)
T d1ihga1         111 TKALYRRAQGWQGLKEYDQALADLKKAQEI--APED  144 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             hhHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCC
Confidence            778999999999999999999999988874  4543

>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=93.64  E-value=1.2  Score=34.86  Aligned_cols=99  Identities=10%  Similarity=0.025  Sum_probs=65.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHhHhhCCCCCC-------------cccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH
Q 013497          108 ARLAASKNDGDYAFVLIKRMNNEFNVVPR-------------LRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQE  174 (442)
Q Consensus       108 i~~~~~~g~~~~A~~~~~~m~~~~g~~p~-------------~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~t  174 (442)
                      -..+.+.|++++|...|.+...-....+.             ...|+.+-.+|.+.|++++|...++...... +.+...
T Consensus        22 G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a  100 (168)
T d1kt1a1          22 GTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKG  100 (168)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHH
Confidence            34566677777777777664411111111             1335556677888888888888888877653 346777


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHH
Q 013497          175 IAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEET  209 (442)
Q Consensus       175 y~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t  209 (442)
                      |..+..++...|++++|...|.+....  .|+...
T Consensus       101 ~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~  133 (168)
T d1kt1a1         101 LYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKA  133 (168)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHH
Confidence            888888888888888888888887653  455443

>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=92.73  E-value=0.32  Score=37.62  Aligned_cols=125  Identities=14%  Similarity=0.052  Sum_probs=72.2

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--CCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 013497           33 CTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSA--TDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARL  110 (442)
Q Consensus        33 ~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~--~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~  110 (442)
                      |-+.+.+++|+..|+...+.. +-++.++..+=.++...+  ....-..+.+++|...|++..+... -+..+|..+-.+
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P-~~~~a~~~lG~~   84 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP-KKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcc-hhhHHHhhHHHH
Confidence            345566899999999987653 234444544433443221  0000112267889999988876542 356777777777


Q ss_pred             HHhcCC-----------HHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 013497          111 AASKND-----------GDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGL  168 (442)
Q Consensus       111 ~~~~g~-----------~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~  168 (442)
                      |...|+           +++|.+.|+...   .+.|+..+|...+..+      .+|.+++.+..++|+
T Consensus        85 y~~~g~~~~~~~~~~~~~~~A~~~~~kal---~l~P~~~~~~~~L~~~------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          85 YTSFAFLTPDETEAKHNFDLATQFFQQAV---DEQPDNTHYLKSLEMT------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHH---HHCTTCHHHHHHHHHH------HTHHHHHHHHHHSSS
T ss_pred             HHHcccchhhHHHHHHhHHHhhhhhhccc---ccCCCHHHHHHHHHHH------HHHHHHHHHHHHHhc
Confidence            765443           456666666655   2466666555544443      355566666555543

>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=92.62  E-value=0.33  Score=38.47  Aligned_cols=141  Identities=9%  Similarity=-0.081  Sum_probs=85.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHH
Q 013497           25 NFLINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASV  104 (442)
Q Consensus        25 ~~~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty  104 (442)
                      .+.-.=..+.+.|++.+|+..|.+....               +-...    ..  ..+. ....+.+.       ..+|
T Consensus        17 ~~~e~G~~~~~~~~~~~A~~~Y~~al~~---------------~~~~~----~~--~~~~-~~~~~~~~-------~~~~   67 (168)
T d1kt1a1          17 IVKEKGTVYFKGGKYVQAVIQYGKIVSW---------------LEMEY----GL--SEKE-SKASESFL-------LAAF   67 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------HTTCC----SC--CHHH-HHHHHHHH-------HHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH---------------HHHhh----cc--chhh-hhhcchhH-------HHHH
Confidence            4555566788899999999999875421               10000    00  0111 11111111       3456


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHH
Q 013497          105 TSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQ-EIAALLKVSA  183 (442)
Q Consensus       105 ~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~-ty~~li~~~~  183 (442)
                      +.+-.+|.+.|++++|+..++... ... +.+..+|..+-.+|...|++++|.+.|+.....  .|+.. ....+-....
T Consensus        68 ~Nla~~~~~l~~~~~Ai~~~~~al-~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~~~~~l~~~~~  143 (168)
T d1kt1a1          68 LNLAMCYLKLREYTKAVECCDKAL-GLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQIFMCQK  143 (168)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH-HHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHH
T ss_pred             HhHHHHHHHhhhcccchhhhhhhh-hcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            777788889999999999998887 432 345677888888999999999999999998864  34443 3333333333


