Citrus Sinensis ID: 047393

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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---
Protein Sequence
LKLCSLISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGMYVGCWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKELGFVLNRSLYQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSCKDAYGSQSRIL
Secondary Structure (PSIPRED)
cccccccccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHccccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHcccccHHHHHHHHHHHcHHHccccccccHHHHHHHHHHccccHHHHHHHHHccccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccEEEEccEEEEEEccccccHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHccccccccEEEEcccccccHHHHHHHHHHHHcccEEEEEcccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHcHcHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEEEEcccEEEEEEEcccccccHHHHHHHHHHHHHHccccccccEHHHHHHHHHHHHHcccccccEEEEEEcEEcccHHHHHHHHHHHcccEEEEEcccccEccccccccccccHccHHHcc
Coil and Loop (DISEMBL)
lklcslisdveIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMtkrglishpavgncLINInsrcgkiddadlafkstpeknslSWTFIISARvnhghpsealdlfkdkqwrytsmnptTFRSALKAYALMGLVGEAYRLFLSMEevyhiepseeHYSIMVEALGRAGMFEEVLEFIKgivpgklcpLIWRTLLLSSRVHGDMKLAKYALDKLleldpgmyvGCWIEIQNKIYEFvsneeltsevSDKLAEIEENMKELGFVLNRSLYQTKMKAVALGLisfphgmptrviksvgmcgyshsaCRFMSTIIERElvvkdpgsfhhfkdgkcsckdaygsqsril
Flexible Loop (DISEMBL)
LKLCSLISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGMYVGCWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKELGFVLNRSLYQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGsfhhfkdgkcsckdaygsqsril
Low Complexity Region (SEG)
LKLCSLISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGMYVGCWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKELGFVLNRSLYQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSCKDAYGSQSRIL
Disordered region (IsUnstruct)
**LCSLISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGMYVGCWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKELGFVLNRSLYQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSC***********
Disordered Region (DISOPRED)
LKLCS*ISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGMYVGCWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKELGFVLNRSLYQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSCKDAYGSQSRIL
Disordered Region (DISEMBL)
LKLCSLISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGMYVGCWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKELGFVLNRSLYQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSCK**********
Disordered Region (DISPRO)
LKLCSLISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGMYVGCWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKELGFVLNRSLYQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSCKDAYGSQS***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
LKLCSLISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGMYVGCWIEIQNKIYEFVSxxxxxxxxxxxxxxxxxxxxxLGFVLNRSLYQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSCKDAYGSQSRIL
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	373	2.2.26 [Sep-21-2011]
Q5G1T1	850	Pentatricopeptide repeat-	yes	no	0.949	0.416	0.315	1e-49
Q9SMZ2	990	Pentatricopeptide repeat-	no	no	0.946	0.356	0.306	4e-47
Q9LTF4	588	Putative pentatricopeptid	no	no	0.860	0.545	0.319	4e-47
Q9SY02	781	Pentatricopeptide repeat-	no	no	0.868	0.414	0.309	7e-46
Q9LNU6	760	Pentatricopeptide repeat-	no	no	0.946	0.464	0.286	6e-45
Q9SVP7	1064	Pentatricopeptide repeat-	no	no	0.949	0.332	0.296	9e-45
A8MQA3	595	Pentatricopeptide repeat-	no	no	0.857	0.537	0.307	2e-44
Q9STF3	657	Pentatricopeptide repeat-	no	no	0.855	0.485	0.305	6e-44
Q0WSH6	684	Pentatricopeptide repeat-	no	no	0.949	0.517	0.297	2e-43
Q9LW63	715	Putative pentatricopeptid	no	no	0.938	0.489	0.288	1e-42

>sp|Q5G1T1|PP272_ARATH Pentatricopeptide repeat-containing protein At3g49170, chloroplastic OS=Arabidopsis thaliana GN=EMB2261 PE=2 SV=1

 Score =  197 bits (501), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 130/412 (31%), Positives = 197/412 (47%), Gaps = 58/412 (14%)

Query: 12  IPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAY 71
           + +N  L    +  ++E   +LL  I      + +++   +L+   N   +  G Q  + 
Sbjct: 440 VSYNTFLDGTCRNLNFEQAFKLLSEITERELGVSAFTFASLLSGVANVGSIRKGEQIHSQ 499

Query: 72  MTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEA 131
           + K GL  +  V N LI++ S+CG ID A   F     +N +SWT +I+    HG     
Sbjct: 500 VVKLGLSCNQPVCNALISMYSKCGSIDTASRVFNFMENRNVISWTSMITGFAKHGFAIRV 559

Query: 132 LDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE 191
           L+ F          N  T+ + L A + +GLV E +R F SM E + I+P  EHY+ MV+
Sbjct: 560 LETFNQMIEEGVKPNEVTYVAILSACSHVGLVSEGWRHFNSMYEDHKIKPKMEHYACMVD 619

Query: 192 ALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELD---PG 248
            L RAG+  +  EFI   +P +   L+WRT L + RVH + +L K A  K+LELD   P 
Sbjct: 620 LLCRAGLLTDAFEFIN-TMPFQADVLVWRTFLGACRVHSNTELGKLAARKILELDPNEPA 678

Query: 249 MYV-------------------------------GC-WIEIQNKIYEFVSNEEL---TSE 273
            Y+                               GC WIE+ +KI++F   +       +
Sbjct: 679 AYIQLSNIYACAGKWEESTEMRRKMKERNLVKEGGCSWIEVGDKIHKFYVGDTAHPNAHQ 738

Query: 274 VSDKLAEIEENMKELGFVLN------------------RSLYQTKMK-AVALGLISFPHG 314
           + D+L  +   +K  G+V +                  R LYQ   K AVA GLIS    
Sbjct: 739 IYDELDRLITEIKRCGYVPDTDLVLHKLEEENDEAEKERLLYQHSEKIAVAFGLISTSKS 798

Query: 315 MPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSCKDAY 366
            P RV K++ +CG  H+A +++ST+  RE+V++D   FHHFKDGKCSC D +
Sbjct: 799 RPVRVFKNLRVCGDCHNAMKYISTVSGREIVLRDLNRFHHFKDGKCSCNDYW 850

May play a role in embryogenesis.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9SMZ2|PP347_ARATH Pentatricopeptide repeat-containing protein At4g33170 OS=Arabidopsis thaliana GN=PCMP-H53 PE=3 SV=1

 Score =  189 bits (479), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 126/411 (30%), Positives = 195/411 (47%), Gaps = 58/411 (14%)

Query: 11  EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDIL--NSCLNPILLNVGTQA 68
           ++ W  ++  CI+  + E    +  +++L     D ++I  +   +SCL    L  G Q 
Sbjct: 583 DVAWTTMISGCIENGEEERAFHVFSQMRLMGVLPDEFTIATLAKASSCLTA--LEQGRQI 640

Query: 69  QAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHP 128
            A   K    + P VG  L+++ ++CG IDDA   FK     N  +W  ++     HG  
Sbjct: 641 HANALKLNCTNDPFVGTSLVDMYAKCGSIDDAYCLFKRIEMMNITAWNAMLVGLAQHGEG 700

Query: 129 SEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSI 188
            E L LFK  +      +  TF   L A +  GLV EAY+   SM   Y I+P  EHYS 
Sbjct: 701 KETLQLFKQMKSLGIKPDKVTFIGVLSACSHSGLVSEAYKHMRSMHGDYGIKPEIEHYSC 760

Query: 189 MVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDP- 247
           + +ALGRAG+ ++    I+ +   +    ++RTLL + RV GD +  K    KLLEL+P 
Sbjct: 761 LADALGRAGLVKQAENLIESM-SMEASASMYRTLLAACRVQGDTETGKRVATKLLELEPL 819

Query: 248 ---------GMYVGC-------------------------WIEIQNKIYEFVSNE---EL 270
                     MY                            WIE++NKI+ FV ++     
Sbjct: 820 DSSAYVLLSNMYAAASKWDEMKLARTMMKGHKVKKDPGFSWIEVKNKIHIFVVDDRSNRQ 879

Query: 271 TSEVSDKLAEIEENMKELGFV--------------LNRSLYQTKMK-AVALGLISFPHGM 315
           T  +  K+ ++  ++K+ G+V                R+LY    K AVA GL+S P   
Sbjct: 880 TELIYRKVKDMIRDIKQEGYVPETDFTLVDVEEEEKERALYYHSEKLAVAFGLLSTPPST 939

Query: 316 PTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSCKDAY 366
           P RVIK++ +CG  H+A ++++ +  RE+V++D   FH FKDG CSC D +
Sbjct: 940 PIRVIKNLRVCGDCHNAMKYIAKVYNREIVLRDANRFHRFKDGICSCGDYW 990

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LTF4|PP429_ARATH Putative pentatricopeptide repeat-containing protein At5g52630 OS=Arabidopsis thaliana GN=PCMP-H52 PE=3 SV=1

 Score =  188 bits (478), Expect = 4e-47,   Method: Compositional matrix adjust.
 Identities = 120/376 (31%), Positives = 185/376 (49%), Gaps = 55/376 (14%)

Query: 44  IDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLA 103
           ++ YS   +++ C N  LL +G Q      K    S   VG+ L+++ S+CG  + A   
Sbjct: 215 VNDYSFSSVISVCANSTLLELGRQIHGLSIKSSFDSSSFVGSSLVSLYSKCGVPEGAYQV 274

Query: 104 FKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLV 163
           F   P KN   W  ++ A   H H  + ++LFK  +      N  TF + L A +  GLV
Sbjct: 275 FNEVPVKNLGIWNAMLKAYAQHSHTQKVIELFKRMKLSGMKPNFITFLNVLNACSHAGLV 334

Query: 164 GEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLL 223
            E    F  M+E   IEP+++HY+ +V+ LGRAG  +E LE I  + P      +W  LL
Sbjct: 335 DEGRYYFDQMKES-RIEPTDKHYASLVDMLGRAGRLQEALEVITNM-PIDPTESVWGALL 392

Query: 224 LSSRVHGDMKLAKYALDKLLELDP---GMYVG---------------------------- 252
            S  VH + +LA +A DK+ EL P   GM++                             
Sbjct: 393 TSCTVHKNTELAAFAADKVFELGPVSSGMHISLSNAYAADGRFEDAAKARKLLRDRGEKK 452

Query: 253 ----CWIEIQNKIYEFVSNE---ELTSEVSDKLAEIEENMKELGFVLNRSL--------- 296
                W+E +NK++ F + E   E + E+ +KLAE+ E M++ G++ + S          
Sbjct: 453 ETGLSWVEERNKVHTFAAGERRHEKSKEIYEKLAELGEEMEKAGYIADTSYVLREVDGDE 512

Query: 297 ------YQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPG 350
                 Y ++  A+A GLI+FP   P RV+K++ +CG  H+A +FMS    R ++V+D  
Sbjct: 513 KNQTIRYHSERLAIAFGLITFPADRPIRVMKNLRVCGDCHNAIKFMSVCTRRVIIVRDNN 572

Query: 351 SFHHFKDGKCSCKDAY 366
            FH F+DGKCSC D +
Sbjct: 573 RFHRFEDGKCSCNDYW 588

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SY02|PP301_ARATH Pentatricopeptide repeat-containing protein At4g02750 OS=Arabidopsis thaliana GN=PCMP-H24 PE=3 SV=1

 Score =  184 bits (468), Expect = 7e-46,   Method: Compositional matrix adjust.
 Identities = 117/378 (30%), Positives = 185/378 (48%), Gaps = 54/378 (14%)

Query: 42  GFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDAD 101
           G ++  S    L++C + + L +G Q    + K G  +   VGN L+ +  +CG I++A+
Sbjct: 405 GRLNRSSFSSALSTCADVVALELGKQLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEAN 464

Query: 102 LAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMG 161
             FK    K+ +SW  +I+    HG    AL  F+  +      +  T  + L A +  G
Sbjct: 465 DLFKEMAGKDIVSWNTMIAGYSRHGFGEVALRFFESMKREGLKPDDATMVAVLSACSHTG 524

Query: 162 LVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRT 221
           LV +  + F +M + Y + P+ +HY+ MV+ LGRAG+ E+    +K + P +    IW T
Sbjct: 525 LVDKGRQYFYTMTQDYGVMPNSQHYACMVDLLGRAGLLEDAHNLMKNM-PFEPDAAIWGT 583

Query: 222 LLLSSRVHGDMKLAKYALDKLLELDP---GMYV--------------------------- 251
           LL +SRVHG+ +LA+ A DK+  ++P   GMYV                           
Sbjct: 584 LLGASRVHGNTELAETAADKIFAMEPENSGMYVLLSNLYASSGRWGDVGKLRVRMRDKGV 643

Query: 252 -----GCWIEIQNKIYEFVSNEELTSEVSDKLAEIEE---NMKELGFVLNRSL------- 296
                  WIEIQNK + F   +E   E  +  A +EE    MK+ G+V   S+       
Sbjct: 644 KKVPGYSWIEIQNKTHTFSVGDEFHPEKDEIFAFLEELDLRMKKAGYVSKTSVVLHDVEE 703

Query: 297 --------YQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKD 348
                   Y ++  AVA G++    G P RVIK++ +C   H+A ++M+ I  R ++++D
Sbjct: 704 EEKERMVRYHSERLAVAYGIMRVSSGRPIRVIKNLRVCEDCHNAIKYMARITGRLIILRD 763

Query: 349 PGSFHHFKDGKCSCKDAY 366
              FHHFKDG CSC D +
Sbjct: 764 NNRFHHFKDGSCSCGDYW 781

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LNU6|PPR53_ARATH Pentatricopeptide repeat-containing protein At1g20230 OS=Arabidopsis thaliana GN=PCMP-H21 PE=2 SV=2

 Score =  181 bits (460), Expect = 6e-45,   Method: Compositional matrix adjust.
 Identities = 117/409 (28%), Positives = 199/409 (48%), Gaps = 56/409 (13%)

Query: 12  IPWNLLLKACIK-AKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQA 70
           + W  ++  C +  KD E + EL   +Q+     +  +I  +L +C N   L  G     
Sbjct: 354 VSWTSIIAGCAQNGKDIEAL-ELFREMQVAGVKPNHVTIPSMLPACGNIAALGHGRSTHG 412

Query: 71  YMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSE 130
           +  +  L+ +  VG+ LI++ ++CG+I+ + + F   P KN + W  +++    HG   E
Sbjct: 413 FAVRVHLLDNVHVGSALIDMYAKCGRINLSQIVFNMMPTKNLVCWNSLMNGFSMHGKAKE 472

Query: 131 ALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMV 190
            + +F+         +  +F S L A   +GL  E ++ F  M E Y I+P  EHYS MV
Sbjct: 473 VMSIFESLMRTRLKPDFISFTSLLSACGQVGLTDEGWKYFKMMSEEYGIKPRLEHYSCMV 532

Query: 191 EALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLEL---DP 247
             LGRAG  +E  + IK + P +    +W  LL S R+  ++ LA+ A +KL  L   +P
Sbjct: 533 NLLGRAGKLQEAYDLIKEM-PFEPDSCVWGALLNSCRLQNNVDLAEIAAEKLFHLEPENP 591

Query: 248 GMYV-------------------------------GC-WIEIQNKIYEFVSNEE---LTS 272
           G YV                               GC WI+++N++Y  ++ ++      
Sbjct: 592 GTYVLLSNIYAAKGMWTEVDSIRNKMESLGLKKNPGCSWIQVKNRVYTLLAGDKSHPQID 651

Query: 273 EVSDKLAEIEENMKELG------FVLNRSLYQTKMK---------AVALGLISFPHGMPT 317
           ++++K+ EI + M++ G      F L+    Q + +         AV  GL++ P G P 
Sbjct: 652 QITEKMDEISKEMRKSGHRPNLDFALHDVEEQEQEQMLWGHSEKLAVVFGLLNTPDGTPL 711

Query: 318 RVIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSCKDAY 366
           +VIK++ +CG  H+  +F+S+   RE+ ++D   FHHFKDG CSC D +
Sbjct: 712 QVIKNLRICGDCHAVIKFISSYAGREIFIRDTNRFHHFKDGICSCGDFW 760

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SVP7|PP307_ARATH Pentatricopeptide repeat-containing protein At4g13650 OS=Arabidopsis thaliana GN=PCMP-H42 PE=2 SV=2

 Score =  181 bits (459), Expect = 9e-45,   Method: Compositional matrix adjust.
 Identities = 121/408 (29%), Positives = 188/408 (46%), Gaps = 54/408 (13%)

Query: 12   IPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAY 71
            I WN L+    ++ + E    +  R+       ++++    + +      +  G Q  A 
Sbjct: 658  IAWNALVSGFQQSGNNEEALRVFVRMNREGIDNNNFTFGSAVKAASETANMKQGKQVHAV 717

Query: 72   MTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEA 131
            +TK G  S   V N LI++ ++CG I DA+  F     KN +SW  II+A   HG  SEA
Sbjct: 718  ITKTGYDSETEVCNALISMYAKCGSISDAEKQFLEVSTKNEVSWNAIINAYSKHGFGSEA 777

Query: 132  LDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE 191
            LD F          N  T    L A + +GLV +    F SM   Y + P  EHY  +V+
Sbjct: 778  LDSFDQMIHSNVRPNHVTLVGVLSACSHIGLVDKGIAYFESMNSEYGLSPKPEHYVCVVD 837

Query: 192  ALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDP---G 248
             L RAG+     EFI+ + P K   L+WRTLL +  VH +M++ ++A   LLEL+P    
Sbjct: 838  MLTRAGLLSRAKEFIQEM-PIKPDALVWRTLLSACVVHKNMEIGEFAAHHLLELEPEDSA 896

Query: 249  MYV--------------------------------GCWIEIQNKIYEFV---SNEELTSE 273
             YV                                  WIE++N I+ F     N  L  E
Sbjct: 897  TYVLLSNLYAVSKKWDARDLTRQKMKEKGVKKEPGQSWIEVKNSIHSFYVGDQNHPLADE 956

Query: 274  VSDKLAEIEENMKELGFV------LNRSLYQTKMK---------AVALGLISFPHGMPTR 318
            + +   ++ +   E+G+V      LN   ++ K           A++ GL+S P  +P  
Sbjct: 957  IHEYFQDLTKRASEIGYVQDCFSLLNELQHEQKDPIIFIHSEKLAISFGLLSLPATVPIN 1016

Query: 319  VIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSCKDAY 366
            V+K++ +C   H+  +F+S +  RE++V+D   FHHF+ G CSCKD +
Sbjct: 1017 VMKNLRVCNDCHAWIKFVSKVSNREIIVRDAYRFHHFEGGACSCKDYW 1064

Arabidopsis thaliana (taxid: 3702)

>sp|A8MQA3|PP330_ARATH Pentatricopeptide repeat-containing protein At4g21065 OS=Arabidopsis thaliana GN=PCMP-H28 PE=2 SV=2

 Score =  180 bits (456), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 116/377 (30%), Positives = 188/377 (49%), Gaps = 57/377 (15%)

Query: 45  DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAF 104
           D ++I  +L++C     L +G +   YM K GL  +    N L+++ +RCG++++A   F
Sbjct: 221 DGFTIVSLLSACAKIGALTLGKRVHVYMIKVGLTRNLHSSNVLLDLYARCGRVEEAKTLF 280

Query: 105 KSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNP--TTFRSALKAYALMGL 162
               +KNS+SWT +I     +G   EA++LFK  +     + P   TF   L A +  G+
Sbjct: 281 DEMVDKNSVSWTSLIVGLAVNGFGKEAIELFKYME-STEGLLPCEITFVGILYACSHCGM 339

Query: 163 VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTL 222
           V E +  F  M E Y IEP  EH+  MV+ L RAG  ++  E+IK + P +   +IWRTL
Sbjct: 340 VKEGFEYFRRMREEYKIEPRIEHFGCMVDLLARAGQVKKAYEYIKSM-PMQPNVVIWRTL 398

Query: 223 LLSSRVHGDMKLAKYALDKLLELDP---GMYV---------------------------- 251
           L +  VHGD  LA++A  ++L+L+P   G YV                            
Sbjct: 399 LGACTVHGDSDLAEFARIQILQLEPNHSGDYVLLSNMYASEQRWSDVQKIRKQMLRDGVK 458

Query: 252 ----GCWIEIQNKIYEFVSNEE---LTSEVSDKLAEIEENMKELGFVL------------ 292
                  +E+ N+++EF+  ++    +  +  KL E+   ++  G+V             
Sbjct: 459 KVPGHSLVEVGNRVHEFLMGDKSHPQSDAIYAKLKEMTGRLRSEGYVPQISNVYVDVEEE 518

Query: 293 ---NRSLYQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDP 349
              N  +Y ++  A+A  LIS P   P  V+K++ +C   H A + +S +  RE+VV+D 
Sbjct: 519 EKENAVVYHSEKIAIAFMLISTPERSPITVVKNLRVCADCHLAIKLVSKVYNREIVVRDR 578

Query: 350 GSFHHFKDGKCSCKDAY 366
             FHHFK+G CSC+D +
Sbjct: 579 SRFHHFKNGSCSCQDYW 595

Arabidopsis thaliana (taxid: 3702)

>sp|Q9STF3|PP265_ARATH Pentatricopeptide repeat-containing protein At3g46790, chloroplastic OS=Arabidopsis thaliana GN=CRR2 PE=2 SV=1

 Score =  178 bits (451), Expect = 6e-44,   Method: Compositional matrix adjust.
 Identities = 115/377 (30%), Positives = 190/377 (50%), Gaps = 58/377 (15%)

Query: 45  DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAF 104
           +S ++  +L +C +   L  G     Y+ +RGL S   V + L+ +  RCGK++     F
Sbjct: 284 NSVTMVSVLQACASLAALEQGKLIHGYILRRGLDSILPVISALVTMYGRCGKLEVGQRVF 343

Query: 105 KSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVG 164
               +++ +SW  +IS+   HG+  +A+ +F++      S  P TF S L A +  GLV 
Sbjct: 344 DRMHDRDVVSWNSLISSYGVHGYGKKAIQIFEEMLANGASPTPVTFVSVLGACSHEGLVE 403

Query: 165 EAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIV--PGKLCPLIWRTL 222
           E  RLF +M   + I+P  EHY+ MV+ LGRA   +E  + ++ +   PG   P +W +L
Sbjct: 404 EGKRLFETMWRDHGIKPQIEHYACMVDLLGRANRLDEAAKMVQDMRTEPG---PKVWGSL 460

Query: 223 LLSSRVHGDMKLAKYALDKLLELDP---GMYV---------------------------- 251
           L S R+HG+++LA+ A  +L  L+P   G YV                            
Sbjct: 461 LGSCRIHGNVELAERASRRLFALEPKNAGNYVLLADIYAEAQMWDEVKRVKKLLEHRGLQ 520

Query: 252 ----GCWIEIQNKIYEFVSNEE---LTSEVSDKLAEIEENMKELGFVLNRS--LYQTKMK 302
                CW+E++ K+Y FVS +E   L  ++   L ++ E+MKE G++      LY+ + +
Sbjct: 521 KLPGRCWMEVRRKMYSFVSVDEFNPLMEQIHAFLVKLAEDMKEKGYIPQTKGVLYELETE 580

Query: 303 -------------AVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDP 349
                        A+A GLI+   G P R+ K++ +C   H   +F+S  +E+E++V+D 
Sbjct: 581 EKERIVLGHSEKLALAFGLINTSKGEPIRITKNLRLCEDCHLFTKFISKFMEKEILVRDV 640

Query: 350 GSFHHFKDGKCSCKDAY 366
             FH FK+G CSC D +
Sbjct: 641 NRFHRFKNGVCSCGDYW 657

Required for the intergenic processing between chloroplast rsp7 and ndhB transcripts.