Q ss_pred             hcCCH-HHHHHHHHHH
Q 013497          184 ETGRV-EKVYQYLQKL  198 (442)
Q Consensus       184 ~~g~~-~~a~~ll~~m  198 (442)
                      +.+.. +...+++..|
T Consensus       144 ~~~~~~e~~kk~~~~~  159 (168)
T d1kt1a1         144 KAKEHNERDRRTYANM  159 (168)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHH
Confidence            33322 2334444444

>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=92.51  E-value=3.3  Score=36.67  Aligned_cols=104  Identities=8%  Similarity=0.110  Sum_probs=65.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHH
Q 013497           27 LINLQSCTKSKDLTTAISLYESAHSQNLRLSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTS  106 (442)
Q Consensus        27 ~~li~~~~k~g~~~~A~~lf~~m~~~g~~p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~  106 (442)
                      ..++..+.+.+++..|++++.+..      +..+|.-+...|....        ....     ..+.......+......
T Consensus        44 ~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~l~~~~--------e~~l-----a~i~~~~~~~~~d~l~~  104 (336)
T d1b89a_          44 GRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACVDGK--------EFRL-----AQMCGLHIVVHADELEE  104 (336)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHHHHHTT--------CHHH-----HHHTTTTTTTCHHHHHH
T ss_pred             HHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHHHHHhCc--------HHHH-----HHHHHHHhhcCHHHHHH
Confidence            346677777777777766665432      3456766666666654        2221     22333334455566677


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcC
Q 013497          107 VARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENL  151 (442)
Q Consensus       107 li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g  151 (442)
                      ++..|-..|.+++...+++... .. -.++...++-++..|++.+
T Consensus       105 ~v~~ye~~~~~e~Li~~Le~~~-~~-~~~~~~~~~~L~~lyak~~  147 (336)
T d1b89a_         105 LINYYQDRGYFEELITMLEAAL-GL-ERAHMGMFTELAILYSKFK  147 (336)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHT-TS-TTCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCChHHHHHHHHHHH-cC-CccchHHHHHHHHHHHHhC
Confidence            8888888888888888887655 22 1345566778888888765

>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=91.94  E-value=0.52  Score=36.33  Aligned_cols=114  Identities=7%  Similarity=-0.119  Sum_probs=71.6

Q ss_pred             CchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----------CCHHHHHHHHHHhHhhCCCCCC-cccHHHHHH
Q 013497           77 SKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASK----------NDGDYAFVLIKRMNNEFNVVPR-LRTYDPALF  145 (442)
Q Consensus        77 ~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~----------g~~~~A~~~~~~m~~~~g~~p~-~~ty~~li~  145 (442)
                      -+.+.+++|.+.|+...+.. +-|..++..+=.+|...          +.+++|...|++.. +  +.|+ ..+|..+=.
T Consensus         8 ~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl-~--l~P~~~~a~~~lG~   83 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEAL-L--IDPKKDEAVWCIGN   83 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHH-H--HCTTCHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHH-H--hcchhhHHHhhHHH
Confidence            34568999999999987764 33666777666666643          44578888888877 3  3453 456766666


Q ss_pred             HHHHcCC-----------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 013497          146 CFCENLE-----------AEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTV  202 (442)
Q Consensus       146 ~~~~~g~-----------~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~  202 (442)
                      +|...|+           +++|.+.|+...+  +.|+..+|..-+..+      .+|.+++.+..+.|
T Consensus        84 ~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~------~ka~~~~~e~~k~~  143 (145)
T d1zu2a1          84 AYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT------AKAPQLHAEAYKQG  143 (145)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH------HTHHHHHHHHHHSS
T ss_pred             HHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH------HHHHHHHHHHHHHh
Confidence            6665443           4566666666654  346655555444444      34555665555544

>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=91.02  E-value=2.7  Score=37.21  Aligned_cols=146  Identities=12%  Similarity=0.118  Sum_probs=94.2