Arabidopsis thaliana (taxid: 3702)

>sp|Q0WSH6|PP312_ARATH Pentatricopeptide repeat-containing protein At4g14850 OS=Arabidopsis thaliana GN=LOI1 PE=1 SV=1

 Score =  177 bits (448), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 122/410 (29%), Positives = 192/410 (46%), Gaps = 56/410 (13%)

Query: 12  IPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAY 71
           + W  L+ A ++  + E    L  R +        + I  +L++C     L +G    A+
Sbjct: 276 VSWCSLVAAYVQNHEDEKASVLYLRSRKDIVETSDFMISSVLSACAGMAGLELGRSIHAH 335

Query: 72  MTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEA 131
             K  +     VG+ L+++  +CG I+D++ AF   PEKN ++   +I    + G    A
Sbjct: 336 AVKACVERTIFVGSALVDMYGKCGCIEDSEQAFDEMPEKNLVTRNSLIGGYAHQGQVDMA 395

Query: 132 LDLFKDKQWRYTSMNPT--TFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIM 189
           L LF++   R     P   TF S L A +  G V    ++F SM   Y IEP  EHYS +
Sbjct: 396 LALFEEMAPRGCGPTPNYMTFVSLLSACSRAGAVENGMKIFDSMRSTYGIEPGAEHYSCI 455

Query: 190 VEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDP-- 247
           V+ LGRAGM E   EFIK + P +    +W  L  + R+HG  +L   A + L +LDP  
Sbjct: 456 VDMLGRAGMVERAYEFIKKM-PIQPTISVWGALQNACRMHGKPQLGLLAAENLFKLDPKD 514

Query: 248 ------------------------------GMYVGC---WIEIQNKIYEFVSNEE---LT 271
                                         G+  G    WI ++N+++ F + +    L 
Sbjct: 515 SGNHVLLSNTFAAAGRWAEANTVREELKGVGIKKGAGYSWITVKNQVHAFQAKDRSHILN 574

Query: 272 SEVSDKLAEIEENMKELGFV--LNRSLY-------------QTKMKAVALGLISFPHGMP 316
            E+   LA++   M+  G+   L  SLY              ++  A+A GL+S P  +P
Sbjct: 575 KEIQTTLAKLRNEMEAAGYKPDLKLSLYDLEEEEKAAEVSHHSEKLALAFGLLSLPLSVP 634

Query: 317 TRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSCKDAY 366
            R+ K++ +CG  HS  +F+S  ++RE++V+D   FH FKDG CSCKD +
Sbjct: 635 IRITKNLRICGDCHSFFKFVSGSVKREIIVRDNNRFHRFKDGICSCKDYW 684

Acts as a regulatory factor of isoprenoid biosynthesis. Could bind RNA.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LW63|PP251_ARATH Putative pentatricopeptide repeat-containing protein At3g23330 OS=Arabidopsis thaliana GN=PCMP-H32 PE=3 SV=1

 Score =  174 bits (440), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 119/412 (28%), Positives = 192/412 (46%), Gaps = 62/412 (15%)

Query: 12  IPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAY 71
           I WN L+   ++   Y     L  ++        + +   ++ +C +   L++G Q   Y
Sbjct: 309 ISWNSLVAGYVQNGRYNEALRLFRQMVTAKVKPGAVAFSSVIPACAHLATLHLGKQLHGY 368

Query: 72  MTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEA 131
           + + G  S+  + + L+++ S+CG I  A   F      + +SWT II     HGH  EA
Sbjct: 369 VLRGGFGSNIFIASALVDMYSKCGNIKAARKIFDRMNVLDEVSWTAIIMGHALHGHGHEA 428

Query: 132 LDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE 191
           + LF++ + +    N   F + L A + +GLV EA+  F SM +VY +    EHY+ + +
Sbjct: 429 VSLFEEMKRQGVKPNQVAFVAVLTACSHVGLVDEAWGYFNSMTKVYGLNQELEHYAAVAD 488

Query: 192 ALGRAGMFEEVLEFIKGIVPGKLC--PL--IWRTLLLSSRVHGDMKLAKYALDKLLELDP 247
            LGRAG  EE   FI      K+C  P   +W TLL S  VH +++LA+   +K+  +D 
Sbjct: 489 LLGRAGKLEEAYNFI-----SKMCVEPTGSVWSTLLSSCSVHKNLELAEKVAEKIFTVDS 543

Query: 248 ---GMYV-------------------------------GC-WIEIQNKIYEFVSNEE--- 269
              G YV                                C WIE++NK + FVS +    
Sbjct: 544 ENMGAYVLMCNMYASNGRWKEMAKLRLRMRKKGLRKKPACSWIEMKNKTHGFVSGDRSHP 603

Query: 270 LTSEVSDKLAEIEENMKELGFVLNRS---------------LYQTKMKAVALGLISFPHG 314
              ++++ L  + E M++ G+V + S                  ++  AVA G+I+   G
Sbjct: 604 SMDKINEFLKAVMEQMEKEGYVADTSGVLHDVDEEHKRELLFGHSERLAVAFGIINTEPG 663

Query: 315 MPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSCKDAY 366
              RV K++ +C   H A +F+S I ERE++V+D   FHHF  G CSC D +
Sbjct: 664 TTIRVTKNIRICTDCHVAIKFISKITEREIIVRDNSRFHHFNRGNCSCGDYW 715

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	373
296084954	930	unnamed protein product [Vitis vinifera]	0.981	0.393	0.565	1e-128
225436291	906	PREDICTED: pentatricopeptide repeat-cont	0.981	0.403	0.565	1e-127
357149883	877	PREDICTED: pentatricopeptide repeat-cont	0.860	0.366	0.330	6e-53
297719939	877	Os01g0355000 [Oryza sativa Japonica Grou	0.860	0.366	0.341	1e-52
125570322	877	hypothetical protein OsJ_01713 [Oryza sa	0.860	0.366	0.341	2e-52
413922867	882	putative pentatricopeptide repeat family	0.860	0.363	0.322	5e-52
222641140	784	hypothetical protein OsJ_28537 [Oryza sa	0.860	0.409	0.330	8e-52
115478174	877	Os09g0251500 [Oryza sativa Japonica Grou	0.860	0.366	0.330	9e-52
326529685	879	predicted protein [Hordeum vulgare subsp	0.860	0.365	0.32	3e-50
449467092	849	PREDICTED: pentatricopeptide repeat-cont	0.949	0.416	0.313	2e-49

>gi|296084954|emb|CBI28363.3| unnamed protein product [Vitis vinifera]

 Score =  463 bits (1191), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 233/412 (56%), Positives = 285/412 (69%), Gaps = 46/412 (11%)

Query: 1   LKLCSLISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPI 60
           LKLCS+I D EI WN L++AC+ A+DYE++H+LL RIQ+  G +D  S CDI  SC +P+
Sbjct: 519 LKLCSMIPDSEISWNFLIRACLGAEDYEIIHKLLWRIQVSHGNLDPVSACDIFASCSSPV 578

Query: 61  LLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIIS 120
           LLNVGTQA AYMTKRGLISHP + N LI + S CGK D+A  AF   PEK++ SWT I+S
Sbjct: 579 LLNVGTQAHAYMTKRGLISHPTISNSLIQMYSACGKFDEAVQAFNLMPEKDTCSWTSILS 638

Query: 121 ARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIE 180
           ARV HGHPSEAL+L    +W+    + +TFRS L A A MGLV EA+RLF SM+EVY IE
Sbjct: 639 ARVEHGHPSEALNLISQMRWKNKPADQSTFRSVLNACAQMGLVDEAFRLFFSMKEVYGIE 698

Query: 181 PSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALD 240
           P EEHYS MVE LGRAGMFEEVL+FI G+   KL PLIWRTLL SSR+HG+MK+A+YA +
Sbjct: 699 PLEEHYSCMVEVLGRAGMFEEVLDFINGVPTFKLGPLIWRTLLSSSRIHGNMKVAQYAAE 758

Query: 241 KLLELDPGMYVG-------------------------------CWIEIQNKIYEFVSNEE 269
           KLLEL+P  +                                  WIEI+N+IYEF S+E 
Sbjct: 759 KLLELEPSDFSANLLLEQVLLTLGEWDNALKLKTKTKSMRASSSWIEIRNRIYEFASDEN 818

Query: 270 LTSEVSDKLAEIEENMKELGFVLNRS---------------LYQTKMKAVALGLISFPHG 314
              EVS KLAEIE  M+ELG+V +++               L+ T+MKA+A GLIS PHG
Sbjct: 819 PAKEVSAKLAEIEGKMEELGYVADKNHLLHNAEEEEYDGVGLHHTEMKALAFGLISLPHG 878

Query: 315 MPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSCKDAY 366
           MP RV+K+V MCG  HSAC+FMST +ERELVVKDP SFHHF+DGKCSC+D +
Sbjct: 879 MPVRVVKNVRMCGDCHSACKFMSTFLERELVVKDPYSFHHFRDGKCSCRDTW 930

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225436291|ref|XP_002269762.1| PREDICTED: pentatricopeptide repeat-containing protein At4g13650-like [Vitis vinifera]

 Score =  462 bits (1190), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 233/412 (56%), Positives = 285/412 (69%), Gaps = 46/412 (11%)

Query: 1   LKLCSLISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPI 60
           LKLCS+I D EI WN L++AC+ A+DYE++H+LL RIQ+  G +D  S CDI  SC +P+
Sbjct: 495 LKLCSMIPDSEISWNFLIRACLGAEDYEIIHKLLWRIQVSHGNLDPVSACDIFASCSSPV 554

Query: 61  LLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIIS 120
           LLNVGTQA AYMTKRGLISHP + N LI + S CGK D+A  AF   PEK++ SWT I+S
Sbjct: 555 LLNVGTQAHAYMTKRGLISHPTISNSLIQMYSACGKFDEAVQAFNLMPEKDTCSWTSILS 614

Query: 121 ARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIE 180
           ARV HGHPSEAL+L    +W+    + +TFRS L A A MGLV EA+RLF SM+EVY IE
Sbjct: 615 ARVEHGHPSEALNLISQMRWKNKPADQSTFRSVLNACAQMGLVDEAFRLFFSMKEVYGIE 674

Query: 181 PSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALD 240
           P EEHYS MVE LGRAGMFEEVL+FI G+   KL PLIWRTLL SSR+HG+MK+A+YA +
Sbjct: 675 PLEEHYSCMVEVLGRAGMFEEVLDFINGVPTFKLGPLIWRTLLSSSRIHGNMKVAQYAAE 734

Query: 241 KLLELDPGMYVG-------------------------------CWIEIQNKIYEFVSNEE 269
           KLLEL+P  +                                  WIEI+N+IYEF S+E 
Sbjct: 735 KLLELEPSDFSANLLLEQVLLTLGEWDNALKLKTKTKSMRASSSWIEIRNRIYEFASDEN 794

Query: 270 LTSEVSDKLAEIEENMKELGFVLNRS---------------LYQTKMKAVALGLISFPHG 314
              EVS KLAEIE  M+ELG+V +++               L+ T+MKA+A GLIS PHG
Sbjct: 795 PAKEVSAKLAEIEGKMEELGYVADKNHLLHNAEEEEYDGVGLHHTEMKALAFGLISLPHG 854

Query: 315 MPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSCKDAY 366
           MP RV+K+V MCG  HSAC+FMST +ERELVVKDP SFHHF+DGKCSC+D +
Sbjct: 855 MPVRVVKNVRMCGDCHSACKFMSTFLERELVVKDPYSFHHFRDGKCSCRDTW 906

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357149883|ref|XP_003575265.1| PREDICTED: pentatricopeptide repeat-containing protein At3g57430, chloroplastic-like [Brachypodium distachyon]

 Score =  214 bits (545), Expect = 6e-53,   Method: Compositional matrix adjust.
 Identities = 124/375 (33%), Positives = 192/375 (51%), Gaps = 54/375 (14%)

Query: 45  DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAF 104
           D + +  +LN+C +      G Q  A++ KR  +S    GN L+   ++CG I+DADLAF
Sbjct: 504 DPFVLSSLLNACASLSAYEQGKQVHAHLIKRQFMSDVFAGNALVYTYAKCGSIEDADLAF 563

Query: 105 KSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVG 164
              PEK  +SW+ +I     HGH   ALD+F      + S N  T  S L A    GLV 
Sbjct: 564 SGLPEKGVVSWSAMIGGLAQHGHGKRALDVFHRMVDEHISPNHITMTSVLCACNHAGLVD 623

Query: 165 EAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLL 224
           EA R F SM+E++ IE +EEHY+ M++ LGRAG  ++ +E +  + P +    +W  LL 
Sbjct: 624 EAKRYFNSMKEMFGIERTEEHYACMIDLLGRAGKLDDAMELVNSM-PFQTNAAVWGALLA 682

Query: 225 SSRVHGDMKLAKYALDKLLELDP----------------GMY------------------ 250
           +SRVH D +L + A +KL  L+P                GM+                  
Sbjct: 683 ASRVHRDPELGRLAAEKLFILEPEKSGTHVLLANTYASAGMWDDVAKVRKLMKDSKVKKE 742

Query: 251 -VGCWIEIQNKIYEFVSNEELTSEVSD---KLAEIEENMKELGFVLNRSL---------- 296
               W+E+++K++ F+  ++      D   KL E+ + M + G+V N  +          
Sbjct: 743 PAMSWVELKDKVHTFIVGDKSHPRARDIYAKLDELGDLMTKAGYVPNVEVDLHDVDKNEK 802

Query: 297 -----YQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGS 351
                + ++  AVA  LIS P G P RV K++ +C   H+A +F+S I+ RE++++D   
Sbjct: 803 ELLLSHHSERLAVAFALISTPAGAPIRVKKNLRICRDCHAAFKFISDIVSREIIIRDINR 862

Query: 352 FHHFKDGKCSCKDAY 366
           FHHF+DG CSC+D +
Sbjct: 863 FHHFRDGACSCRDYW 877

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297719939|ref|NP_001172331.1| Os01g0355000 [Oryza sativa Japonica Group] gi|53791352|dbj|BAD52598.1| pentatricopeptide (PPR) repeat-containing protein-like [Oryza sativa Japonica Group] gi|215768699|dbj|BAH00928.1| unnamed protein product [Oryza sativa Japonica Group] gi|255673214|dbj|BAH91061.1| Os01g0355000 [Oryza sativa Japonica Group]

 Score =  213 bits (541), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 128/375 (34%), Positives = 195/375 (52%), Gaps = 54/375 (14%)

Query: 45  DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAF 104
           D + +  +LN+C +      G Q  A++ KR  +S    GN L+   ++CG I+DA+LAF
Sbjct: 504 DPFVLSSLLNACASLSAYEQGKQVHAHLIKRQFMSDAFAGNALVYTYAKCGSIEDAELAF 563

Query: 105 KSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVG 164
            S PE+  +SW+ +I     HGH   AL+LF        + N  T  S L A    GLV 
Sbjct: 564 SSLPERGVVSWSAMIGGLAQHGHGKRALELFGRMVDEGINPNHITMTSVLCACNHAGLVD 623

Query: 165 EAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLL 224
           EA R F SM+E++ I+ +EEHYS M++ LGRAG  ++ +E +  + P +    IW  LL 
Sbjct: 624 EAKRYFNSMKEMFGIDRTEEHYSCMIDLLGRAGKLDDAMELVNSM-PFQANASIWGALLG 682

Query: 225 SSRVHGDMKLAKYALDKLLELDP----------------GMY------------------ 250
           +SRVH D +L K A +KL  L+P                GM+                  
Sbjct: 683 ASRVHKDPELGKLAAEKLFILEPEKSGTHVLLANTYASAGMWNEVAKVRKLMKDSNIKKE 742

Query: 251 -VGCWIEIQNKIYEFVSNEE---LTSEVSDKLAEIEENMKELGFV---------LNRS-- 295
               WIE+++K++ F+  ++   +T E+  KL E+ + M + GFV         L+RS  
Sbjct: 743 PAMSWIEVKDKVHTFIVGDKSHPMTKEIYAKLVELGDLMSKAGFVPNVDVDLHDLDRSEK 802

Query: 296 ----LYQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGS 351
                + ++  AVA  L+S P G P RV K++ +C   H A +F+S I+ RE++++D   
Sbjct: 803 ELLLSHHSERLAVAFALLSTPPGAPIRVKKNLRICRDCHVAFKFISKIVSREIIIRDINR 862

Query: 352 FHHFKDGKCSCKDAY 366
           FHHF+DG CSC D +
Sbjct: 863 FHHFRDGTCSCGDYW 877

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|125570322|gb|EAZ11837.1| hypothetical protein OsJ_01713 [Oryza sativa Japonica Group]

 Score =  213 bits (541), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 128/375 (34%), Positives = 195/375 (52%), Gaps = 54/375 (14%)

Query: 45  DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAF 104
           D + +  +LN+C +      G Q  A++ KR  +S    GN L+   ++CG I+DA+LAF
Sbjct: 504 DPFVLSSLLNACASLSAYEQGKQVHAHLIKRQFMSDAFAGNALVYTYAKCGSIEDAELAF 563

Query: 105 KSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVG 164
            S PE+  +SW+ +I     HGH   AL+LF        + N  T  S L A    GLV 
Sbjct: 564 SSLPERGVVSWSAMIGGLAQHGHGKRALELFGRMVDEGINPNHITMTSVLCACNHAGLVD 623

Query: 165 EAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLL 224
           EA R F SM+E++ I+ +EEHYS M++ LGRAG  ++ +E +  + P +    IW  LL 
Sbjct: 624 EAKRYFNSMKEMFGIDRTEEHYSCMIDLLGRAGKLDDAMELVNSM-PFQANASIWGALLG 682

Query: 225 SSRVHGDMKLAKYALDKLLELDP----------------GMY------------------ 250
           +SRVH D +L K A +KL  L+P                GM+                  
Sbjct: 683 ASRVHKDPELGKLAAEKLFILEPEKSGTHVLLANTYASAGMWNEVAKVRKLMKDSNIKKE 742

Query: 251 -VGCWIEIQNKIYEFVSNEE---LTSEVSDKLAEIEENMKELGFV---------LNRS-- 295
               WIE+++K++ F+  ++   +T E+  KL E+ + M + GFV         L+RS  
Sbjct: 743 PAMSWIEVKDKVHTFIVGDKSHPMTKEIYAKLVELGDLMSKAGFVPNVDVDLHDLDRSEK 802

Query: 296 ----LYQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGS 351
                + ++  AVA  L+S P G P RV K++ +C   H A +F+S I+ RE++++D   
Sbjct: 803 ELLLSHHSERLAVAFALLSTPPGAPIRVKKNLRICRDCHVAFKFISKIVSREIIIRDINR 862

Query: 352 FHHFKDGKCSCKDAY 366
           FHHF+DG CSC D +
Sbjct: 863 FHHFRDGTCSCGDYW 877

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|413922867|gb|AFW62799.1| putative pentatricopeptide repeat family protein [Zea mays]

 Score =  211 bits (537), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 121/375 (32%), Positives = 191/375 (50%), Gaps = 54/375 (14%)

Query: 45  DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAF 104
           DS+ +  +LN+C +      G Q  A++ KR   S    GN L+   ++CG I+DAD+AF
Sbjct: 509 DSFVLSSLLNACTSLSAYEQGKQVHAHLIKRQFTSDVFAGNALVYAYAKCGSIEDADMAF 568

Query: 105 KSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVG 164
              PE+  +SW+ +I     HGH   ALDLF        + N  T  S L A    GLV 
Sbjct: 569 SGLPERGIVSWSAMIGGLAQHGHGKRALDLFHRMLDEGVAPNHITLTSVLSACNHAGLVD 628

Query: 165 EAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLL 224
           +A + F SM+E + I+ +EEHY+ M++ LGRAG  E+ +E +  + P +    +W  LL 
Sbjct: 629 DAKKYFESMKETFGIDRTEEHYACMIDILGRAGKLEDAMELVNNM-PFQANAAVWGALLG 687

Query: 225 SSRVHGDMKLAKYALDKLLELDP----------------GMY------------------ 250
           +SRVH D +L + A +KL  L+P                GM+                  
Sbjct: 688 ASRVHRDPELGRMAAEKLFTLEPEKSGTHVLLANTYASAGMWDEMAKVRKLMKDSNVKKE 747

Query: 251 -VGCWIEIQNKIYEFVSNEE---LTSEVSDKLAEIEENMKELGFVLNRSL---------- 296
               W+EI++K++ F+  ++   +T ++  KLAE+ + M + G+V N  +          
Sbjct: 748 PAMSWVEIKDKVHTFIVGDKSHPMTRDIYGKLAELGDLMNKAGYVPNVEVDLHDVDRSEK 807

Query: 297 -----YQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGS 351
                + ++  AVA  LIS P G P RV K++ +C   H A +++S I+ RE++++D   
Sbjct: 808 ELLLSHHSERLAVAFALISTPSGAPIRVKKNLRICRDCHVAFKYISKIVSREIIIRDINR 867

Query: 352 FHHFKDGKCSCKDAY 366
           FHHF +G CSC D +
Sbjct: 868 FHHFTNGTCSCGDYW 882

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|222641140|gb|EEE69272.1| hypothetical protein OsJ_28537 [Oryza sativa Japonica Group]

 Score =  210 bits (535), Expect = 8e-52,   Method: Compositional matrix adjust.
 Identities = 124/375 (33%), Positives = 195/375 (52%), Gaps = 54/375 (14%)

Query: 45  DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAF 104
           D + +  +LN+C +      G Q  A++ KR  +S    GN L+   ++CG I+DA+LAF
Sbjct: 411 DPFVLSSLLNACASLSAYEQGKQVHAHLIKRQFMSDAFAGNALVYTYAKCGSIEDAELAF 470

Query: 105 KSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVG 164
            S PE+  +SW+ +I     HGH   AL+LF        + N  T  S L A    GLV 
Sbjct: 471 SSLPERGVVSWSAMIGGLAQHGHGKRALELFGRMVDEGINPNHITMTSVLCACNHAGLVD 530

Query: 165 EAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLL 224
           EA R F SM+E++ I+ +EEHYS M++ LGRAG  ++ +E +  + P +    +W  LL 
Sbjct: 531 EAKRYFNSMKEMFGIDRTEEHYSCMIDLLGRAGKLDDAMELVNSM-PFQANASVWGALLG 589

Query: 225 SSRVHGDMKLAKYALDKLLELDP----------------GMY------------------ 250
           +SRVH D +L K A +KL  L+P                GM+                  
Sbjct: 590 ASRVHKDPELGKLAAEKLFILEPEKSGTHVLLANTYASSGMWNEVAKVRKLMKDSNIKKE 649

Query: 251 -VGCWIEIQNKIYEFVSNEE---LTSEVSDKLAEIEENMKELGFV---------LNRS-- 295
               W+E+++K++ F+  ++   +T E+  KL E+ + M + G++         L+RS  
Sbjct: 650 PAMSWVEVKDKVHTFIVGDKSHPMTKEIYSKLDELGDLMSKAGYIPNVDVDLHDLDRSEK 709

Query: 296 ----LYQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGS 351
                + ++  AVA  L+S P G P RV K++ +C   H A +F+S I+ RE++++D   
Sbjct: 710 ELLLSHHSERLAVAFALLSTPPGAPIRVKKNLRICRDCHMAFKFISNIVSREIIIRDINR 769

Query: 352 FHHFKDGKCSCKDAY 366
           FHHF+DG CSC D +
Sbjct: 770 FHHFRDGTCSCGDYW 784

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115478174|ref|NP_001062682.1| Os09g0251500 [Oryza sativa Japonica Group] gi|47848472|dbj|BAD22327.1| pentatricopeptide (PPR) repeat-containing protein-like [Oryza sativa Japonica Group] gi|47848643|dbj|BAD22491.1| pentatricopeptide (PPR) repeat-containing protein-like [Oryza sativa Japonica Group] gi|113630915|dbj|BAF24596.1| Os09g0251500 [Oryza sativa Japonica Group] gi|215767397|dbj|BAG99625.1| unnamed protein product [Oryza sativa Japonica Group]

 Score =  210 bits (534), Expect = 9e-52,   Method: Compositional matrix adjust.
 Identities = 124/375 (33%), Positives = 195/375 (52%), Gaps = 54/375 (14%)

Query: 45  DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAF 104
           D + +  +LN+C +      G Q  A++ KR  +S    GN L+   ++CG I+DA+LAF
Sbjct: 504 DPFVLSSLLNACASLSAYEQGKQVHAHLIKRQFMSDAFAGNALVYTYAKCGSIEDAELAF 563

Query: 105 KSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVG 164
            S PE+  +SW+ +I     HGH   AL+LF        + N  T  S L A    GLV 
Sbjct: 564 SSLPERGVVSWSAMIGGLAQHGHGKRALELFGRMVDEGINPNHITMTSVLCACNHAGLVD 623

Query: 165 EAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLL 224
           EA R F SM+E++ I+ +EEHYS M++ LGRAG  ++ +E +  + P +    +W  LL 
Sbjct: 624 EAKRYFNSMKEMFGIDRTEEHYSCMIDLLGRAGKLDDAMELVNSM-PFQANASVWGALLG 682

Query: 225 SSRVHGDMKLAKYALDKLLELDP----------------GMY------------------ 250
           +SRVH D +L K A +KL  L+P                GM+                  
Sbjct: 683 ASRVHKDPELGKLAAEKLFILEPEKSGTHVLLANTYASSGMWNEVAKVRKLMKDSNIKKE 742

Query: 251 -VGCWIEIQNKIYEFVSNEE---LTSEVSDKLAEIEENMKELGFV---------LNRS-- 295
               W+E+++K++ F+  ++   +T E+  KL E+ + M + G++         L+RS  
Sbjct: 743 PAMSWVEVKDKVHTFIVGDKSHPMTKEIYSKLDELGDLMSKAGYIPNVDVDLHDLDRSEK 802

Query: 296 ----LYQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGS 351
                + ++  AVA  L+S P G P RV K++ +C   H A +F+S I+ RE++++D   
Sbjct: 803 ELLLSHHSERLAVAFALLSTPPGAPIRVKKNLRICRDCHMAFKFISNIVSREIIIRDINR 862

Query: 352 FHHFKDGKCSCKDAY 366
           FHHF+DG CSC D +
Sbjct: 863 FHHFRDGTCSCGDYW 877

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|326529685|dbj|BAK04789.1| predicted protein [Hordeum vulgare subsp. vulgare]

 Score =  205 bits (521), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 120/375 (32%), Positives = 188/375 (50%), Gaps = 54/375 (14%)

Query: 45  DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAF 104
           D + +  +LN+C +      G Q  A++ KR  ++    GN L+   ++CG I+DADLAF
Sbjct: 506 DPFVLSSLLNACASLSAYEQGKQVHAHLIKRKFMTDVFAGNALVYTYAKCGSIEDADLAF 565

Query: 105 KSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVG 164
              P+K  +SW+ +I     HGH   ALD+F+       + N  T  S L A    GLV 
Sbjct: 566 SGLPDKGVVSWSAMIGGLAQHGHGKRALDVFRRMVDERIAPNHITLTSVLCACNHAGLVD 625

Query: 165 EAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLL 224
           EA   F SM+E++ I+ +EEHYS M++ LGRAG  ++ +E +  + P +    +W  LL 
Sbjct: 626 EAKGYFSSMKEMFGIDRTEEHYSCMIDLLGRAGKLDDAMELVNSM-PFEANAAVWGALLA 684

Query: 225 SSRVHGDMKLAKYALDKLLELDP----------------GMY------------------ 250
           +SRVH D +L K A +KL  L+P                GM+                  
Sbjct: 685 ASRVHRDPELGKLAAEKLFVLEPEKSGTHVLLANTYASAGMWDEVAKVRKLMKDSKVKKE 744

Query: 251 -VGCWIEIQNKIYEFVSNEELTSEVSD---KLAEIEENMKELGFVLNRSL---------- 296
               W+E++++++ F+  ++      D   KL E+ + M + G+V N  +          
Sbjct: 745 PAMSWVELKDRVHTFIVGDKSHPRARDIYAKLEELGDLMSKAGYVPNLEVDLHDVDKSEK 804

Query: 297 -----YQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGS 351
                + ++  AVA  LIS P G P RV K++ +C   H A +F+S I+ RE++++D   
Sbjct: 805 ELLLSHHSERLAVAFALISTPAGAPIRVKKNLRICRDCHVAFKFISKIVSREIIIRDINR 864

Query: 352 FHHFKDGKCSCKDAY 366
           FHHF DG CSC D +
Sbjct: 865 FHHFSDGACSCGDYW 879

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449467092|ref|XP_004151259.1| PREDICTED: pentatricopeptide repeat-containing protein At3g49170, chloroplastic-like [Cucumis sativus]

 Score =  202 bits (513), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 128/408 (31%), Positives = 206/408 (50%), Gaps = 54/408 (13%)

Query: 12  IPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAY 71
           I +N ++ A  K  + E   EL   I+       +++   +L+   +   +  G Q  A 
Sbjct: 443 ISYNTVIDAYAKNLNSEEALELFNEIEDQGMGASAFTFASLLSGAASIGTIGKGEQIHAR 502

Query: 72  MTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEA 131
           + K GL  + +V N LI++ SRCG I+ A   F+   ++N +SWT II+    HG  ++A
Sbjct: 503 VIKSGLKLNQSVCNALISMYSRCGNIESAFQVFEDMEDRNVISWTSIITGFAKHGFATQA 562

Query: 132 LDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE 191
           L+LF          N  T+ + L A + +GLV E ++ F SM   + + P  EHY+ MV+
Sbjct: 563 LELFHKMLEEGVRPNLVTYIAVLSACSHVGLVNEGWKHFKSMYTEHGVIPRMEHYACMVD 622

Query: 192 ALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLEL---DPG 248
            LGR+G   E ++FI  + P K   L+WRT L + RVHG+++L K+A   ++E    DP 
Sbjct: 623 ILGRSGSLSEAIQFINSM-PYKADALVWRTFLGACRVHGNLELGKHAAKMIIEQEPHDPA 681

Query: 249 MYV-------------------------------GC-WIEIQNKIYEFV---SNEELTSE 273
            Y+                               GC W+E++NK+++F    ++    +E
Sbjct: 682 AYILLSNLYASTSKWDEVSNIRKAMKEKNLIKEAGCSWVEVENKVHKFYVGDTSHPKAAE 741

Query: 274 VSDKLAEIEENMKELGFVLN--------------RSLYQTKMK-AVALGLISFPHGMPTR 318
           + D+L  +   +K+LG+V N              + L+Q   K AVA GLIS     P R
Sbjct: 742 IYDELQNLSVKIKKLGYVPNLDFVLHDVEEEQKEKLLFQHSEKIAVAFGLISTSKMKPIR 801

Query: 319 VIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSCKDAY 366
           V K++ +CG  HSA +++S    RE++V+D   FHH KDG+CSC + +
Sbjct: 802 VFKNLRICGDCHSAIKYISMATGREIIVRDANRFHHIKDGRCSCNEYW 849

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	373
TAIR|locus:2082886	850	EMB2261 "embryo defective 2261	0.731	0.321	0.322	1e-51
TAIR|locus:4010713895	595	AT4G21065 "AT4G21065" [Arabido	0.597	0.374	0.344	6.1e-46
TAIR|locus:2149664	588	MEF1 "mitochondrial RNA editin	0.546	0.346	0.342	1.1e-45
TAIR|locus:2125899	990	AT4G33170 [Arabidopsis thalian	0.627	0.236	0.322	1.1e-44
TAIR|locus:2103483	890	OTP84 "ORGANELLE TRANSCRIPT PR	0.718	0.301	0.289	8.1e-42
TAIR|locus:2130354	722	AT4G14820 "AT4G14820" [Arabido	0.715	0.369	0.316	1e-41
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.643	0.275	0.297	1.8e-41
TAIR|locus:2060640	738	OTP81 "ORGANELLE TRANSCRIPT PR	0.694	0.350	0.298	2.4e-41
TAIR|locus:2198546	760	AT1G20230 "AT1G20230" [Arabido	0.756	0.371	0.296	2.6e-41
TAIR|locus:2140235	781	AT4G02750 [Arabidopsis thalian	0.560	0.267	0.328	6.2e-41

TAIR|locus:2082886 EMB2261 "embryo defective 2261" [Arabidopsis thaliana (taxid:3702)]

 Score = 350 (128.3 bits), Expect = 1.0e-51, Sum P(3) = 1.0e-51
 Identities = 90/279 (32%), Positives = 141/279 (50%)

Query:    12 IPWNLLLKACIKAKDYEMVHELLERI-QLCCGFIDSYSICDILNSCLNPILLNVGTQAQA 70
             + +N  L    +  ++E   +LL  I +   G + +++   +L+   N   +  G Q  +
Sbjct:   440 VSYNTFLDGTCRNLNFEQAFKLLSEITERELG-VSAFTFASLLSGVANVGSIRKGEQIHS 498

Query:    71 YMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSE 130
              + K GL  +  V N LI++ S+CG ID A   F     +N +SWT +I+    HG    
Sbjct:   499 QVVKLGLSCNQPVCNALISMYSKCGSIDTASRVFNFMENRNVISWTSMITGFAKHGFAIR 558

Query:   131 ALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMV 190
              L+ F          N  T+ + L A + +GLV E +R F SM E + I+P  EHY+ MV
Sbjct:   559 VLETFNQMIEEGVKPNEVTYVAILSACSHVGLVSEGWRHFNSMYEDHKIKPKMEHYACMV 618

Query:   191 EALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGMY 250
             + L RAG+  +  EFI   +P +   L+WRT L + RVH + +L K A  K+LELDP   
Sbjct:   619 DLLCRAGLLTDAFEFIN-TMPFQADVLVWRTFLGACRVHSNTELGKLAARKILELDPNE- 676

Query:   251 VGCWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKELG 289
                +I++ N IY      E ++E+  K+ E    +KE G
Sbjct:   677 PAAYIQLSN-IYACAGKWEESTEMRRKMKE-RNLVKEGG 713

GO:0009507 "chloroplast" evidence=ISM

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

TAIR|locus:4010713895 AT4G21065 "AT4G21065" [Arabidopsis thaliana (taxid:3702)]

 Score = 331 (121.6 bits), Expect = 6.1e-46, Sum P(2) = 6.1e-46
 Identities = 80/232 (34%), Positives = 131/232 (56%)

Query:    45 DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAF 104
             D ++I  +L++C     L +G +   YM K GL  +    N L+++ +RCG++++A   F
Sbjct:   221 DGFTIVSLLSACAKIGALTLGKRVHVYMIKVGLTRNLHSSNVLLDLYARCGRVEEAKTLF 280

Query:   105 KSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPT--TFRSALKAYALMGL 162
                 +KNS+SWT +I     +G   EA++LFK  +     + P   TF   L A +  G+
Sbjct:   281 DEMVDKNSVSWTSLIVGLAVNGFGKEAIELFKYME-STEGLLPCEITFVGILYACSHCGM 339

Query:   163 VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTL 222
             V E +  F  M E Y IEP  EH+  MV+ L RAG  ++  E+IK + P +   +IWRTL
Sbjct:   340 VKEGFEYFRRMREEYKIEPRIEHFGCMVDLLARAGQVKKAYEYIKSM-PMQPNVVIWRTL 398

Query:   223 LLSSRVHGDMKLAKYALDKLLELDPGMYVGCWIEIQNKIYEFVSNEELTSEV 274
             L +  VHGD  LA++A  ++L+L+P  + G ++ + N +Y   ++E+  S+V
Sbjct:   399 LGACTVHGDSDLAEFARIQILQLEPN-HSGDYVLLSN-MY---ASEQRWSDV 445

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2149664 MEF1 "mitochondrial RNA editing factor 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 308 (113.5 bits), Expect = 1.1e-45, Sum P(2) = 1.1e-45
 Identities = 73/213 (34%), Positives = 111/213 (52%)

Query:    44 IDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLA 103
             ++ YS   +++ C N  LL +G Q      K    S   VG+ L+++ S+CG  + A   
Sbjct:   215 VNDYSFSSVISVCANSTLLELGRQIHGLSIKSSFDSSSFVGSSLVSLYSKCGVPEGAYQV 274

Query:   104 FKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPT--TFRSALKAYALMG 161
             F   P KN   W  ++ A   H H  + ++LFK  + + + M P   TF + L A +  G
Sbjct:   275 FNEVPVKNLGIWNAMLKAYAQHSHTQKVIELFK--RMKLSGMKPNFITFLNVLNACSHAG 332

Query:   162 LVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRT 221
             LV E    F  M+E   IEP+++HY+ +V+ LGRAG  +E LE I  + P      +W  
Sbjct:   333 LVDEGRYYFDQMKES-RIEPTDKHYASLVDMLGRAGRLQEALEVITNM-PIDPTESVWGA 390

Query:   222 LLLSSRVHGDMKLAKYALDKLLELDP---GMYV 251
             LL S  VH + +LA +A DK+ EL P   GM++
Sbjct:   391 LLTSCTVHKNTELAAFAADKVFELGPVSSGMHI 423

GO:0005739 "mitochondrion" evidence=ISM

GO:0016554 "cytidine to uridine editing" evidence=IMP

TAIR|locus:2125899 AT4G33170 [Arabidopsis thaliana (taxid:3702)]

 Score = 320 (117.7 bits), Expect = 1.1e-44, Sum P(2) = 1.1e-44
 Identities = 77/239 (32%), Positives = 118/239 (49%)

Query:    11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDIL--NSCLNPILLNVGTQA 68
             ++ W  ++  CI+  + E    +  +++L     D ++I  +   +SCL    L  G Q 
Sbjct:   583 DVAWTTMISGCIENGEEERAFHVFSQMRLMGVLPDEFTIATLAKASSCLTA--LEQGRQI 640

Query:    69 QAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHP 128
              A   K    + P VG  L+++ ++CG IDDA   FK     N  +W  ++     HG  
Sbjct:   641 HANALKLNCTNDPFVGTSLVDMYAKCGSIDDAYCLFKRIEMMNITAWNAMLVGLAQHGEG 700

Query:   129 SEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSI 188
              E L LFK  +      +  TF   L A +  GLV EAY+   SM   Y I+P  EHYS 
Sbjct:   701 KETLQLFKQMKSLGIKPDKVTFIGVLSACSHSGLVSEAYKHMRSMHGDYGIKPEIEHYSC 760

Query:   189 MVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDP 247
             + +ALGRAG+ ++    I+ +   +    ++RTLL + RV GD +  K    KLLEL+P
Sbjct:   761 LADALGRAGLVKQAENLIESMSM-EASASMYRTLLAACRVQGDTETGKRVATKLLELEP 818

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2103483 OTP84 "ORGANELLE TRANSCRIPT PROCESSING 84" [Arabidopsis thaliana (taxid:3702)]

 Score = 325 (119.5 bits), Expect = 8.1e-42, Sum P(2) = 8.1e-42
 Identities = 84/290 (28%), Positives = 150/290 (51%)

Query:    12 IPWNLLLKACIKAKDYE----MVHEL--LER-IQLCCGFI----DSYSICDILNSCLNPI 60
             + WN ++   + ++ +E    ++H++  LER +      +    +S ++  IL SC    
Sbjct:   472 VTWNTMITGYVFSEHHEDALLLLHKMQNLERKVSKGASRVSLKPNSITLMTILPSCAALS 531

Query:    61 LLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIIS 120
              L  G +  AY  K  L +  AVG+ L+++ ++CG +  +   F   P+KN ++W  II 
Sbjct:   532 ALAKGKEIHAYAIKNNLATDVAVGSALVDMYAKCGCLQMSRKVFDQIPQKNVITWNVIIM 591

Query:   121 ARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIE 180
             A   HG+  EA+DL +    +    N  TF S   A +  G+V E  R+F  M+  Y +E
Sbjct:   592 AYGMHGNGQEAIDLLRMMMVQGVKPNEVTFISVFAACSHSGMVDEGLRIFYVMKPDYGVE 651

Query:   181 PSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPL-IWRTLLLSSRVHGDMKLAKYAL 239
             PS +HY+ +V+ LGRAG  +E  + +  ++P        W +LL +SR+H ++++ + A 
Sbjct:   652 PSSDHYACVVDLLGRAGRIKEAYQLMN-MMPRDFNKAGAWSSLLGASRIHNNLEIGEIAA 710

Query:   240 DKLLELDPGMYVGCWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKELG 289
               L++L+P +    ++ + N IY        ++ + DK  E+  NMKE G
Sbjct:   711 QNLIQLEPNV-ASHYVLLAN-IYS-------SAGLWDKATEVRRNMKEQG 751

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2130354 AT4G14820 "AT4G14820" [Arabidopsis thaliana (taxid:3702)]

 Score = 352 (129.0 bits), Expect = 1.0e-41, Sum P(2) = 1.0e-41
 Identities = 89/281 (31%), Positives = 148/281 (52%)

Query:    14 WNLLLKACIKAKDYEMVHELLERIQ-LCCGFI--DSYSICDILNSCLNPILLNVGTQAQA 70
             W  ++ A +++ DY    E L   + +CC  I  D  S+  ++++C N  +L+      +
Sbjct:   312 WTTMISAYVES-DYPQ--EALRVFEEMCCSGIKPDVVSMFSVISACANLGILDKAKWVHS 368