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCC
Q 013497           56 LSLHHFNALLYLCSDSATDPSSKDSALRHGFRVFDQMLSNNVIPNEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVP  135 (442)
Q Consensus        56 p~~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p  135 (442)
                      ||..--..+...|.+.|        .++.|..+|..+.         -|.-++..+.+.+++..|.+++....       
T Consensus        12 ~n~~d~~~i~~~c~~~~--------lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~~-------   67 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEK--------MYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKAN-------   67 (336)
T ss_dssp             C------------------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHHT-------
T ss_pred             CCcCCHHHHHHHHHHCC--------CHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHcC-------
Confidence            44444444455676666        7888999998763         27788888899999999988886544       


Q ss_pred             CcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Q 013497          136 RLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSLEQQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIED  215 (442)
Q Consensus       136 ~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p~~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~  215 (442)
                      +..+|.-+...+.+.....-|     .+.......+......++..|-..|..++...+|...... -..+...++-++.
T Consensus        68 ~~~~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~  141 (336)
T d1b89a_          68 STRTWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAI  141 (336)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHH
Confidence            566888888888887766443     3334445567777788999999999999999988876432 3556677888888


Q ss_pred             HhccccCCCcccchhhHHHHHHh
Q 013497          216 WFSGQKVNGVSCDLGLVKNAVLK  238 (442)
Q Consensus       216 ~~~~~~~~~~~~~~~~~~~a~~~  238 (442)
                      .|  ++.     +..++.+-+..
T Consensus       142 ly--ak~-----~~~kl~e~l~~  157 (336)
T d1b89a_         142 LY--SKF-----KPQKMREHLEL  157 (336)
T ss_dssp             HH--HTT-----CHHHHHHHHHH
T ss_pred             HH--HHh-----ChHHHHHHHHh
Confidence            88  553     22455555443

>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=90.30  E-value=2.5  Score=32.41  Aligned_cols=95  Identities=14%  Similarity=0.070  Sum_probs=65.0

Q ss_pred             HHHHH--HHHHHhcCCHHHHHHHHHHHHh--CCCCCC----------HHHHHHHHHHHHhcCCCCCCchhhHHHHHHHHH
Q 013497           25 NFLIN--LQSCTKSKDLTTAISLYESAHS--QNLRLS----------LHHFNALLYLCSDSATDPSSKDSALRHGFRVFD   90 (442)
Q Consensus        25 ~~~~l--i~~~~k~g~~~~A~~lf~~m~~--~g~~p~----------~~ty~~ll~~~~~~~~~~~~~~~~~~~a~~l~~   90 (442)
                      +|..+  -..+.+.|++++|+..|.+..+  ... |+          ...|+.+-.++...|        ++++|.+-++
T Consensus         9 a~~~l~~g~~~~~~g~y~~Ai~~y~~Al~i~~~~-~~~~~~~~~~~~a~~~~nlg~~~~~lg--------~~~~A~~~~~   79 (156)
T d2hr2a1           9 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTM-PPEEAFDHAGFDAFCHAGLAEALAGLR--------SFDEALHSAD   79 (156)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTS-CTTSCCCHHHHHHHHHHHHHHHHHHTT--------CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhChhh-hhhhhcccchhHHHHHHHHHHHHHHcC--------ccchhhHhhh
Confidence            67766  4556678999999999999764  221 21          355666655677777        8999888888


Q ss_pred             HHHhC-----CCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHhH
Q 013497           91 QMLSN-----NVIPN-----EASVTSVARLAASKNDGDYAFVLIKRMN  128 (442)
Q Consensus        91 ~M~~~-----g~~p~-----~~ty~~li~~~~~~g~~~~A~~~~~~m~  128 (442)
                      +....     ...++     ..+|+.+-.+|...|++++|+..|++..
T Consensus        80 ~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          80 KALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            76541     12222     2245666778888888888888888754

>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=81.95  E-value=7.8  Score=28.47  Aligned_cols=16  Identities=44%  Similarity=0.522  Sum_probs=9.6