Query:    71 YMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSE 130
              +   GL S  ++ N LIN+ ++CG +D     F+  P +N +SW+ +I+A   HG  S+
Sbjct:   369 CIHVNGLESELSINNALINMYAKCGGLDATRDVFEKMPRRNVVSWSSMINALSMHGEASD 428

Query:   131 ALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMV 190
             AL LF   +      N  TF   L   +  GLV E  ++F SM + Y+I P  EHY  MV
Sbjct:   429 ALSLFARMKQENVEPNEVTFVGVLYGCSHSGLVEEGKKIFASMTDEYNITPKLEHYGCMV 488

Query:   191 EALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGMY 250
             +  GRA +  E LE I+ + P     +IW +L+ + R+HG+++L K+A  ++LEL+P  +
Sbjct:   489 DLFGRANLLREALEVIESM-PVASNVVIWGSLMSACRIHGELELGKFAAKRILELEPD-H 546

Query:   251 VGCWIEIQNKIYEFVSNEELTSEVSDKLAEIEEN--MKELG 289
              G  + + N IY   + E+   +V +    +EE    KE G
Sbjct:   547 DGALVLMSN-IY---AREQRWEDVRNIRRVMEEKNVFKEKG 583

GO:0003674 "molecular_function" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2124137 DOT4 "DEFECTIVELY ORGANIZED TRIBUTARIES 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 281 (104.0 bits), Expect = 1.8e-41, Sum P(3) = 1.8e-41
 Identities = 75/252 (29%), Positives = 122/252 (48%)

Query:     7 ISDVEIPWNLLL----KACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILL 62
             + D+ I WN ++    K C   +   + + LLE  +      D  ++  +L +C +    
Sbjct:   460 VKDI-ISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSP---DERTVACVLPACASLSAF 515

Query:    63 NVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISAR 122
             + G +   Y+ + G  S   V N L+++ ++CG +  A + F     K+ +SWT +I+  
Sbjct:   516 DKGREIHGYIMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVMIAGY 575

Query:   123 VNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS 182
               HG   EA+ LF   +      +  +F S L A +  GLV E +R F  M     IEP+
Sbjct:   576 GMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECKIEPT 635

Query:   183 EEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKL 242
              EHY+ +V+ L R G   +   FI+ + P      IW  LL   R+H D+KLA+   +K+
Sbjct:   636 VEHYACIVDMLARTGDLIKAYRFIENM-PIPPDATIWGALLCGCRIHHDVKLAEKVAEKV 694

Query:   243 LELDP---GMYV 251
              EL+P   G YV
Sbjct:   695 FELEPENTGYYV 706

GO:0009507 "chloroplast" evidence=ISM

GO:0010087 "phloem or xylem histogenesis" evidence=IMP

GO:0010305 "leaf vascular tissue pattern formation" evidence=IMP

GO:0010588 "cotyledon vascular tissue pattern formation" evidence=IMP

GO:0048366 "leaf development" evidence=IMP

TAIR|locus:2060640 OTP81 "ORGANELLE TRANSCRIPT PROCESSING 81" [Arabidopsis thaliana (taxid:3702)]

 Score = 301 (111.0 bits), Expect = 2.4e-41, Sum P(2) = 2.4e-41
 Identities = 79/265 (29%), Positives = 136/265 (51%)

Query:    12 IPWNLLLKACIK-AKDYEMVHELLERIQLCCGF-IDSYSICDILNSCLNPILLNVGTQAQ 69
             + WN L+ A  +  K  E +  +   +QL     ++  ++   L++C     L +G    
Sbjct:   330 VAWNALISAYEQNGKPNEALI-VFHELQLQKNMKLNQITLVSTLSACAQVGALELGRWIH 388

Query:    70 AYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPS 129
             +Y+ K G+  +  V + LI++ S+CG ++ +   F S  +++   W+ +I     HG  +
Sbjct:   389 SYIKKHGIRMNFHVTSALIHMYSKCGDLEKSREVFNSVEKRDVFVWSAMIGGLAMHGCGN 448

Query:   130 EALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIM 189
             EA+D+F   Q      N  TF +   A +  GLV EA  LF  ME  Y I P E+HY+ +
Sbjct:   449 EAVDMFYKMQEANVKPNGVTFTNVFCACSHTGLVDEAESLFHQMESNYGIVPEEKHYACI 508

Query:   190 VEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM 249
             V+ LGR+G  E+ ++FI+ + P      +W  LL + ++H ++ LA+ A  +LLEL+P  
Sbjct:   509 VDVLGRSGYLEKAVKFIEAM-PIPPSTSVWGALLGACKIHANLNLAEMACTRLLELEP-R 566

Query:   250 YVGCWIEIQNKIYEFVSNEELTSEV 274
               G  + + N IY  +   E  SE+
Sbjct:   567 NDGAHVLLSN-IYAKLGKWENVSEL 590

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2198546 AT1G20230 "AT1G20230" [Arabidopsis thaliana (taxid:3702)]

 Score = 306 (112.8 bits), Expect = 2.6e-41, Sum P(2) = 2.6e-41
 Identities = 89/300 (29%), Positives = 146/300 (48%)

Query:    12 IPWNLLLKACIK-AKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQA 70
             + W  ++  C +  KD E + EL   +Q+     +  +I  +L +C N   L  G     
Sbjct:   354 VSWTSIIAGCAQNGKDIEAL-ELFREMQVAGVKPNHVTIPSMLPACGNIAALGHGRSTHG 412

Query:    71 YMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSE 130
             +  +  L+ +  VG+ LI++ ++CG+I+ + + F   P KN + W  +++    HG   E
Sbjct:   413 FAVRVHLLDNVHVGSALIDMYAKCGRINLSQIVFNMMPTKNLVCWNSLMNGFSMHGKAKE 472

Query:   131 ALDLFKDKQWRYTSMNPT--TFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSI 188
              + +F+    R T + P   +F S L A   +GL  E ++ F  M E Y I+P  EHYS 
Sbjct:   473 VMSIFESLM-R-TRLKPDFISFTSLLSACGQVGLTDEGWKYFKMMSEEYGIKPRLEHYSC 530

Query:   189 MVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPG 248
             MV  LGRAG  +E  + IK + P +    +W  LL S R+  ++ LA+ A +KL  L+P 
Sbjct:   531 MVNLLGRAGKLQEAYDLIKEM-PFEPDSCVWGALLNSCRLQNNVDLAEIAAEKLFHLEPE 589

Query:   249 MYVGCWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKELGFVLNR--SLYQTKMKAVAL 306
                G ++ + N IY   + + + +EV      I   M+ LG   N   S  Q K +   L
Sbjct:   590 N-PGTYVLLSN-IY---AAKGMWTEVDS----IRNKMESLGLKKNPGCSWIQVKNRVYTL 640

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2140235 AT4G02750 [Arabidopsis thaliana (taxid:3702)]

 Score = 302 (111.4 bits), Expect = 6.2e-41, Sum P(2) = 6.2e-41
 Identities = 70/213 (32%), Positives = 115/213 (53%)

Query:    42 GFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDAD 101
             G ++  S    L++C + + L +G Q    + K G  +   VGN L+ +  +CG I++A+
Sbjct:   405 GRLNRSSFSSALSTCADVVALELGKQLHGRLVKGGYETGCFVGNALLLMYCKCGSIEEAN 464

Query:   102 LAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMG 161
               FK    K+ +SW  +I+    HG    AL  F+  +      +  T  + L A +  G
Sbjct:   465 DLFKEMAGKDIVSWNTMIAGYSRHGFGEVALRFFESMKREGLKPDDATMVAVLSACSHTG 524

Query:   162 LVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRT 221
             LV +  + F +M + Y + P+ +HY+ MV+ LGRAG+ E+    +K + P +    IW T
Sbjct:   525 LVDKGRQYFYTMTQDYGVMPNSQHYACMVDLLGRAGLLEDAHNLMKNM-PFEPDAAIWGT 583

Query:   222 LLLSSRVHGDMKLAKYALDKLLELDP---GMYV 251
             LL +SRVHG+ +LA+ A DK+  ++P   GMYV
Sbjct:   584 LLGASRVHGNTELAETAADKIFAMEPENSGMYV 616

GO:0005739 "mitochondrion" evidence=ISM

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	373
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	4e-55
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	5e-47
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-11
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-10
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	8e-08
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-08
pfam14432	116	pfam14432, DYW_deaminase, DYW family of nucleic ac	1e-05
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-05

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

 Score =  192 bits (488), Expect = 4e-55
 Identities = 102/374 (27%), Positives = 172/374 (45%), Gaps = 54/374 (14%)

Query: 44  IDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLA 103
           ID ++   ++       LL    QA A + + G          L+++ S+ G+++DA   
Sbjct: 323 IDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNV 382

Query: 104 FKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLV 163
           F   P KN +SW  +I+   NHG  ++A+++F+       + N  TF + L A    GL 
Sbjct: 383 FDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLS 442

Query: 164 GEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLL 223
            + + +F SM E + I+P   HY+ M+E LGR G+ +E    I+   P K    +W  LL
Sbjct: 443 EQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRR-APFKPTVNMWAALL 501

Query: 224 LSSRVHGDMKLAKYALDKLLELDP----------GMYV---------------------- 251
            + R+H +++L + A +KL  + P           +Y                       
Sbjct: 502 TACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSM 561

Query: 252 --GC-WIEIQNKIYEFVSNEEL---TSEVSDKLAEIEENMKELGFVLNR----------- 294
              C WIE++ + + F S + L   + E+  KL E+ + + E G+V              
Sbjct: 562 HPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELLPDVDEDE 621

Query: 295 ----SLYQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPG 350
                 Y ++  A+A GLI+     P ++ +S  +C   H   +F++ + +RE+VV+D  
Sbjct: 622 EKVSGRYHSEKLAIAFGLINTSEWTPLQITQSHRICKDCHKVIKFIALVTKREIVVRDAS 681

Query: 351 SFHHFKDGKCSCKD 364
            FHHFK GKCSC D
Sbjct: 682 RFHHFKLGKCSCGD 695

Length = 697

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

 Score =  170 bits (433), Expect = 5e-47
 Identities = 114/374 (30%), Positives = 183/374 (48%), Gaps = 58/374 (15%)

Query: 45  DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAF 104
           +S ++   L++C     L  G +  A++ + G+     + N L+++  RCG+++ A   F
Sbjct: 488 NSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF 547

Query: 105 KSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNP--TTFRSALKAYALMGL 162
            S  EK+ +SW  +++  V HG  S A++LF   +   + +NP   TF S L A +  G+
Sbjct: 548 NSH-EKDVVSWNILLTGYVAHGKGSMAVELFN--RMVESGVNPDEVTFISLLCACSRSGM 604

Query: 163 VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTL 222
           V +    F SMEE Y I P+ +HY+ +V+ LGRAG   E   FI  + P    P +W  L
Sbjct: 605 VTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM-PITPDPAVWGAL 663

Query: 223 LLSSRVHGDMKLAKYALDKLLELDP---GMYV---------------------------- 251
           L + R+H  ++L + A   + ELDP   G Y+                            
Sbjct: 664 LNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLT 723

Query: 252 ---GC-WIEIQNKIYEFVSNEEL---TSEVSDKLAEIEENMKELGFVLNRSLY------- 297
              GC W+E++ K++ F++++E      E++  L    E MK  G   + S         
Sbjct: 724 VDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSMDEIEVS 783

Query: 298 -------QTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPG 350
                   ++  A+A GLI+   GMP  V K++ MC   H+  +F+S I+ RE+ V+D  
Sbjct: 784 KDDIFCGHSERLAIAFGLINTVPGMPIWVTKNLYMCENCHNTVKFISKIVRREISVRDTE 843

Query: 351 SFHHFKDGKCSCKD 364
            FHHFKDG+CSC D
Sbjct: 844 QFHHFKDGECSCGD 857

Length = 857

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

 Score = 64.5 bits (157), Expect = 3e-11
 Identities = 43/122 (35%), Positives = 63/122 (51%), Gaps = 11/122 (9%)

Query: 45  DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAF 104
           D  +I  +L++C     L+VG +      ++GLIS+  V N LI + S+C  ID A   F
Sbjct: 388 DEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVF 447

Query: 105 KSTPEKNSLSWTFIISA-RVNHGHPSEALDLFKDKQWRYTSM----NPTTFRSALKAYAL 159
            + PEK+ +SWT II+  R+N+    EAL  F     R   +    N  T  +AL A A 
Sbjct: 448 HNIPEKDVISWTSIIAGLRLNN-RCFEALIFF-----RQMLLTLKPNSVTLIAALSACAR 501

Query: 160 MG 161
           +G
Sbjct: 502 IG 503

Length = 857

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

 Score = 63.0 bits (153), Expect = 1e-10
 Identities = 28/100 (28%), Positives = 53/100 (53%)

Query: 64  VGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARV 123
            G Q    + K G++    V   LI++ S+CG I+DA   F   PEK +++W  +++   
Sbjct: 242 AGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYA 301

Query: 124 NHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLV 163
            HG+  EAL L+ + +    S++  TF   ++ ++ + L+
Sbjct: 302 LHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALL 341

Length = 697

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

 Score = 53.7 bits (129), Expect = 8e-08
 Identities = 31/103 (30%), Positives = 44/103 (42%), Gaps = 11/103 (10%)

Query: 61  LLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIIS 120
           + + G +   YM  R L+ H             CG + DA   F   PE+N  SW  II 
Sbjct: 149 VESSGFEPDQYMMNRVLLMHVK-----------CGMLIDARRLFDEMPERNLASWGTIIG 197

Query: 121 ARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLV 163
             V+ G+  EA  LF++     +   P TF   L+A A +G  
Sbjct: 198 GLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSA 240

Length = 697

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

 Score = 53.7 bits (129), Expect = 8e-08
 Identities = 28/99 (28%), Positives = 46/99 (46%)

Query: 65  GTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVN 124
           G +   Y+ K G     +V N LI +    G   +A+  F     K+++SWT +IS    
Sbjct: 307 GREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEK 366

Query: 125 HGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLV 163
           +G P +AL+ +   +    S +  T  S L A A +G +
Sbjct: 367 NGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDL 405

Length = 857

>gnl|CDD|222749 pfam14432, DYW_deaminase, DYW family of nucleic acid deaminases

 Score = 43.5 bits (103), Expect = 1e-05
 Identities = 23/56 (41%), Positives = 33/56 (58%), Gaps = 7/56 (12%)

Query: 302 KAVALGLISFPHGMPTRVIK-SVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFK 356
           +A+A GL+       TR+IK    MCG  H   R+++    RE++V+DP  FHHFK
Sbjct: 67  QALAYGLL------TTRIIKVLKRMCGDCHEFFRYIAKYTGREIIVRDPSRFHHFK 116

A family of nucleic acid deaminases prototyped by the plant PPR DYW proteins that are implicated in chloroplast and mitochondrial RNA transcript maturation by numerous C to U editing events. The name derives from the DYW motif present at the C-terminus of the classical plant PPR DYW deaminases. Members of this family are present in bacteria, plants, Naegleria, and fungi. Plants and Naegleria show lineage-specific expansions of this family. The classical DYW family contain an additional C-terminal metal-binding cluster composed of 2 histidines and a CxC motif and are often fused to PPR repeats. Ascomycete versions, which are independent lateral transfers, contain a large insert within the domain and are often fused to ankyrin repeats. Bacterial versions are predicted to function as toxins in polymorphic toxin systems. Length = 116

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

 Score = 45.6 bits (108), Expect = 3e-05
 Identities = 34/122 (27%), Positives = 55/122 (45%)

Query: 14  WNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMT 73
           WN+L+    KA  ++    L  R+       D Y+   +L +C     L  G +  A++ 
Sbjct: 155 WNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVV 214

Query: 74  KRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALD 133
           + G      V N LI +  +CG +  A L F   P ++ +SW  +IS    +G   E L+
Sbjct: 215 RFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLE 274

Query: 134 LF 135
           LF
Sbjct: 275 LF 276

Length = 857

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	373
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.82
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.8
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.76
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.74
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.59
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.58
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.58
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.55
PF13041	50	PPR_2: PPR repeat family	99.54
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.51
PF13041	50	PPR_2: PPR repeat family	99.48
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.46
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.43
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	99.43
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.42
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.39
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.39
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.36
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.36
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.36
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.35
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.34
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.33
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.31
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.31
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.27
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.24
PRK12370	553	invasion protein regulator; Provisional	99.23
KOG1126	638	consensus DNA-binding cell division cycle control	99.22
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.2
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.2
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.2
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.18
KOG1126	638	consensus DNA-binding cell division cycle control	99.18
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.15
PRK11189	296	lipoprotein NlpI; Provisional	99.12
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.12
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.09
PRK12370	553	invasion protein regulator; Provisional	99.09
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.06
KOG2003	840	consensus TPR repeat-containing protein [General f	99.05
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.03
KOG1129	478	consensus TPR repeat-containing protein [General f	99.01
PRK14574	822	hmsH outer membrane protein; Provisional	99.01
PF12854	34	PPR_1: PPR repeat	98.97
PRK14574	822	hmsH outer membrane protein; Provisional	98.94
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.93
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	98.89
PF12854	34	PPR_1: PPR repeat	98.85
PRK11189	296	lipoprotein NlpI; Provisional	98.84
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.82
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	98.79
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.76
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.75
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.75
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.7
KOG1129	478	consensus TPR repeat-containing protein [General f	98.66
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.66
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.63
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.62
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.62
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.62
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.6
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.6
PLN02789	320	farnesyltranstransferase	98.6
KOG2076	895	consensus RNA polymerase III transcription factor	98.59
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.58
KOG0495	913	consensus HAT repeat protein [RNA processing and m	98.54
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.5
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.48
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.47
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.45
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.44
PRK15359	144	type III secretion system chaperone protein SscB;	98.41
KOG2076	895	consensus RNA polymerase III transcription factor	98.4
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.39
KOG2003	840	consensus TPR repeat-containing protein [General f	98.39
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.39
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	98.37
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.36
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	98.35
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.34
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.33
KOG0547	606	consensus Translocase of outer mitochondrial membr	98.32
PRK15359	144	type III secretion system chaperone protein SscB;	98.31
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.28
KOG1125	579	consensus TPR repeat-containing protein [General f	98.27
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.26
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.25
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.23
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.21
KOG1125	579	consensus TPR repeat-containing protein [General f	98.18
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.17
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.14
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.13
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.11
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.11
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.09
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.09
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.09
PLN02789	320	farnesyltranstransferase	98.07
KOG1915	677	consensus Cell cycle control protein (crooked neck	98.05
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.04
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.01
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.0
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.99
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	97.98
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.96
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.95
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.95
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.94
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.92
PRK04841	903	transcriptional regulator MalT; Provisional	97.9
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.9
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.89
KOG2376	652	consensus Signal recognition particle, subunit Srp	97.88
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	97.86
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	97.85
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.84
KOG2047	835	consensus mRNA splicing factor [RNA processing and	97.81
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.8
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.8
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.79
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.79
KOG1128	777	consensus Uncharacterized conserved protein, conta	97.78
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.78
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.74
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.73
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.71
PRK04841	903	transcriptional regulator MalT; Provisional	97.7
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	97.69
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.67
KOG4340	459	consensus Uncharacterized conserved protein [Funct	97.64
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.64
KOG3616	1636	consensus Selective LIM binding factor [Transcript	97.63
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.62
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.6
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.6
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	97.58
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	97.58
KOG2047	835	consensus mRNA splicing factor [RNA processing and	97.58
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.56
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.55
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.55
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.52
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.51
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.49
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.47
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.43
KOG0553	304	consensus TPR repeat-containing protein [General f	97.42
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.39
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.37
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.33
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.33
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.31
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	97.31
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.3
KOG3785	557	consensus Uncharacterized conserved protein [Funct	97.28
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.28
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.27
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	97.25
KOG2376	652	consensus Signal recognition particle, subunit Srp	97.24
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.24
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.23
KOG4340	459	consensus Uncharacterized conserved protein [Funct	97.23
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.2
PF12688	120	TPR_5: Tetratrico peptide repeat	97.18
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.17
KOG0553	304	consensus TPR repeat-containing protein [General f	97.09
PRK10803	263	tol-pal system protein YbgF; Provisional	97.07
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.07
PF13371	73	TPR_9: Tetratricopeptide repeat	97.06
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.05
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.03
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.02
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.0
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.0
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.96
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.93
KOG3941	406	consensus Intermediate in Toll signal transduction	96.91
PF12688	120	TPR_5: Tetratrico peptide repeat	96.81
PRK10803	263	tol-pal system protein YbgF; Provisional	96.8
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.78
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.73
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.66
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.64
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	96.58
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.57
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	96.53
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.52
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.52
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.5
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	96.47
KOG3941	406	consensus Intermediate in Toll signal transduction	96.42
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	96.39
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.39
PF13512	142	TPR_18: Tetratricopeptide repeat	96.35
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.31
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.17
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.16
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.14
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.11
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.07
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.96
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.95
PF13371	73	TPR_9: Tetratricopeptide repeat	95.91
KOG2041	1189	consensus WD40 repeat protein [General function pr	95.87
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.83
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.72
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.51
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.5
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.45
PRK15331	165	chaperone protein SicA; Provisional	95.45
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.25
PF13428	44	TPR_14: Tetratricopeptide repeat	95.13
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	95.02
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	94.72
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	94.66
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	94.48
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.45
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.35
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.34
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.21
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	94.2
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	94.19
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.13
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.08
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	94.08
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	93.9
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	93.77
PF13428	44	TPR_14: Tetratricopeptide repeat	93.75
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.63
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	93.56
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.55
KOG2041	1189	consensus WD40 repeat protein [General function pr	93.48
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	93.47
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	92.92
COG3629	280	DnrI DNA-binding transcriptional activator of the	92.67
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	92.62
PRK15331	165	chaperone protein SicA; Provisional	92.62
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	92.6
COG0457	291	NrfG FOG: TPR repeat [General function prediction	92.53
COG3898	531	Uncharacterized membrane-bound protein [Function u	92.17
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	92.14
COG3118	304	Thioredoxin domain-containing protein [Posttransla	91.91
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	91.87
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	91.66
KOG4555	175	consensus TPR repeat-containing protein [Function	91.5
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.4
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	91.37
PF13431	34	TPR_17: Tetratricopeptide repeat	91.37
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.32
KOG4570	418	consensus Uncharacterized conserved protein [Funct	91.31
COG4105	254	ComL DNA uptake lipoprotein [General function pred	91.3
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.04
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	91.0
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	90.93
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	90.81
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	90.75
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	90.7
COG3629	280	DnrI DNA-binding transcriptional activator of the	90.58
COG3947	361	Response regulator containing CheY-like receiver a	90.35
KOG4555	175	consensus TPR repeat-containing protein [Function	90.26
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	90.06
KOG2610	491	consensus Uncharacterized conserved protein [Funct	89.9
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	89.81
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	89.36
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	89.15
COG3118	304	Thioredoxin domain-containing protein [Posttransla	88.88
KOG2610	491	consensus Uncharacterized conserved protein [Funct	88.75
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	88.33
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	88.22
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	88.2
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	88.01
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	88.01
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	87.57
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	87.39
COG4105	254	ComL DNA uptake lipoprotein [General function pred	87.36
PF13929	292	mRNA_stabil: mRNA stabilisation	87.23
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	87.05
PF13762	145	MNE1: Mitochondrial splicing apparatus component	86.75
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	86.63
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	86.55
PF13431	34	TPR_17: Tetratricopeptide repeat	86.38
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	86.34
PF13929	292	mRNA_stabil: mRNA stabilisation	85.95
PRK11906	458	transcriptional regulator; Provisional	85.72
PRK11906	458	transcriptional regulator; Provisional	85.55
KOG1941	518	consensus Acetylcholine receptor-associated protei	85.5
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	85.25
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	85.2
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	85.16
KOG1586	288	consensus Protein required for fusion of vesicles	84.97
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	84.77
KOG4570	418	consensus Uncharacterized conserved protein [Funct	84.73
KOG2297	412	consensus Predicted translation factor, contains W	84.68
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	84.39
PF14669	233	Asp_Glu_race_2: Putative aspartate racemase	84.33
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	84.12
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	83.71
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	83.44
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	82.58
KOG4648	536	consensus Uncharacterized conserved protein, conta	82.48
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	81.81
COG1747	711	Uncharacterized N-terminal domain of the transcrip	81.73
PRK09687	280	putative lyase; Provisional	81.6
PF13512	142	TPR_18: Tetratricopeptide repeat	81.2
PRK09687	280	putative lyase; Provisional	81.16
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	80.29

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

Probab=100.00  E-value=1.3e-72  Score=563.75  Aligned_cols=363  Identities=29%  Similarity=0.522  Sum_probs=353.4

Q ss_pred             CCCCCCCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchh
Q 047393            3 LCSLISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPA   82 (373)
Q Consensus         3 f~~m~~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~   82 (373)
                      |++|++||+++||+||.+|++.|++++|+++|++|.+.|+.||..||++++.+|++.|++++|.+++..|.+.|++||..
T Consensus       282 f~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~  361 (697)
T PLN03081        282 FDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIV  361 (697)
T ss_pred             HHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCee
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 047393           83 VGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGL  162 (373)
Q Consensus        83 ~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~  162 (373)
                      +||+||++|+++|++++|.++|++|.+||.++||+||.+|+++|+.++|.++|++|.+.|+.||..||+++|++|++.|+
T Consensus       362 ~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~  441 (697)
T PLN03081        362 ANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGL  441 (697)
T ss_pred             ehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047393          163 VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKL  242 (373)
Q Consensus       163 ~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  242 (373)
                      +++|.++|+.|.+.+|+.|+..+|+++|++|++.|++++|.+++++ ++..|+..+|++|+.+|+.+|+++.|..+++++
T Consensus       442 ~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~-~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l  520 (697)
T PLN03081        442 SEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRR-APFKPTVNMWAALLTACRIHKNLELGRLAAEKL  520 (697)
T ss_pred             HHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHH-CCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            9999999999988789999999999999999999999999999999 888999999999999999999999999999999


Q ss_pred             hccCCCC---cc-------------------------------c-hhheecceEEEEecCC---cchHHHHHHHHHHHHH
Q 047393          243 LELDPGM---YV-------------------------------G-CWIEIQNKIYEFVSNE---ELTSEVSDKLAEIEEN  284 (373)
Q Consensus       243 ~~~~P~~---y~-------------------------------~-~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~  284 (373)
                      .+++|++   |+                               | +|++.+..+|.|+.++   |...+.++.+.++..+
T Consensus       521 ~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~  600 (697)
T PLN03081        521 YGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKE  600 (697)
T ss_pred             hCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCCCeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHH
Confidence            9999976   44                               5 8999999999999987   7788889999999999


Q ss_pred             HHHCCCccCCch---------------hhhHHHHHHhhhccCCCCCcEEEEeeccccCChhHHHHHHHhHhCceEEEecC
Q 047393          285 MKELGFVLNRSL---------------YQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDP  349 (373)
Q Consensus       285 m~~~g~~p~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  349 (373)
                      |++.|+.||...               +|+|++|+|+++++++++.|++++|||++|+|||+++|++|++.+|+|++||.
T Consensus       601 ~~~~gy~~~~~~~~~~~~~~~~~~~~~~hsekla~a~~l~~~~~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i~~rd~  680 (697)
T PLN03081        601 ISEYGYVAEENELLPDVDEDEEKVSGRYHSEKLAIAFGLINTSEWTPLQITQSHRICKDCHKVIKFIALVTKREIVVRDA  680 (697)
T ss_pred             HHHcCCCCCcchhhccccHHHHHHHHHhccHHHHHHhhCccCCCCCeEEEecCCEECCCchhhHHHHhhhcceEEEEecC
Confidence            999999999764               89999999999999999999999999999999999999999999999999999


Q ss_pred             CccccccCCccCCCCCc
Q 047393          350 GSFHHFKDGKCSCKDAY  366 (373)
Q Consensus       350 ~~~~~~~~~~~~~~~~~  366 (373)
                      ++||||++|.|+|++||
T Consensus       681 ~rfh~f~~g~csc~d~w  697 (697)
T PLN03081        681 SRFHHFKLGKCSCGDYW  697 (697)
T ss_pred             CccccCCCCcccccccC
Confidence            99999999999999999

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.1e-66  Score=530.46  Aligned_cols=359  Identities=31%  Similarity=0.540  Sum_probs=348.3

Q ss_pred             CCCCCCCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchh
Q 047393            3 LCSLISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPA   82 (373)
Q Consensus         3 f~~m~~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~   82 (373)
                      |++|++||+++||++|.+|++.|++++|+++|++|.. +++||..||+.++.+|++.|+++.+.+++..+.+.|+.+|..
T Consensus       447 f~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~  525 (857)
T PLN03077        447 FHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGF  525 (857)
T ss_pred             HHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccce
Confidence            7889999999999999999999999999999999986 699999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 047393           83 VGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGL  162 (373)
Q Consensus        83 ~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~  162 (373)
                      ++|+||++|+++|++++|.++|+++ ++|.++||+||.+|+++|+.++|.++|++|.+.|+.||..||+++|.+|++.|+
T Consensus       526 ~~naLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~  604 (857)
T PLN03077        526 LPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGM  604 (857)
T ss_pred             echHHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcCh
Confidence            9999999999999999999999999 899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047393          163 VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKL  242 (373)
Q Consensus       163 ~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  242 (373)
                      +++|.++|++|.+.+|+.|+..+|++++++|++.|++++|.+++++ |+.+||..+|++|+.+|..+|+.+.|+.+.+++
T Consensus       605 v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~-m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l  683 (857)
T PLN03077        605 VTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINK-MPITPDPAVWGALLNACRIHRHVELGELAAQHI  683 (857)
T ss_pred             HHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHH-CCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            9999999999987789999999999999999999999999999999 888999999999999999999999999999999


Q ss_pred             hccCCCC---cc-------------------------------c-hhheecceEEEEecCC---cchHHHHHHHHHHHHH
Q 047393          243 LELDPGM---YV-------------------------------G-CWIEIQNKIYEFVSNE---ELTSEVSDKLAEIEEN  284 (373)
Q Consensus       243 ~~~~P~~---y~-------------------------------~-~~~~~~~~~~~~~~~~---~~~~~~~~~~~~l~~~  284 (373)
                      .+++|++   |+                               | +|++.+.++|.|..++   |...+++..+.++..+
T Consensus       684 ~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~  763 (857)
T PLN03077        684 FELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEK  763 (857)
T ss_pred             HhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEECCEEEEEecCCCCCcchHHHHHHHHHHHHH
Confidence            9999988   44                               6 9999999999999988   8889999999999999


Q ss_pred             HHHCCCccCCch--------------hhhHHHHHHhhhccCCCCCcEEEEeeccccCChhHHHHHHHhHhCceEEEecCC
Q 047393          285 MKELGFVLNRSL--------------YQTKMKAVALGLISFPHGMPTRVIKSVGMCGYSHSACRFMSTIIERELVVKDPG  350 (373)
Q Consensus       285 m~~~g~~p~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  350 (373)
                      |++.|+.||+..              +|+|++|+||++++++++.|++++||+++|+|||++.|++|++.+|+|++||.+
T Consensus       764 ~~~~g~~~~~~~~~~~~~~~k~~~~~~hse~la~a~~l~~~~~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~  843 (857)
T PLN03077        764 MKASGLAGSESSSMDEIEVSKDDIFCGHSERLAIAFGLINTVPGMPIWVTKNLYMCENCHNTVKFISKIVRREISVRDTE  843 (857)
T ss_pred             HHhCCcCCCcchhccccHHHHHHHHHhccHHHHHHHhhhcCCCCCeEEEeCCCEeCccHHHHHHHHHHHhCeEEEEecCC
Confidence            999999999653              899999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccCCccCCCC
Q 047393          351 SFHHFKDGKCSCKD  364 (373)
Q Consensus       351 ~~~~~~~~~~~~~~  364 (373)
                      +||||++|.|+|+|
T Consensus       844 rfh~f~~g~csc~d  857 (857)
T PLN03077        844 QFHHFKDGECSCGD  857 (857)
T ss_pred             cceeCCCCcccCCC
Confidence            99999999999996

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

Probab=100.00  E-value=4.4e-50  Score=401.55  Aligned_cols=350  Identities=16%  Similarity=0.225  Sum_probs=300.3

Q ss_pred             CCCCCCCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchh
Q 047393            3 LCSLISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPA   82 (373)
Q Consensus         3 f~~m~~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~   82 (373)
                      |++|++||+++||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|..+.+.+++..+.+.|+.||..
T Consensus       181 f~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~  260 (697)
T PLN03081        181 FDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTF  260 (697)
T ss_pred             HhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccce
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 047393           83 VGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGL  162 (373)
Q Consensus        83 ~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~  162 (373)
                      +||+||++|+++|++++|.++|++|.++|+++||+||.+|++.|++++|+++|++|.+.|+.||..||++++.+|++.|+
T Consensus       261 ~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~  340 (697)
T PLN03081        261 VSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLAL  340 (697)
T ss_pred             eHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047393          163 VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKL  242 (373)
Q Consensus       163 ~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  242 (373)
                      +++|.++++.|.+. |+.||..+|++||++|+++|++++|.++|++ |. +||..+||+||.+|+++|+.++|.++|++|
T Consensus       341 ~~~a~~i~~~m~~~-g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~-m~-~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M  417 (697)
T PLN03081        341 LEHAKQAHAGLIRT-GFPLDIVANTALVDLYSKWGRMEDARNVFDR-MP-RKNLISWNALIAGYGNHGRGTKAVEMFERM  417 (697)
T ss_pred             hHHHHHHHHHHHHh-CCCCCeeehHHHHHHHHHCCCHHHHHHHHHh-CC-CCCeeeHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999999999765 9999999999999999999999999999999 66 689999999999999999999999999999


Q ss_pred             hc--cCCCCccchhheecceEEEEecCCcchHHHHHHHHHHHHHHHH-CCCccCCchhhhHHH--------HHHhhhccC
Q 047393          243 LE--LDPGMYVGCWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKE-LGFVLNRSLYQTKMK--------AVALGLISF  311 (373)
Q Consensus       243 ~~--~~P~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~-~g~~p~~~~~~~~~~--------~~~~~~~~~  311 (373)
                      .+  +.||.          .+|..++......+..+++.++++.|.+ .|+.|+..+|....-        .-|..++..
T Consensus       418 ~~~g~~Pd~----------~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~  487 (697)
T PLN03081        418 IAEGVAPNH----------VTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRR  487 (697)
T ss_pred             HHhCCCCCH----------HHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHH
Confidence            97  55554          3333333334455567888999999976 699999998765322        223344433


Q ss_pred             CCCCc-----EEEEeeccccCChhHHHHHHHhHhCceEEEecCCccccccCCccCCCCCccc
Q 047393          312 PHGMP-----TRVIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSCKDAYGS  368 (373)
Q Consensus       312 ~~~~~-----~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  368 (373)
                      .+..|     ..++...+..|+.+.+...+.++.+  +-+.+...|....+..|.+|. |+.
T Consensus       488 ~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~--~~p~~~~~y~~L~~~y~~~G~-~~~  546 (697)
T PLN03081        488 APFKPTVNMWAALLTACRIHKNLELGRLAAEKLYG--MGPEKLNNYVVLLNLYNSSGR-QAE  546 (697)
T ss_pred             CCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhC--CCCCCCcchHHHHHHHHhCCC-HHH
Confidence            33322     1244555666667766666666653  334445667777777777776 543

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5.1e-50  Score=406.05  Aligned_cols=286  Identities=17%  Similarity=0.195  Sum_probs=250.4

Q ss_pred             CCCCCCCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchh
Q 047393            3 LCSLISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPA   82 (373)
Q Consensus         3 f~~m~~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~   82 (373)
                      |..|+.||..+||.+|.+|++.|++++|.++|++|.+.|+.||..+|+++|.+|++.|++++|.++|++|.+.|+.||..
T Consensus       429 f~~M~~pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~Pdvv  508 (1060)
T PLN03218        429 AKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVH  508 (1060)
T ss_pred             HHHcCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHH
Confidence            56788899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHccCC----CCChhHHHHHHHHHHhCCChHHHHHHHHHHHH--cCCCCCHHHHHHHHHH
Q 047393           83 VGNCLININSRCGKIDDADLAFKSTP----EKNSLSWTFIISARVNHGHPSEALDLFKDKQW--RYTSMNPTTFRSALKA  156 (373)
Q Consensus        83 ~~~~li~~~~~~g~~~~A~~~~~~m~----~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~--~g~~p~~~t~~~ll~~  156 (373)
                      +|++||.+|++.|++++|.++|++|.    .||.++|++||.+|++.|++++|.++|++|..  .|+.||..||+++|.+
T Consensus       509 TynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~a  588 (1060)
T PLN03218        509 TFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKA  588 (1060)
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHH
Confidence            99999999999999999999999986    58999999999999999999999999999976  6789999999999999


Q ss_pred             HHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCC--CCCCHHHHHHHHHHHHHcCCHHH
Q 047393          157 YALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVP--GKLCPLIWRTLLLSSRVHGDMKL  234 (373)
Q Consensus       157 ~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~li~~~~~~g~~~~  234 (373)
                      |++.|++++|.++|++|.+. |+.|+..+|+++|.+|++.|++++|.++|++|..  +.||..+|+++|.+|++.|++++
T Consensus       589 y~k~G~ldeA~elf~~M~e~-gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~ee  667 (1060)
T PLN03218        589 CANAGQVDRAKEVYQMIHEY-NIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDK  667 (1060)
T ss_pred             HHHCCCHHHHHHHHHHHHHc-CCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHH
Confidence            99999999999999999655 9999999999999999999999999999999554  67999999999999999999999


Q ss_pred             HHHHHHHHhc--cCCCCccchhheecceEEEEecCCcchHHHHHHHHHHHHHHHHCCCccCCchhhh
Q 047393          235 AKYALDKLLE--LDPGMYVGCWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKELGFVLNRSLYQT  299 (373)
Q Consensus       235 A~~~~~~m~~--~~P~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~g~~p~~~~~~~  299 (373)
                      |.+++++|.+  ..|+.          .+|+.++..++..+..+.+.+++++|++.|+.||..+|+.
T Consensus       668 A~~l~~eM~k~G~~pd~----------~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~  724 (1060)
T PLN03218        668 AFEILQDARKQGIKLGT----------VSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNA  724 (1060)
T ss_pred             HHHHHHHHHHcCCCCCH----------HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            9999999987  33443          3333333334445556777777777777777777777654

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.7e-50  Score=410.89  Aligned_cols=298  Identities=18%  Similarity=0.241  Sum_probs=271.4

Q ss_pred             CCCCCCCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchh
Q 047393            3 LCSLISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPA   82 (373)
Q Consensus         3 f~~m~~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~   82 (373)
                      |++|++||+++||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.+++..|.+.|+.||..
T Consensus       245 f~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~  324 (857)
T PLN03077        245 FDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVS  324 (857)
T ss_pred             HhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchH
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 047393           83 VGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGL  162 (373)
Q Consensus        83 ~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~  162 (373)
                      +||+||.+|+++|++++|.++|++|.+||.++||++|.+|++.|++++|+++|++|.+.|+.||..||++++.+|++.|+
T Consensus       325 ~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~  404 (857)
T PLN03077        325 VCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGD  404 (857)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccch
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047393          163 VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKL  242 (373)
Q Consensus       163 ~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  242 (373)
                      ++.|.++++.|.+. |+.|+..+||+||++|+++|++++|.++|++ |. +||..+|+++|.+|++.|+.++|..+|++|
T Consensus       405 ~~~a~~l~~~~~~~-g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~-m~-~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m  481 (857)
T PLN03077        405 LDVGVKLHELAERK-GLISYVVVANALIEMYSKCKCIDKALEVFHN-IP-EKDVISWTSIIAGLRLNNRCFEALIFFRQM  481 (857)
T ss_pred             HHHHHHHHHHHHHh-CCCcchHHHHHHHHHHHHcCCHHHHHHHHHh-CC-CCCeeeHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            99999999999665 9999999999999999999999999999999 76 689999999999999999999999999999


Q ss_pred             hc-cCCCC--ccc--------h---------------hh------------------------------eecceEEEEec
Q 047393          243 LE-LDPGM--YVG--------C---------------WI------------------------------EIQNKIYEFVS  266 (373)
Q Consensus       243 ~~-~~P~~--y~~--------~---------------~~------------------------------~~~~~~~~~~~  266 (373)
                      .+ ..|+.  |..        +               .+                              ..+...|+.++
T Consensus       482 ~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI  561 (857)
T PLN03077        482 LLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILL  561 (857)
T ss_pred             HhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHH
Confidence            86 67777  320        0               00                              12222333344


Q ss_pred             CCcchHHHHHHHHHHHHHHHHCCCccCCchhhhHHHH
Q 047393          267 NEELTSEVSDKLAEIEENMKELGFVLNRSLYQTKMKA  303 (373)
Q Consensus       267 ~~~~~~~~~~~~~~l~~~m~~~g~~p~~~~~~~~~~~  303 (373)
                      .++...+..+.+.+++++|.+.|+.||..||.+...+
T Consensus       562 ~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a  598 (857)
T PLN03077        562 TGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCA  598 (857)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHH
Confidence            4445555678899999999999999999998764433

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=6.6e-48  Score=390.71  Aligned_cols=319  Identities=14%  Similarity=0.178  Sum_probs=291.2

Q ss_pred             CCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHH
Q 047393            8 SDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCL   87 (373)
Q Consensus         8 ~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l   87 (373)
                      .||.++||+||.+|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|.+.|+.||..+||+|
T Consensus       469 ~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsL  548 (1060)
T PLN03218        469 KADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNAL  548 (1060)
T ss_pred             CCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhHhcCCHHHHHHHHccCC------CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC
Q 047393           88 ININSRCGKIDDADLAFKSTP------EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMG  161 (373)
Q Consensus        88 i~~~~~~g~~~~A~~~~~~m~------~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g  161 (373)
                      |.+|++.|++++|.++|++|.      .||.++|+++|.+|++.|++++|.++|++|.+.|+.|+..+|+++|.+|++.|
T Consensus       549 I~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G  628 (1060)
T PLN03218        549 ISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKG  628 (1060)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcC
Confidence            999999999999999999995      57999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCC--CCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047393          162 LVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVP--GKLCPLIWRTLLLSSRVHGDMKLAKYAL  239 (373)
Q Consensus       162 ~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~li~~~~~~g~~~~A~~~~  239 (373)
                      ++++|.++|++|.+. |+.||..+|+++|++|++.|++++|.++|++|.+  ..||..+|++||.+|++.|++++|.++|
T Consensus       629 ~~deAl~lf~eM~~~-Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf  707 (1060)
T PLN03218        629 DWDFALSIYDDMKKK-GVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELY  707 (1060)
T ss_pred             CHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            999999999999665 9999999999999999999999999999999655  6799999999999999999999999999