Q ss_pred             CHHHHHHHHHHHHhCC
Q 013497           38 DLTTAISLYESAHSQN   53 (442)
Q Consensus        38 ~~~~A~~lf~~m~~~g   53 (442)
                      |.++|++.|.+..+.|
T Consensus         8 d~~~A~~~~~kaa~~g   23 (133)
T d1klxa_           8 DLKKAIQYYVKACELN   23 (133)
T ss_dssp             HHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHCC
Confidence            4556666666655555

>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=81.04  E-value=6.1  Score=27.18  Aligned_cols=60  Identities=8%  Similarity=0.078  Sum_probs=34.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhHhhC----CCCCC-cccHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 013497          107 VARLAASKNDGDYAFVLIKRMNNEF----NVVPR-LRTYDPALFCFCENLEAEKAYEVEEHMGLM  166 (442)
Q Consensus       107 li~~~~~~g~~~~A~~~~~~m~~~~----g~~p~-~~ty~~li~~~~~~g~~~~A~~l~~~M~~~  166 (442)
                      +=..+.+.|++++|...|++..+..    ...++ ..+++.|-.+|.+.|++++|.+.+++..+.
T Consensus        11 lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_          11 LGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3445566777777777776654110    00111 234666666777777777777777776654

>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=80.81  E-value=4.1  Score=28.16  Aligned_cols=63  Identities=10%  Similarity=-0.092  Sum_probs=48.7

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHC-----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCh
Q 013497          143 ALFCFCENLEAEKAYEVEEHMGLM-----GLSLE-QQEIAALLKVSAETGRVEKVYQYLQKLRSTVRCVNE  207 (442)
Q Consensus       143 li~~~~~~g~~~~A~~l~~~M~~~-----g~~p~-~~ty~~li~~~~~~g~~~~a~~ll~~m~~~~~~p~~  207 (442)
                      +=..+.+.|++++|...|++..+.     ...++ ..+|+.|-.++.+.|++++|...+++..+.  .|+.
T Consensus        11 lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l--~P~~   79 (95)
T d1tjca_          11 LGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL--DPEH   79 (95)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh--CcCC
Confidence            345677999999999999887543     12223 567889999999999999999999998765  4654

>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=80.20  E-value=3.4  Score=38.60  Aligned_cols=112  Identities=6%  Similarity=-0.042  Sum_probs=56.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhHhhCCCCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHHHHH
Q 013497          100 NEASVTSVARLAASKNDGDYAFVLIKRMNNEFNVVPRLRTYDPALFCFCENLEAEKAYEVEEHMGLMGLSL-EQQEIAAL  178 (442)
Q Consensus       100 ~~~ty~~li~~~~~~g~~~~A~~~~~~m~~~~g~~p~~~ty~~li~~~~~~g~~~~A~~l~~~M~~~g~~p-~~~ty~~l  178 (442)
                      +...+..+-..+.+.|+.++|...+.... ..  .| ..++..+=..+...|++++|...|++..+.  .| +...|+.|
T Consensus       119 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al-~~--~~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~L  192 (497)
T d1ya0a1         119 CRVKSSQLGIISNKQTHTSAIVKPQSSSC-SY--IC-QHCLVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQL  192 (497)
T ss_dssp             ------------------------CCHHH-HH--HH-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHH
T ss_pred             hHHHHHHhHHHHHhCCCHHHHHHHHHHHh-CC--CH-HHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHH
Confidence            44555666666677777777776665543 21  11 245556666777778888888887776654  23 34677777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhccCCCChHHHHHHHHHhc
Q 013497          179 LKVSAETGRVEKVYQYLQKLRSTVRCVNEETGKIIEDWFS  218 (442)
Q Consensus       179 i~~~~~~g~~~~a~~ll~~m~~~~~~p~~~t~~~li~~~~  218 (442)
                      -..+...|+..+|...|.+-... ..|-+..+..|...|.
T Consensus       193 g~~~~~~~~~~~A~~~y~ral~~-~~~~~~a~~nL~~~~~  231 (497)
T d1ya0a1         193 AILASSKGDHLTTIFYYCRSIAV-KFPFPAASTNLQKALS  231 (497)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHSS-SBCCHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhC-CCCCHHHHHHHHHHHH
Confidence            77777788888887777666543 2455666677776663