Q ss_pred             HHHhccCCCCccchhheecceEEEEecCCcchHHHHHHHHHHHHHHHHCCCccCCchhhhHHHHHHhhhccCCCCCcEEE
Q 047393          240 DKLLELDPGMYVGCWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKELGFVLNRSLYQTKMKAVALGLISFPHGMPTRV  319 (373)
Q Consensus       240 ~~m~~~~P~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (373)
                      ++|.+.+        +.++..+|+.++..++..+..+++.+++++|++.|+.||..+|.+                   +
T Consensus       708 ~eM~~~g--------~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~s-------------------L  760 (1060)
T PLN03218        708 EDIKSIK--------LRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSI-------------------L  760 (1060)
T ss_pred             HHHHHcC--------CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHH-------------------H
Confidence            9998732        223334455555556667778999999999999999999999975                   4


Q ss_pred             EeeccccCChhHHHHHHHhHhCceEEEecCCccccc
Q 047393          320 IKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHF  355 (373)
Q Consensus       320 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  355 (373)
                      +..++..|+.+.|..++.+|...|+. ++...|+..
T Consensus       761 L~a~~k~G~le~A~~l~~~M~k~Gi~-pd~~tynsL  795 (1060)
T PLN03218        761 LVASERKDDADVGLDLLSQAKEDGIK-PNLVMCRCI  795 (1060)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHcCCC-CCHHHHHHH
Confidence            45667789999999999999998876 444445444

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.82  E-value=5.7e-18  Score=158.96  Aligned_cols=235  Identities=12%  Similarity=0.021  Sum_probs=160.1

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCC---HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFID---SYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNC   86 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~   86 (373)
                      +..+|..+...+.+.|++++|.++++.+...+..++   ...+..+...+.+.|++++|..+|+.+.+.. +++..+++.
T Consensus        68 ~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~  146 (389)
T PRK11788         68 TVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQ  146 (389)
T ss_pred             cHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHH
Confidence            445677777777777777777777777766432221   2346666777777777777777777776543 345667777


Q ss_pred             HHHHhHhcCCHHHHHHHHccCCCCC--------hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 047393           87 LININSRCGKIDDADLAFKSTPEKN--------SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYA  158 (373)
Q Consensus        87 li~~~~~~g~~~~A~~~~~~m~~~d--------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~  158 (373)
                      ++..|.+.|++++|.+.|+.+.+.+        ...|..+...+.+.|++++|...|+++.+.. +.+...+..+...+.
T Consensus       147 la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~  225 (389)
T PRK11788        147 LLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLAL  225 (389)
T ss_pred             HHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHH
Confidence            7777777777777777777665321        1234556666777777777777777776653 233556666777777


Q ss_pred             ccCCHHHHHHHHHHhHHHcCCCCC--HhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 047393          159 LMGLVGEAYRLFLSMEEVYHIEPS--EEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAK  236 (373)
Q Consensus       159 ~~g~~~~a~~~~~~m~~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  236 (373)
                      +.|++++|.++++++.+.   .|+  ..+++.++.+|.+.|+.++|.+.++++....|+...+..+...+.+.|++++|.
T Consensus       226 ~~g~~~~A~~~~~~~~~~---~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~  302 (389)
T PRK11788        226 AQGDYAAAIEALERVEEQ---DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQEGPEAAQ  302 (389)
T ss_pred             HCCCHHHHHHHHHHHHHH---ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhCCHHHHH
Confidence            777777777777777543   232  345677777777777777777777776556676666677777777777777777


Q ss_pred             HHHHHHhccCCCC
Q 047393          237 YALDKLLELDPGM  249 (373)
Q Consensus       237 ~~~~~m~~~~P~~  249 (373)
                      .+++++.+..|+.
T Consensus       303 ~~l~~~l~~~P~~  315 (389)
T PRK11788        303 ALLREQLRRHPSL  315 (389)
T ss_pred             HHHHHHHHhCcCH
Confidence            7777777766655

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.80  E-value=3e-17  Score=154.06  Aligned_cols=234  Identities=13%  Similarity=0.068  Sum_probs=197.8

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCc----hhHHHHH
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISH----PAVGNCL   87 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~----~~~~~~l   87 (373)
                      ..|+.+...|.+.|++++|+++|+++.+. -+++..++..++..+.+.|++++|.+.++.+.+.+..+.    ...+..+
T Consensus       108 ~~~~~La~~~~~~g~~~~A~~~~~~~l~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~l  186 (389)
T PRK11788        108 LALQELGQDYLKAGLLDRAEELFLQLVDE-GDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCEL  186 (389)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHH
Confidence            56889999999999999999999999875 234677899999999999999999999999988653332    2245677


Q ss_pred             HHHhHhcCCHHHHHHHHccCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHH
Q 047393           88 ININSRCGKIDDADLAFKSTPE--K-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVG  164 (373)
Q Consensus        88 i~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~  164 (373)
                      ...+.+.|++++|...|+++.+  | +..++..+...+.+.|++++|.++|+++.+.+......+++.+..+|.+.|+++
T Consensus       187 a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~  266 (389)
T PRK11788        187 AQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEA  266 (389)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHH
Confidence            8889999999999999998763  3 466788899999999999999999999987643333567889999999999999


Q ss_pred             HHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH---cCCHHHHHHHHHH
Q 047393          165 EAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRV---HGDMKLAKYALDK  241 (373)
Q Consensus       165 ~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~---~g~~~~A~~~~~~  241 (373)
                      +|...++++.+.   .|+...+..+...+.+.|++++|..++++++...|+..+++.++..+..   .|+.+++..++++
T Consensus       267 ~A~~~l~~~~~~---~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~  343 (389)
T PRK11788        267 EGLEFLRRALEE---YPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRD  343 (389)
T ss_pred             HHHHHHHHHHHh---CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhhccCCccchhHHHHHHH
Confidence            999999999654   5777777899999999999999999999988888999999999988775   5588999999998


Q ss_pred             Hhc--cCCCC
Q 047393          242 LLE--LDPGM  249 (373)
Q Consensus       242 m~~--~~P~~  249 (373)
                      +.+  +.|+.
T Consensus       344 ~~~~~~~~~p  353 (389)
T PRK11788        344 LVGEQLKRKP  353 (389)
T ss_pred             HHHHHHhCCC
Confidence            886  44444

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

Probab=99.76  E-value=6e-16  Score=159.73  Aligned_cols=235  Identities=11%  Similarity=-0.024  Sum_probs=189.2

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      .+...+..+...|...|++++|.++++++.+. .+.+..+|..+..++.+.|++++|...++.+.+.. +.+...+..+.
T Consensus       565 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~  642 (899)
T TIGR02917       565 QEIEPALALAQYYLGKGQLKKALAILNEAADA-APDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLA  642 (899)
T ss_pred             cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHH
Confidence            45667888888888999999999999888764 34566788888888888899999999998887764 45677788888


Q ss_pred             HHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH
Q 047393           89 NINSRCGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGE  165 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  165 (373)
                      .+|.+.|++++|...|+++.+   .+..+|..++..+...|++++|.++++.+.+.+ +++...+..+...+.+.|++++
T Consensus       643 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~  721 (899)
T TIGR02917       643 DAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPA  721 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHH
Confidence            888888999999988887653   357788888888888888888888888887775 5566777788888888888888


Q ss_pred             HHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          166 AYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       166 a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      |...|+.+...   .|+..++..+..++.+.|+.++|.+.+++++...| ++..++.+...|...|+.++|...|+++.+
T Consensus       722 A~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  798 (899)
T TIGR02917       722 AIQAYRKALKR---APSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVK  798 (899)
T ss_pred             HHHHHHHHHhh---CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            88888888654   46557777788888888888888888888666444 567888888888888888888888888888


Q ss_pred             cCCCC
Q 047393          245 LDPGM  249 (373)
Q Consensus       245 ~~P~~  249 (373)
                      ..|++
T Consensus       799 ~~p~~  803 (899)
T TIGR02917       799 KAPDN  803 (899)
T ss_pred             hCCCC
Confidence            88876

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=99.74  E-value=7.5e-16  Score=159.02  Aligned_cols=338  Identities=10%  Similarity=-0.004  Sum_probs=257.4

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      .+..+++.+...+.+.|++++|...|+++...+ +.+...+..+...+.+.|++++|.++++.+.+.. +.+..+|..+.
T Consensus       531 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~  608 (899)
T TIGR02917       531 KNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLG  608 (899)
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHH
Confidence            467889999999999999999999999998753 3456678889999999999999999999998754 56788999999


Q ss_pred             HHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH
Q 047393           89 NINSRCGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGE  165 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  165 (373)
                      ..|.+.|++++|.+.|+++.+   .+...+..+...+.+.|++++|...|+++.+.. +.+..++..+...+...|++++
T Consensus       609 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~  687 (899)
T TIGR02917       609 RAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTES  687 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999998753   367788999999999999999999999998763 4568899999999999999999


Q ss_pred             HHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          166 AYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       166 a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      |.++++.+.+.  .+++...+..+...+.+.|++++|.+.|++++...|+..++..+..++.+.|++++|.+.++.+.+.
T Consensus       688 A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  765 (899)
T TIGR02917       688 AKKIAKSLQKQ--HPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKT  765 (899)
T ss_pred             HHHHHHHHHhh--CcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999999664  2567788888999999999999999999998888888888999999999999999999999999998


Q ss_pred             CCCC---ccc-hhheecceEEEEecCCcchHHHHHHHHHHHHHHHHCCCccCCch-hhh-----------HHHHHHhhhc
Q 047393          246 DPGM---YVG-CWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKELGFVLNRSL-YQT-----------KMKAVALGLI  309 (373)
Q Consensus       246 ~P~~---y~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~g~~p~~~~-~~~-----------~~~~~~~~~~  309 (373)
                      .|++   +.. +.+.             ...+.++.+...++.+.+..  |+... +..           +.+......+
T Consensus       766 ~~~~~~~~~~la~~~-------------~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~A~~~~~~~~  830 (899)
T TIGR02917       766 HPNDAVLRTALAELY-------------LAQKDYDKAIKHYRTVVKKA--PDNAVVLNNLAWLYLELKDPRALEYAEKAL  830 (899)
T ss_pred             CCCCHHHHHHHHHHH-------------HHCcCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            8888   221 1111             11122455555555555442  33222 111           1111122222


Q ss_pred             cCCCCCcEE---EEeeccccCChhHHHHHHHhHhCceEEEecCCccccccCCccCCCCCccc
Q 047393          310 SFPHGMPTR---VIKSVGMCGYSHSACRFMSTIIERELVVKDPGSFHHFKDGKCSCKDAYGS  368 (373)
Q Consensus       310 ~~~~~~~~~---~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  368 (373)
                      ...+..+..   +-..+...|+.++|..++.++.+.+-  .++..+.+.....|..|+++++
T Consensus       831 ~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~--~~~~~~~~l~~~~~~~g~~~~A  890 (899)
T TIGR02917       831 KLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAP--EAAAIRYHLALALLATGRKAEA  890 (899)
T ss_pred             hhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC--CChHHHHHHHHHHHHcCCHHHH
Confidence            222222211   11234567889999999999987553  2566666666666666665543

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

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.59  E-value=1.3e-12  Score=116.20  Aligned_cols=233  Identities=16%  Similarity=0.181  Sum_probs=191.5

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      .+-.||.+||.|+|+-...+.|.+++++-.....+.+..+||.+|.+-.    +....+++.+|....+.||..|+|+++
T Consensus       205 KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S----~~~~K~Lv~EMisqkm~Pnl~TfNalL  280 (625)
T KOG4422|consen  205 KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASS----YSVGKKLVAEMISQKMTPNLFTFNALL  280 (625)
T ss_pred             CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHH----hhccHHHHHHHHHhhcCCchHhHHHHH
Confidence            3557899999999999999999999999998888999999999998754    333488999999999999999999999


Q ss_pred             HHhHhcCCHHHHH----HHHccCC----CCChhHHHHHHHHHHhCCChHH-HHHHHHHHHHc----CCC----CCHHHHH
Q 047393           89 NINSRCGKIDDAD----LAFKSTP----EKNSLSWTFIISARVNHGHPSE-ALDLFKDKQWR----YTS----MNPTTFR  151 (373)
Q Consensus        89 ~~~~~~g~~~~A~----~~~~~m~----~~d~~~~~~li~~~~~~g~~~~-A~~l~~~m~~~----g~~----p~~~t~~  151 (373)
                      .+.++.|+++.|.    +++.+|+    +|...+|..+|..+++.+++.+ |..++.+++..    -++    -|...|.
T Consensus       281 ~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~  360 (625)
T KOG4422|consen  281 SCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQ  360 (625)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHH
Confidence            9999999988764    4556665    6899999999999999998855 45555555432    222    2567788


Q ss_pred             HHHHHHHccCCHHHHHHHHHHhHHHcC---CCCC---HhHHHHHHHHHHhcCCHHHHHHHHHhhCC--CCCCHHHHHHHH
Q 047393          152 SALKAYALMGLVGEAYRLFLSMEEVYH---IEPS---EEHYSIMVEALGRAGMFEEVLEFIKGIVP--GKLCPLIWRTLL  223 (373)
Q Consensus       152 ~ll~~~~~~g~~~~a~~~~~~m~~~~g---~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~li  223 (373)
                      +.++.|.+..+.+.|.++..-.....+   +.|+   ...|..+..+.|....++.-...++.|++  ..|+..+-.-++
T Consensus       361 ~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~l  440 (625)
T KOG4422|consen  361 SAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLL  440 (625)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHH
Confidence            899999999999999999887743212   2343   24556788899999999999999999777  668889999999


Q ss_pred             HHHHHcCCHHHHHHHHHHHhcc
Q 047393          224 LSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       224 ~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      ++....|.++-.-+++..++..
T Consensus       441 rA~~v~~~~e~ipRiw~D~~~~  462 (625)
T KOG4422|consen  441 RALDVANRLEVIPRIWKDSKEY  462 (625)
T ss_pred             HHHhhcCcchhHHHHHHHHHHh
Confidence            9999999999999999988874

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.58  E-value=1.8e-12  Score=128.94  Aligned_cols=230  Identities=14%  Similarity=0.019  Sum_probs=112.9

Q ss_pred             HHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCC-HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHh
Q 047393           13 PWNLLLKACIKAKDYEMVHELLERIQLCCGFID-SYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININ   91 (373)
Q Consensus        13 ~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~   91 (373)
                      .|..+...+.+.|++++|.+.|++....  .|+ ...+..+..++...|+.++|...+..+..... .+...+..+ ..+
T Consensus       112 a~~~la~~l~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P-~~~~a~~~~-~~l  187 (656)
T PRK15174        112 DVLLVASVLLKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVP-PRGDMIATC-LSF  187 (656)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCC-CCHHHHHHH-HHH
Confidence            3444444444555555555555554432  232 23344444445555555555555554433321 112222222 124


Q ss_pred             HhcCCHHHHHHHHccCCCC----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH--
Q 047393           92 SRCGKIDDADLAFKSTPEK----NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGE--  165 (373)
Q Consensus        92 ~~~g~~~~A~~~~~~m~~~----d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~--  165 (373)
                      .+.|++++|...++.+.+.    +...+..+..++.+.|++++|+..+++..+.. +.+...+..+...+...|++++  
T Consensus       188 ~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~  266 (656)
T PRK15174        188 LNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAK  266 (656)
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhH
Confidence            4455555555555443321    12222333444555555555555555555442 2234445555555555665553  


Q ss_pred             --HHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047393          166 --AYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC-PLIWRTLLLSSRVHGDMKLAKYALDKL  242 (373)
Q Consensus       166 --a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m  242 (373)
                        |...+++..+..  +.+...+..+...+.+.|++++|...+++++...|+ +..+..+..++.+.|++++|...++.+
T Consensus       267 ~~A~~~~~~Al~l~--P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~a  344 (656)
T PRK15174        267 LQAAEHWRHALQFN--SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQL  344 (656)
T ss_pred             HHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence              555555554321  223455556666666666666666666665554453 345555556666666666666666666


Q ss_pred             hccCCCC
Q 047393          243 LELDPGM  249 (373)
Q Consensus       243 ~~~~P~~  249 (373)
                      .+..|+.
T Consensus       345 l~~~P~~  351 (656)
T PRK15174        345 AREKGVT  351 (656)
T ss_pred             HHhCccc
Confidence            6655554

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.58  E-value=1.9e-12  Score=128.64  Aligned_cols=234  Identities=13%  Similarity=0.007  Sum_probs=191.1

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCH-HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDS-YSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCL   87 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l   87 (373)
                      .+...|..+...+...|++++|.+.++++....  |+. ..+..+ ..+.+.|++++|...++.+.+..-.++...+..+
T Consensus       142 ~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~--P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l  218 (656)
T PRK15174        142 GNSQIFALHLRTLVLMDKELQAISLARTQAQEV--PPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLA  218 (656)
T ss_pred             CcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC--CCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHH
Confidence            356788899999999999999999999887643  333 233333 3477889999999999998776533445555666


Q ss_pred             HHHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHH----HHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 047393           88 ININSRCGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSE----ALDLFKDKQWRYTSMNPTTFRSALKAYALM  160 (373)
Q Consensus        88 i~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~----A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~  160 (373)
                      ...+.+.|++++|...|++..+   .+...+..+...+...|++++    |...|++..+.. +.+...+..+...+.+.
T Consensus       219 ~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~  297 (656)
T PRK15174        219 VDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRT  297 (656)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHC
Confidence            7889999999999999998763   367788889999999999986    899999988763 34567889999999999


Q ss_pred             CCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHH-HHHHHHHHHHcCCHHHHHHH
Q 047393          161 GLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLI-WRTLLLSSRVHGDMKLAKYA  238 (373)
Q Consensus       161 g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~-~~~li~~~~~~g~~~~A~~~  238 (373)
                      |++++|...+++..+.   .| +...+..+..+|.+.|++++|...|++++...|+... +..+..++...|+.++|...
T Consensus       298 g~~~eA~~~l~~al~l---~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~  374 (656)
T PRK15174        298 GQNEKAIPLLQQSLAT---HPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESV  374 (656)
T ss_pred             CCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999999998764   44 4567778889999999999999999997777786544 44456788999999999999


Q ss_pred             HHHHhccCCCC
Q 047393          239 LDKLLELDPGM  249 (373)
Q Consensus       239 ~~~m~~~~P~~  249 (373)
                      |++..+..|+.
T Consensus       375 l~~al~~~P~~  385 (656)
T PRK15174        375 FEHYIQARASH  385 (656)
T ss_pred             HHHHHHhChhh
Confidence            99999988886

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

Probab=99.55  E-value=5.6e-12  Score=125.20  Aligned_cols=231  Identities=12%  Similarity=-0.013  Sum_probs=166.7

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCC-HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFID-SYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      +...|+.+...+...|++++|+..|++..+.  .|+ ..+|..+...+...|++++|...++..++.. +.+..+|..+.
T Consensus       330 ~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg  406 (615)
T TIGR00990       330 EAIALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRA  406 (615)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            4456777777778888888888888887763  454 4467777777788888888888888887654 44567788888


Q ss_pred             HHhHhcCCHHHHHHHHccCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH
Q 047393           89 NINSRCGKIDDADLAFKSTPE--K-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGE  165 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  165 (373)
                      ..|...|++++|...|++..+  | +...|..+...+.+.|++++|+..|++..+.. +-+...++.+...+...|++++
T Consensus       407 ~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~  485 (615)
T TIGR00990       407 QLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDE  485 (615)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHH
Confidence            888888888888888877653  3 45667777778888888888888888877652 3346777778888888888888


Q ss_pred             HHHHHHHhHHHcCCCCCH-h-------HHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-HHHHHHHHHHHHHcCCHHHHH
Q 047393          166 AYRLFLSMEEVYHIEPSE-E-------HYSIMVEALGRAGMFEEVLEFIKGIVPGKLC-PLIWRTLLLSSRVHGDMKLAK  236 (373)
Q Consensus       166 a~~~~~~m~~~~g~~p~~-~-------~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~  236 (373)
                      |...|++..+.   .|+. .       .++.....+...|++++|.+++++++...|+ ...+..+...+.+.|++++|.
T Consensus       486 A~~~~~~Al~l---~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi  562 (615)
T TIGR00990       486 AIEKFDTAIEL---EKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEAL  562 (615)
T ss_pred             HHHHHHHHHhc---CCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHH
Confidence            88888877542   3321 1       1122222334468888888888887666664 456778888888888888888


Q ss_pred             HHHHHHhccCC
Q 047393          237 YALDKLLELDP  247 (373)
Q Consensus       237 ~~~~~m~~~~P  247 (373)
                      ..|++..++.+
T Consensus       563 ~~~e~A~~l~~  573 (615)
T TIGR00990       563 KLFERAAELAR  573 (615)
T ss_pred             HHHHHHHHHhc
Confidence            88888877543

>PF13041 PPR_2: PPR repeat family

Probab=99.54  E-value=2.1e-14  Score=92.39  Aligned_cols=50  Identities=20%  Similarity=0.226  Sum_probs=47.2

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcC
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLN   58 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~   58 (373)
                      ||+++||++|++|++.|++++|.++|++|.+.|++||..||+++|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            89999999999999999999999999999999999999999999999885

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.51  E-value=1.1e-11  Score=126.81  Aligned_cols=230  Identities=13%  Similarity=0.040  Sum_probs=189.2

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      +...|..+..++.. ++.++|+..|.+....  .|+......+..++.+.|++++|...++.+...  +|+...+..+..
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~  550 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAAN  550 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHH
Confidence            56778888877776 8999999988887764  477665555566667899999999999987554  455556677788


Q ss_pred             HhHhcCCHHHHHHHHccCCCCChhHHH---HHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHH
Q 047393           90 INSRCGKIDDADLAFKSTPEKNSLSWT---FIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEA  166 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~~~d~~~~~---~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a  166 (373)
                      .+.+.|++++|...|++..+.++..++   .+.....+.|++++|...+++..+.  .|+...+..+...+.+.|+.++|
T Consensus       551 all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA  628 (987)
T PRK09782        551 TAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAA  628 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHH
Confidence            899999999999999877654332233   3333444569999999999999876  57788999999999999999999


Q ss_pred             HHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          167 YRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       167 ~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      ...+++....   .| +...++.+...+...|+.++|.+.+++++...| ++..+..+..++...|++++|...+++..+
T Consensus       629 ~~~l~~AL~l---~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~  705 (987)
T PRK09782        629 VSDLRAALEL---EPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVID  705 (987)
T ss_pred             HHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            9999998654   45 667888888899999999999999999888778 578999999999999999999999999999


Q ss_pred             cCCCC
Q 047393          245 LDPGM  249 (373)
Q Consensus       245 ~~P~~  249 (373)
                      .+|+.
T Consensus       706 l~P~~  710 (987)
T PRK09782        706 DIDNQ  710 (987)
T ss_pred             cCCCC
Confidence            99987

>PF13041 PPR_2: PPR repeat family

Probab=99.48  E-value=1.2e-13  Score=88.83  Aligned_cols=50  Identities=22%  Similarity=0.318  Sum_probs=40.5

Q ss_pred             CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 047393          110 KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYAL  159 (373)
Q Consensus       110 ~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~  159 (373)
                      ||+++||++|.+|++.|++++|.++|++|.+.|++||..||+.+|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            67788888888888888888888888888888888888888888888764

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

Probab=99.46  E-value=3.5e-11  Score=119.54  Aligned_cols=222  Identities=11%  Similarity=-0.042  Sum_probs=181.1

Q ss_pred             cCCHhHHHHHHHHHHhcC-CCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHH
Q 047393           24 AKDYEMVHELLERIQLCC-GFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDAD  101 (373)
Q Consensus        24 ~g~~~~A~~l~~~m~~~g-~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~  101 (373)
                      .+++++|++.|++..+.+ ..| +...++.+...+...|++++|...++..++.. +.+...|..+...+...|++++|.
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~  385 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAE  385 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHH
Confidence            368999999999998765 345 34567788888889999999999999998753 334668888999999999999999


Q ss_pred             HHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcC
Q 047393          102 LAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYH  178 (373)
Q Consensus       102 ~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g  178 (373)
                      ..|++..+   .+...|..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++++|...+++..+.  
T Consensus       386 ~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~--  462 (615)
T TIGR00990       386 EDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN--  462 (615)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--
Confidence            99987653   367889999999999999999999999998764 345677888888999999999999999998654  


Q ss_pred             CCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH-H-------HHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          179 IEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP-L-------IWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       179 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~-~-------~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .+.+...++.+...+...|++++|.+.|++++...|+. .       .++.....+...|++++|..++++..+++|+.
T Consensus       463 ~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~  541 (615)
T TIGR00990       463 FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPEC  541 (615)
T ss_pred             CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCc
Confidence            24467889999999999999999999999988766632 1       12222233344699999999999999998877

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

Probab=99.43  E-value=2.5e-11  Score=112.72  Aligned_cols=227  Identities=13%  Similarity=0.064  Sum_probs=157.5

Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCH-HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCc-hhHHHHHHHHh
Q 047393           14 WNLLLKACIKAKDYEMVHELLERIQLCCGFIDS-YSICDILNSCLNPILLNVGTQAQAYMTKRGLISH-PAVGNCLININ   91 (373)
Q Consensus        14 ~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~   91 (373)
                      |-.|-..|...+.+++|+..|.+...  ..|+. ..+..+...|-..|+++.|...|++.++.  .|+ ...|+.|..++
T Consensus       255 YiNLGnV~ke~~~~d~Avs~Y~rAl~--lrpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanAL  330 (966)
T KOG4626|consen  255 YINLGNVYKEARIFDRAVSCYLRALN--LRPNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANAL  330 (966)
T ss_pred             HhhHHHHHHHHhcchHHHHHHHHHHh--cCCcchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHH
Confidence            44444455555555555555544443  33432 34445555555666677777777666553  344 56777777777


Q ss_pred             HhcCCHHHHHHHHccCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCHHHHH
Q 047393           92 SRCGKIDDADLAFKSTPE--K-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMN-PTTFRSALKAYALMGLVGEAY  167 (373)
Q Consensus        92 ~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~  167 (373)
                      -..|++.+|++.+.+...  | -..+.+.|.+.|...|++++|..+|....+-  .|. ...++.|...|-+.|++++|.
T Consensus       331 kd~G~V~ea~~cYnkaL~l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai  408 (966)
T KOG4626|consen  331 KDKGSVTEAVDCYNKALRLCPNHADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAI  408 (966)
T ss_pred             HhccchHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHH
Confidence            777777777777766542  2 3556677777777778888887777776653  343 456777888888888888888


Q ss_pred             HHHHHhHHHcCCCCCH-hHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          168 RLFLSMEEVYHIEPSE-EHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP-LIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       168 ~~~~~m~~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      ..|++..   .+.|+. ..|+.+-..|-..|+.+.|.+.+.+++.+.|.. ..++.|...|...|++.+|+.-|+....+
T Consensus       409 ~~Ykeal---rI~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLkl  485 (966)
T KOG4626|consen  409 MCYKEAL---RIKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKL  485 (966)
T ss_pred             HHHHHHH---hcCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHcc
Confidence            8888775   457754 677888888888888888888888877777753 57788888888888888888888888888


Q ss_pred             CCCC
Q 047393          246 DPGM  249 (373)
Q Consensus       246 ~P~~  249 (373)
                      +||-
T Consensus       486 kPDf  489 (966)
T KOG4626|consen  486 KPDF  489 (966)
T ss_pred             CCCC
Confidence            8876

>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases

Probab=99.43  E-value=4.4e-13  Score=101.70  Aligned_cols=55  Identities=45%  Similarity=0.846  Sum_probs=52.4

Q ss_pred             hhhhHHHHHHhhhccCCCCCcEEEEeec-cccCChhHHHHHHHhHhCceEEEecCCcccccc
Q 047393          296 LYQTKMKAVALGLISFPHGMPTRVIKSV-GMCGYSHSACRFMSTIIERELVVKDPGSFHHFK  356 (373)
Q Consensus       296 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  356 (373)
                      .+|+|++|+|+++++.      ++++|+ ++|+||++++++++++.+|.|++||+++||||+
T Consensus        61 ~~HSEKlAiafgli~~------~vvkn~~RvC~DCH~~~K~iS~~~~ReIiVRD~~rfHhFk  116 (116)
T PF14432_consen   61 CYHSEKLAIAFGLINT------RVVKNLKRVCGDCHSFIKFISKITGREIIVRDSNRFHHFK  116 (116)
T ss_pred             hccHHHHHHHhcccce------eEEecCCccchHHHHHHHHHHHHHCeEEEEeCCCeeeeCC
Confidence            3799999999999987      899999 999999999999999999999999999999996

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

Probab=99.42  E-value=9.7e-12  Score=115.40  Aligned_cols=231  Identities=15%  Similarity=0.115  Sum_probs=190.5

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCH-HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDS-YSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLINI   90 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~   90 (373)
                      +.|+.|-..+-.+|+...|++.|.+...  +.|+- ..|-.|-+.|...+.+++|...|.+..... +-..+++..+...
T Consensus       219 iawsnLg~~f~~~Gei~~aiq~y~eAvk--ldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~A~a~gNla~i  295 (966)
T KOG4626|consen  219 IAWSNLGCVFNAQGEIWLAIQHYEEAVK--LDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PNHAVAHGNLACI  295 (966)
T ss_pred             eeehhcchHHhhcchHHHHHHHHHHhhc--CCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-CcchhhccceEEE
Confidence            5688888888888998899988888876  55653 467778888888888888888888776542 2336677778888


Q ss_pred             hHhcCCHHHHHHHHccCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHH
Q 047393           91 NSRCGKIDDADLAFKSTPE--K-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAY  167 (373)
Q Consensus        91 ~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~  167 (373)
                      |-..|.+|-|+..+++..+  | -...|+.|..++-..|++.+|.+.+.+.+... +--..+.+.|-+.|...|.+++|.
T Consensus       296 YyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A~  374 (966)
T KOG4626|consen  296 YYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEAT  374 (966)
T ss_pred             EeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHHH
Confidence            8899999999999988764  3 36789999999999999999999999887752 334578889999999999999999


Q ss_pred             HHHHHhHHHcCCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          168 RLFLSMEEVYHIEPS-EEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP-LIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       168 ~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      .+|....+   +.|. ....+.|...|-..|++++|..-++++++++|+. ..|+.+...|...|+++.|.+.+.+.+.+
T Consensus       375 ~ly~~al~---v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~  451 (966)
T KOG4626|consen  375 RLYLKALE---VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQI  451 (966)
T ss_pred             HHHHHHHh---hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhc
Confidence            99987754   3554 4678889999999999999999999988999975 68999999999999999999999999998


Q ss_pred             CCCC
Q 047393          246 DPGM  249 (373)
Q Consensus       246 ~P~~  249 (373)
                      .|.-
T Consensus       452 nPt~  455 (966)
T KOG4626|consen  452 NPTF  455 (966)
T ss_pred             CcHH
Confidence            8865

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

Probab=99.39  E-value=1.3e-12  Score=116.89  Aligned_cols=229  Identities=17%  Similarity=0.131  Sum_probs=97.8

Q ss_pred             HHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHH-HHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhc
Q 047393           16 LLLKACIKAKDYEMVHELLERIQLCCGFIDSYS-ICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRC   94 (373)
Q Consensus        16 ~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~   94 (373)
                      .+...+.+.|++++|++++++.....-+|+... |..+...+...++.+.|.+.++.+.+.+- -+...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~-~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDK-ANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccc-ccc
Confidence            456777889999999999966554432454444 44455556678899999999999987763 356677777777 688


Q ss_pred             CCHHHHHHHHccCC--CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 047393           95 GKIDDADLAFKSTP--EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRY-TSMNPTTFRSALKAYALMGLVGEAYRLFL  171 (373)
Q Consensus        95 g~~~~A~~~~~~m~--~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-~~p~~~t~~~ll~~~~~~g~~~~a~~~~~  171 (373)
                      +++++|.+++...-  .++...+..++..+.+.++++++.+++++..+.. .+++...|..+...+.+.|+.++|...++
T Consensus        91 ~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~  170 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYR  170 (280)
T ss_dssp             ---------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHH
T ss_pred             ccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999998887663  3466777888888999999999999999876543 35577788888888999999999999999


Q ss_pred             HhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          172 SMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVP-GKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       172 ~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +..+.   .| |....+.++..+...|+.+++.+++..... ...|+..|..+..++...|+.++|...+++.....|++
T Consensus       171 ~al~~---~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d  247 (280)
T PF13429_consen  171 KALEL---DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDD  247 (280)
T ss_dssp             HHHHH----TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-
T ss_pred             HHHHc---CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccccc
Confidence            98765   56 577888899999999999987777776333 23466788889999999999999999999999988887

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

Probab=99.39  E-value=1.4e-12  Score=116.65  Aligned_cols=227  Identities=15%  Similarity=0.131  Sum_probs=112.4

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      |..-|..+.......+++++|.+.++++...+.. +...+..++.. ...+++++|.+++....+.  .++...+...+.
T Consensus        43 ~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~--~~~~~~l~~~l~  118 (280)
T PF13429_consen   43 DPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGDPEEALKLAEKAYER--DGDPRYLLSALQ  118 (280)
T ss_dssp             -------------------------------------------------------------------------------H
T ss_pred             cccccccccccccccccccccccccccccccccc-ccccccccccc-ccccccccccccccccccc--ccccchhhHHHH
Confidence            4444554555556789999999999999876432 45566667666 6889999999999877554  356777888899


Q ss_pred             HhHhcCCHHHHHHHHccCC-----CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCCH
Q 047393           90 INSRCGKIDDADLAFKSTP-----EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSM-NPTTFRSALKAYALMGLV  163 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~-----~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~  163 (373)
                      .+.+.++++++.+++++..     +.+...|..+...+.+.|++++|++.+++..+.  .| |....+.++..+...|+.
T Consensus       119 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~P~~~~~~~~l~~~li~~~~~  196 (280)
T PF13429_consen  119 LYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL--DPDDPDARNALAWLLIDMGDY  196 (280)
T ss_dssp             -HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHCTTCHH
T ss_pred             HHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCCh
Confidence            9999999999999998754     347788899999999999999999999999887  45 577888999999999999


Q ss_pred             HHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047393          164 GEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKL  242 (373)
Q Consensus       164 ~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m  242 (373)
                      +++..+++...+..  +.|...+..+..+|...|+.++|+.+|++..+..| |+.....+..++...|+.++|.++.+++
T Consensus       197 ~~~~~~l~~~~~~~--~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~  274 (280)
T PF13429_consen  197 DEAREALKRLLKAA--PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLWLLAYADALEQAGRKDEALRLRRQA  274 (280)
T ss_dssp             HHHHHHHHHHHHH---HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT---------------
T ss_pred             HHHHHHHHHHHHHC--cCHHHHHHHHHHHhcccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            99999999986652  56777888999999999999999999999776566 7888889999999999999999998877


Q ss_pred             hc
Q 047393          243 LE  244 (373)
Q Consensus       243 ~~  244 (373)
                      .+
T Consensus       275 ~~  276 (280)
T PF13429_consen  275 LR  276 (280)
T ss_dssp             --
T ss_pred             cc
Confidence            64

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.36  E-value=4.3e-10  Score=96.92  Aligned_cols=198  Identities=12%  Similarity=0.018  Sum_probs=144.1

Q ss_pred             HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHH
Q 047393           46 SYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE---KNSLSWTFIISAR  122 (373)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~  122 (373)
                      ...+..+...+...|++++|...+++..+.. +.+...+..+...|...|++++|.+.|++..+   .+...+..+...+
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  109 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHH
Confidence            4556667777777888888888888776653 34466777777788888888888888876542   3456677777788


Q ss_pred             HhCCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHH
Q 047393          123 VNHGHPSEALDLFKDKQWRYTSM-NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEE  201 (373)
Q Consensus       123 ~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~  201 (373)
                      ...|++++|.+.+++..+....| ....+..+...+...|++++|...+++..+..  +.+...+..+...+...|++++
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID--PQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCChHHHHHHHHHHHHcCCHHH
Confidence            88888888888888877643222 34456667777888888888888888876541  3345677788888888899998


Q ss_pred             HHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC
Q 047393          202 VLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELD  246 (373)
Q Consensus       202 A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  246 (373)
                      |.+.++++....| ++..+..+...+...|+.++|..+.+.+.+..
T Consensus       188 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  233 (234)
T TIGR02521       188 ARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKLF  233 (234)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            8888888555433 56677777788888888888888877776543

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

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.36  E-value=6.1e-10  Score=114.08  Aligned_cols=235  Identities=8%  Similarity=-0.051  Sum_probs=187.5

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      |+......+...+...|++++|...|+++...  .|+...+..+..++.+.|+.++|...++..++.. +.+...+..+.
T Consensus       507 Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La  583 (987)
T PRK09782        507 PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLH  583 (987)
T ss_pred             CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHH
Confidence            55333333344446899999999999998653  4555566677788889999999999999998765 33334444444


Q ss_pred             HHhHhcCCHHHHHHHHccCC--CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHH
Q 047393           89 NINSRCGKIDDADLAFKSTP--EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEA  166 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~--~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a  166 (373)
                      ....+.|++++|...|++..  .|+...|..+...+.+.|++++|+..+++..+.. +-+...++.+-.++...|+.++|
T Consensus       584 ~~l~~~Gr~~eAl~~~~~AL~l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeA  662 (987)
T PRK09782        584 AQRYIPGQPELALNDLTRSLNIAPSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQS  662 (987)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHH
Confidence            45556699999999999887  4678889999999999999999999999998874 34566777888899999999999


Q ss_pred             HHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          167 YRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP-LIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       167 ~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      ...+++..+..  +-+...+..+..++...|++++|...|++++...|+. .+.-.......+..+++.|.+-+++...+
T Consensus       663 i~~l~~AL~l~--P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~  740 (987)
T PRK09782        663 REMLERAHKGL--PDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWTF  740 (987)
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhc
Confidence            99999987642  3467888999999999999999999999988888865 45556666677778899999999998888


Q ss_pred             CCCC
Q 047393          246 DPGM  249 (373)
Q Consensus       246 ~P~~  249 (373)
                      +|+.
T Consensus       741 ~~~~  744 (987)
T PRK09782        741 SFDS  744 (987)
T ss_pred             Cccc
Confidence            8876

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.36  E-value=1.7e-09  Score=101.59  Aligned_cols=215  Identities=10%  Similarity=-0.053  Sum_probs=147.5

Q ss_pred             HHHcCCHhHHHHHHHHHHhcCCCCCHHHHH--HHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHH
Q 047393           21 CIKAKDYEMVHELLERIQLCCGFIDSYSIC--DILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKID   98 (373)
Q Consensus        21 ~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~--~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~   98 (373)
                      ..+.|+++.|.+.|.++.+  ..|+.....  .....+...|+.+.|...++.+.+.. +-+..+...+...|.+.|+++
T Consensus       128 A~~~g~~~~A~~~l~~A~~--~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~  204 (398)
T PRK10747        128 AQQRGDEARANQHLERAAE--LADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWS  204 (398)
T ss_pred             HHHCCCHHHHHHHHHHHHh--cCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHH
Confidence            3677778888887777765  345543322  23456667777778877777776665 445667777777777777777


Q ss_pred             HHHHHHccCCCC---------------------------------------------ChhHHHHHHHHHHhCCChHHHHH
Q 047393           99 DADLAFKSTPEK---------------------------------------------NSLSWTFIISARVNHGHPSEALD  133 (373)
Q Consensus        99 ~A~~~~~~m~~~---------------------------------------------d~~~~~~li~~~~~~g~~~~A~~  133 (373)
                      +|.+++..+.+.                                             ++.....+..++...|+.++|.+
T Consensus       205 ~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~  284 (398)
T PRK10747        205 SLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQ  284 (398)
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            777666555421                                             33344455666777788888888


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCC
Q 047393          134 LFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGK  213 (373)
Q Consensus       134 l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  213 (373)
                      ++++..+.  .||...  .++.+....++.+++.+..+...+++  +-|.....++...+.+.|++++|.+.|++++...
T Consensus       285 ~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~--P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~  358 (398)
T PRK10747        285 IILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQH--GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQR  358 (398)
T ss_pred             HHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            88777664  444421  12333445578888888888776552  3355567777788888888888888888877777


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          214 LCPLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       214 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      |+..++..+...+.+.|+.++|.+.+++...
T Consensus       359 P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        359 PDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            8888888888888888888888888887755

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.35  E-value=3e-10  Score=101.49  Aligned_cols=228  Identities=17%  Similarity=0.120  Sum_probs=171.3

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHc--CCCchHHH-HHHHHHHHHcC-----------
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCL--NPILLNVG-TQAQAYMTKRG-----------   76 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~--~~~~~~~a-~~~~~~m~~~g-----------   76 (373)
                      +++=|.|+. ....|.+..+.-+|+.|.+.|+..+...-..|+..-+  ...++--| .+.|-.|.+.|           
T Consensus       116 V~~E~nL~k-mIS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sWK~G~  194 (625)
T KOG4422|consen  116 VETENNLLK-MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSWKSGA  194 (625)
T ss_pred             hcchhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccccccc
Confidence            455666666 5678999999999999999998888776666655332  22222111 22233332222           


Q ss_pred             --------CCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC----CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC
Q 047393           77 --------LISHPAVGNCLININSRCGKIDDADLAFKSTPE----KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTS  144 (373)
Q Consensus        77 --------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~  144 (373)
                              .+.+..+|.++|.++||....+.|.+++++-..    -+..+||.+|.+-.-    ....+++.+|.+..++
T Consensus       195 vAdL~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~----~~~K~Lv~EMisqkm~  270 (625)
T KOG4422|consen  195 VADLLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY----SVGKKLVAEMISQKMT  270 (625)
T ss_pred             HHHHHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh----hccHHHHHHHHHhhcC
Confidence                    355678999999999999999999999987763    378899999876432    2226889999999999


Q ss_pred             CCHHHHHHHHHHHHccCCHHH----HHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHH-HHHHHHhhCC--------
Q 047393          145 MNPTTFRSALKAYALMGLVGE----AYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEE-VLEFIKGIVP--------  211 (373)
Q Consensus       145 p~~~t~~~ll~~~~~~g~~~~----a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~-A~~~~~~~~~--------  211 (373)
                      ||..|||+++++.++.|+++.    |.+++.+|+ +.|+.|...+|..+|..+++.++..+ |..++.+.+.        
T Consensus       271 Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmK-eiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fk  349 (625)
T KOG4422|consen  271 PNLFTFNALLSCAAKFGKFEDARKAALQILGEMK-EIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFK  349 (625)
T ss_pred             CchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHH-HhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCccc
Confidence            999999999999999998765    567888894 45999999999999999999887754 4444444221        


Q ss_pred             -CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          212 -GKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       212 -~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                       +.| |...|...+..|.+..+.+.|.++-.....
T Consensus       350 p~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~t  384 (625)
T KOG4422|consen  350 PITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKT  384 (625)
T ss_pred             CCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHc
Confidence             334 557888889999999999999998877765

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.34  E-value=8.2e-10  Score=95.16  Aligned_cols=195  Identities=12%  Similarity=0.016  Sum_probs=162.9

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      ....+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.++...+.. +.+...+..+..
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~  107 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            35678888999999999999999999988743 2346678888889999999999999999998765 456678888899


Q ss_pred             HhHhcCCHHHHHHHHccCCC-----CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHH
Q 047393           90 INSRCGKIDDADLAFKSTPE-----KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVG  164 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~~-----~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~  164 (373)
                      .|...|++++|.+.|++...     .....+..+...+...|++++|...+++..+.. +.+...+..+...+...|+++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~  186 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYK  186 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHH
Confidence            99999999999999988753     134567778889999999999999999988763 335678888889999999999


Q ss_pred             HHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhh
Q 047393          165 EAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGI  209 (373)
Q Consensus       165 ~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  209 (373)
                      +|...+++..+.  .+.+...+..+...+...|+.++|..+.+.+
T Consensus       187 ~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  229 (234)
T TIGR02521       187 DARAYLERYQQT--YNQTAESLWLGIRIARALGDVAAAQRYGAQL  229 (234)
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            999999998654  2446677778888899999999999988773

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.

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.33  E-value=1.5e-09  Score=115.24  Aligned_cols=224  Identities=10%  Similarity=-0.033  Sum_probs=180.2

Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhH
Q 047393           14 WNLLLKACIKAKDYEMVHELLERIQLCCGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININS   92 (373)
Q Consensus        14 ~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~   92 (373)
                      +..+...+...|++++|++.|++..+.  .| +...+..+...+.+.|++++|...++++.+.. +.+...+..+...+.
T Consensus       464 ~~~~a~~~~~~g~~~eA~~~~~~Al~~--~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~  540 (1157)
T PRK11447        464 LAQQAEALENQGKWAQAAELQRQRLAL--DPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLS  540 (1157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            455667788899999999999999874  46 45667788889999999999999999998654 345555555666678


Q ss_pred             hcCCHHHHHHHHccCCCC----Ch---------hHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 047393           93 RCGKIDDADLAFKSTPEK----NS---------LSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYAL  159 (373)
Q Consensus        93 ~~g~~~~A~~~~~~m~~~----d~---------~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~  159 (373)
                      +.|+.++|...++.+...    +.         ..+..+...+...|+.++|.++++.     .+++...+..+...+.+
T Consensus       541 ~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~  615 (1157)
T PRK11447        541 GSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQ  615 (1157)
T ss_pred             hCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHH
Confidence            899999999999988642    11         1123456678899999999998872     35566777888899999


Q ss_pred             cCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHH
Q 047393          160 MGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYA  238 (373)
Q Consensus       160 ~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~  238 (373)
                      .|+.++|...|+...+..  +.+...+..+...|...|+.++|.+.++.++...| ++..+..+..++...|++++|.++
T Consensus       616 ~g~~~~A~~~y~~al~~~--P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~  693 (1157)
T PRK11447        616 RGDYAAARAAYQRVLTRE--PGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRT  693 (1157)
T ss_pred             cCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHH
Confidence            999999999999997642  44678889999999999999999999999666666 456777788889999999999999


Q ss_pred             HHHHhccCC
Q 047393          239 LDKLLELDP  247 (373)
Q Consensus       239 ~~~m~~~~P  247 (373)
                      ++.+.+..|
T Consensus       694 ~~~al~~~~  702 (1157)
T PRK11447        694 FNRLIPQAK  702 (1157)
T ss_pred             HHHHhhhCc
Confidence            999988554

>TIGR00540 hemY_coli hemY protein

Probab=99.31  E-value=2.9e-09  Score=100.46  Aligned_cols=223  Identities=10%  Similarity=-0.026  Sum_probs=136.7

Q ss_pred             HHHHHHcCCHhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHh-----
Q 047393           18 LKACIKAKDYEMVHELLERIQLCCGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININ-----   91 (373)
Q Consensus        18 i~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~-----   91 (373)
                      ...+...|+++.|++.++++.+..  | +......+...+.+.|++++|.+++..+.+.+..+.......-..++     
T Consensus       160 a~l~l~~~~~~~Al~~l~~l~~~~--P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~  237 (409)
T TIGR00540       160 TRILLAQNELHAARHGVDKLLEMA--PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLD  237 (409)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHH
Confidence            444555666666666666666542  3 33455555666666666666666666666655332221111111111     


Q ss_pred             --HhcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHH---HHHHHHHHHccCCH
Q 047393           92 --SRCGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTT---FRSALKAYALMGLV  163 (373)
Q Consensus        92 --~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t---~~~ll~~~~~~g~~  163 (373)
                        ......+...+.++..++   .+...+..+...+...|+.++|.+++++..+..  ||...   ...........++.
T Consensus       238 ~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~  315 (409)
T TIGR00540       238 EAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDN  315 (409)
T ss_pred             HHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCCh
Confidence              111122333334444432   266677777888888888888888888887763  44332   11122222345777


Q ss_pred             HHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHH--hhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047393          164 GEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIK--GIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDK  241 (373)
Q Consensus       164 ~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~--~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  241 (373)
                      +.+.+.++...+...-.|+.....++...+.+.|++++|.+.|+  .+....|+...+..+...+.+.|+.++|.+++++
T Consensus       316 ~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~  395 (409)
T TIGR00540       316 EKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQD  395 (409)
T ss_pred             HHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            88888888776653222221455677888888899999999988  4456778888888888888899999999888888


Q ss_pred             Hhc
Q 047393          242 LLE  244 (373)
Q Consensus       242 m~~  244 (373)
                      ...
T Consensus       396 ~l~  398 (409)
T TIGR00540       396 SLG  398 (409)
T ss_pred             HHH
Confidence            654

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.

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.31  E-value=1.2e-09  Score=115.81  Aligned_cols=231  Identities=12%  Similarity=-0.009  Sum_probs=139.1

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCC-HHHHHHHHHHH--------------------------------
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFID-SYSICDILNSC--------------------------------   56 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~~~~~ll~~~--------------------------------   56 (373)
                      +...+..+...+...|++++|++.|++..+.  .|+ ...+..+...+                                
T Consensus       384 ~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~--~p~~~~a~~~L~~l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~  461 (1157)
T PRK11447        384 DSYAVLGLGDVAMARKDYAAAERYYQQALRM--DPGNTNAVRGLANLYRQQSPEKALAFIASLSASQRRSIDDIERSLQN  461 (1157)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhh
Confidence            4556666777777888888888888777763  233 22333333222                                


Q ss_pred             ----------cCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC--C-ChhHHHHHHHHHH
Q 047393           57 ----------LNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE--K-NSLSWTFIISARV  123 (373)
Q Consensus        57 ----------~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~  123 (373)
                                ...|++++|.+.+++.++.. +-+...+..+...|.+.|++++|...|++..+  | +...+..+...+.
T Consensus       462 ~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~  540 (1157)
T PRK11447        462 DRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLS  540 (1157)
T ss_pred             hHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence                      23344555555555544432 22334444445555555555555555554321  2 2333333333344


Q ss_pred             hCCChHHHHHHHHHHHHcCCCCCH---------HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHH
Q 047393          124 NHGHPSEALDLFKDKQWRYTSMNP---------TTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALG  194 (373)
Q Consensus       124 ~~g~~~~A~~l~~~m~~~g~~p~~---------~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~  194 (373)
                      ..|++++|...++.+......++.         ..+......+...|+.++|..+++.      .+++...+..+...+.
T Consensus       541 ~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~------~p~~~~~~~~La~~~~  614 (1157)
T PRK11447        541 GSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ------QPPSTRIDLTLADWAQ  614 (1157)
T ss_pred             hCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh------CCCCchHHHHHHHHHH
Confidence            455555555555443322111111         1122334456666777777776651      1456667778889999


Q ss_pred             hcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          195 RAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       195 ~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +.|+.++|.+.|++++...| ++..+..+...+...|+.++|.+.++.+.+..|++
T Consensus       615 ~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~  670 (1157)
T PRK11447        615 QRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDS  670 (1157)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCC
Confidence            99999999999999887777 57889999999999999999999999998888876

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.27  E-value=3.5e-09  Score=99.44  Aligned_cols=229  Identities=13%  Similarity=0.060  Sum_probs=149.7

Q ss_pred             HHHHHHHHHH--HcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHH--HHH
Q 047393           13 PWNLLLKACI--KAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGN--CLI   88 (373)
Q Consensus        13 ~~n~li~~~~--~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~--~li   88 (373)
                      .+..+..|..  ..|++++|.+.+....+..-.| ...|.....+..+.|+.+.|...+.++.+.  .|+...+-  ...
T Consensus        84 ~~~~~~~gl~a~~eGd~~~A~k~l~~~~~~~~~p-~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a  160 (398)
T PRK10747         84 ARKQTEQALLKLAEGDYQQVEKLMTRNADHAEQP-VVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRV  160 (398)
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHhcccch-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHH
Confidence            3444445544  3699999998887765532112 223444455557899999999999999764  45554333  346


Q ss_pred             HHhHhcCCHHHHHHHHccCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCH-------HHH--------
Q 047393           89 NINSRCGKIDDADLAFKSTPE--K-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNP-------TTF--------  150 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-------~t~--------  150 (373)
                      ..+...|+++.|...+++..+  | +......+...|.+.|++++|.+++..+.+.+..++.       .+|        
T Consensus       161 ~l~l~~g~~~~Al~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~  240 (398)
T PRK10747        161 RIQLARNENHAARHGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAM  240 (398)
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            788999999999999998874  3 6778889999999999999999999999876544222       122        


Q ss_pred             --------------------------HHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHH
Q 047393          151 --------------------------RSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLE  204 (373)
Q Consensus       151 --------------------------~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  204 (373)
                                                ..+..++...|+.++|..++++..+.   +|+...  .++.+....++.+++.+
T Consensus       241 ~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~l--~~l~~~l~~~~~~~al~  315 (398)
T PRK10747        241 ADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR---QYDERL--VLLIPRLKTNNPEQLEK  315 (398)
T ss_pred             HhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHH--HHHHhhccCCChHHHHH
Confidence                                      23344455566666666666655432   344321  12233334466666666


Q ss_pred             HHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          205 FIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       205 ~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ..++..+..| |+..+..+...|.+.|++++|.+.|+...+..|+.
T Consensus       316 ~~e~~lk~~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~  361 (398)
T PRK10747        316 VLRQQIKQHGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDA  361 (398)
T ss_pred             HHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCH
Confidence            6666444455 34556666666777777777777777777666644

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.24  E-value=4.1e-09  Score=107.10  Aligned_cols=219  Identities=7%  Similarity=-0.101  Sum_probs=169.4

Q ss_pred             hHHHHHHHHHHhc-CCCCCHH-HHH----HHHHHHcCCCchHHHHHHHHHHHHcCCC-CchhHHHHHHHHhHhcCCHHHH
Q 047393           28 EMVHELLERIQLC-CGFIDSY-SIC----DILNSCLNPILLNVGTQAQAYMTKRGLI-SHPAVGNCLININSRCGKIDDA  100 (373)
Q Consensus        28 ~~A~~l~~~m~~~-g~~p~~~-~~~----~ll~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~~~~~g~~~~A  100 (373)
                      ++|++.++.+.+. ...|+.. .+.    ..+.++...|+.++|...|+.+.+.+-+ |+. .-..+..+|...|++++|
T Consensus       213 d~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A  291 (765)
T PRK10049        213 DRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKA  291 (765)
T ss_pred             HHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHH
Confidence            7788889888864 2334322 111    1133455679999999999999887632 332 222256789999999999


Q ss_pred             HHHHccCCCCC-------hhHHHHHHHHHHhCCChHHHHHHHHHHHHcC-----------CCCCH---HHHHHHHHHHHc
Q 047393          101 DLAFKSTPEKN-------SLSWTFIISARVNHGHPSEALDLFKDKQWRY-----------TSMNP---TTFRSALKAYAL  159 (373)
Q Consensus       101 ~~~~~~m~~~d-------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-----------~~p~~---~t~~~ll~~~~~  159 (373)
                      +..|+++.+.+       ...+..+..++.+.|++++|.++++.+.+..           -.|+.   ..+..+...+..
T Consensus       292 ~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~  371 (765)
T PRK10049        292 QSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKY  371 (765)
T ss_pred             HHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHH
Confidence            99999875422       2345667778899999999999999998752           12332   345667778889


Q ss_pred             cCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHH
Q 047393          160 MGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC-PLIWRTLLLSSRVHGDMKLAKYA  238 (373)
Q Consensus       160 ~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~  238 (373)
                      .|++++|..+++++...  .+-+...+..+...+...|++++|++.+++++...|+ ...+..+...+...|++++|..+
T Consensus       372 ~g~~~eA~~~l~~al~~--~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~  449 (765)
T PRK10049        372 SNDLPQAEMRARELAYN--APGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVL  449 (765)
T ss_pred             cCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHH
Confidence            99999999999999764  2557788899999999999999999999998888885 67777788889999999999999


Q ss_pred             HHHHhccCCCC
Q 047393          239 LDKLLELDPGM  249 (373)
Q Consensus       239 ~~~m~~~~P~~  249 (373)
                      ++++++..|++
T Consensus       450 ~~~ll~~~Pd~  460 (765)
T PRK10049        450 TDDVVAREPQD  460 (765)
T ss_pred             HHHHHHhCCCC
Confidence            99999999988

>PRK12370 invasion protein regulator; Provisional

Probab=99.23  E-value=1e-08  Score=100.38  Aligned_cols=227  Identities=15%  Similarity=0.009  Sum_probs=161.8

Q ss_pred             CChhHHHHHHHHHHH-----cCCHhHHHHHHHHHHhcCCCCCH-HHHHHHHHHHc---------CCCchHHHHHHHHHHH
Q 047393            9 DVEIPWNLLLKACIK-----AKDYEMVHELLERIQLCCGFIDS-YSICDILNSCL---------NPILLNVGTQAQAYMT   73 (373)
Q Consensus         9 p~~~~~n~li~~~~~-----~g~~~~A~~l~~~m~~~g~~p~~-~~~~~ll~~~~---------~~~~~~~a~~~~~~m~   73 (373)
                      .+...|...+.+-..     .+.+++|.++|++..+  ..|+. ..|..+..++.         ..+++++|...+++.+
T Consensus       254 ~~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~--ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al  331 (553)
T PRK12370        254 NSIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVN--MSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKAT  331 (553)
T ss_pred             CChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHh--cCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            455566666666432     1346789999998887  45654 34544443332         3345789999999988


Q ss_pred             HcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCH-HH
Q 047393           74 KRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE--K-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNP-TT  149 (373)
Q Consensus        74 ~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-~t  149 (373)
                      +.. +-+...+..+...+...|++++|...|++..+  | +...|..+...+...|++++|...+++..+..  |+. ..
T Consensus       332 ~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~  408 (553)
T PRK12370        332 ELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAA  408 (553)
T ss_pred             hcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhh
Confidence            765 45677888888888999999999999988653  4 46678888889999999999999999988764  432 23


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH-HHHHHHHHHHH
Q 047393          150 FRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP-LIWRTLLLSSR  227 (373)
Q Consensus       150 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~li~~~~  227 (373)
                      +..++..+...|++++|...+++..+..  +| +...+..+..++...|+.++|...+.++.+..|+. ..++.+...|.
T Consensus       409 ~~~~~~~~~~~g~~eeA~~~~~~~l~~~--~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~  486 (553)
T PRK12370        409 GITKLWITYYHTGIDDAIRLGDELRSQH--LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYC  486 (553)
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHHhc--cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHh
Confidence            3344445666889999999998886541  35 44556777888889999999999999855555543 44555555667


Q ss_pred             HcCCHHHHHHHHHHHhc
Q 047393          228 VHGDMKLAKYALDKLLE  244 (373)
Q Consensus       228 ~~g~~~~A~~~~~~m~~  244 (373)
                      ..|  ++|...++.+.+
T Consensus       487 ~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        487 QNS--ERALPTIREFLE  501 (553)
T ss_pred             ccH--HHHHHHHHHHHH
Confidence            666  477777777665

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

Probab=99.22  E-value=5.8e-10  Score=104.75  Aligned_cols=223  Identities=15%  Similarity=0.067  Sum_probs=157.3

Q ss_pred             HHHHHHHHHcCCHhHHHHHHHHHHhcC-CC-CCHHHHHHHHHHHcCCCchHHHHHHHH-HHHHcCCCCchhHHHHHHHHh
Q 047393           15 NLLLKACIKAKDYEMVHELLERIQLCC-GF-IDSYSICDILNSCLNPILLNVGTQAQA-YMTKRGLISHPAVGNCLININ   91 (373)
Q Consensus        15 n~li~~~~~~g~~~~A~~l~~~m~~~g-~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~-~m~~~g~~~~~~~~~~li~~~   91 (373)
                      ..+-.+|...+++++|.++|+...+.. .. -+...|++.+=.+-+    +-++..+. .+.+.. +-.+.+|-++.++|
T Consensus       357 ~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~Laq~Li~~~-~~sPesWca~GNcf  431 (638)
T KOG1126|consen  357 SQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSYLAQDLIDTD-PNSPESWCALGNCF  431 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHHHHHHHHhhC-CCCcHHHHHhcchh
Confidence            456778889999999999999998742 11 255677777654432    11222222 222222 44577888888888


Q ss_pred             HhcCCHHHHHHHHccCCCC---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHH---HHHHHHccCCHHH
Q 047393           92 SRCGKIDDADLAFKSTPEK---NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRS---ALKAYALMGLVGE  165 (373)
Q Consensus        92 ~~~g~~~~A~~~~~~m~~~---d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~---ll~~~~~~g~~~~  165 (373)
                      .-.++.+.|++.|++..+-   .+.+|+.+..-+.....+|.|...|+..+    ..|...|++   +--.|.+.++++.
T Consensus       432 SLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al----~~~~rhYnAwYGlG~vy~Kqek~e~  507 (638)
T KOG1126|consen  432 SLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL----GVDPRHYNAWYGLGTVYLKQEKLEF  507 (638)
T ss_pred             hhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhh----cCCchhhHHHHhhhhheeccchhhH
Confidence            8888888888888877643   56777777777778888888888887765    345554444   4456778888888


Q ss_pred             HHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 047393          166 AYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLL  243 (373)
Q Consensus       166 a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~  243 (373)
                      |+-.|+...+   +.| +.+....+...+-+.|+.++|+++|+++...+| |+..---....+...++.++|...++++.
T Consensus       508 Ae~~fqkA~~---INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il~~~~~~~eal~~LEeLk  584 (638)
T KOG1126|consen  508 AEFHFQKAVE---INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASILFSLGRYVEALQELEELK  584 (638)
T ss_pred             HHHHHHhhhc---CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            8888887753   445 556667777778888888888888888776665 55555555666777788888888888888


Q ss_pred             ccCCCC
Q 047393          244 ELDPGM  249 (373)
Q Consensus       244 ~~~P~~  249 (373)
                      ++-|++
T Consensus       585 ~~vP~e  590 (638)
T KOG1126|consen  585 ELVPQE  590 (638)
T ss_pred             HhCcch
Confidence            888887

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.20  E-value=4.1e-09  Score=99.51  Aligned_cols=232  Identities=13%  Similarity=0.041  Sum_probs=177.7

Q ss_pred             HHHHHHHHHHHcCCHhHHHHHHHHHHhc-----C-CCCCHHH-HHHHHHHHcCCCchHHHHHHHHHHHHc-----C-CCC
Q 047393           13 PWNLLLKACIKAKDYEMVHELLERIQLC-----C-GFIDSYS-ICDILNSCLNPILLNVGTQAQAYMTKR-----G-LIS   79 (373)
Q Consensus        13 ~~n~li~~~~~~g~~~~A~~l~~~m~~~-----g-~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~-----g-~~~   79 (373)
                      +...+...|...|+++.|..++++..+.     | ..|...+ .+.+...|...+++.+|..+|+.+...     | ..|
T Consensus       201 ~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~  280 (508)
T KOG1840|consen  201 TLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHP  280 (508)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            3444899999999999999999988764     2 2355544 344677888999999999999998653     2 122


Q ss_pred             c-hhHHHHHHHHhHhcCCHHHHHHHHccCC----------CCCh-hHHHHHHHHHHhCCChHHHHHHHHHHHHc---CCC
Q 047393           80 H-PAVGNCLININSRCGKIDDADLAFKSTP----------EKNS-LSWTFIISARVNHGHPSEALDLFKDKQWR---YTS  144 (373)
Q Consensus        80 ~-~~~~~~li~~~~~~g~~~~A~~~~~~m~----------~~d~-~~~~~li~~~~~~g~~~~A~~l~~~m~~~---g~~  144 (373)
                      . ..+++.|-.+|.+.|++++|...+++..          .+.+ .-++.++..++..+++++|..+++...+.   -+.
T Consensus       281 ~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g  360 (508)
T KOG1840|consen  281 AVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPG  360 (508)
T ss_pred             HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhcc
Confidence            2 3467778889999999999888776543          1233 34677888899999999999999876432   223


Q ss_pred             CC----HHHHHHHHHHHHccCCHHHHHHHHHHhHHHc----C-CCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCC---
Q 047393          145 MN----PTTFRSALKAYALMGLVGEAYRLFLSMEEVY----H-IEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVP---  211 (373)
Q Consensus       145 p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~----g-~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---  211 (373)
                      ++    ..+++.+-..|-+.|++++|..+|++.....    | ..+ ....++.|-..|.+.++..+|.++|.+...   
T Consensus       361 ~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~  440 (508)
T KOG1840|consen  361 EDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMK  440 (508)
T ss_pred             ccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHH
Confidence            33    3589999999999999999999999887543    1 122 246778888999999999999999987543   


Q ss_pred             -C---CCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          212 -G---KLCP-LIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       212 -~---~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                       .   .|++ .+|..|...|.+.|+++.|.++.+.+..
T Consensus       441 ~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  441 LCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence             2   3443 6899999999999999999999988874

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

Probab=99.20  E-value=2.7e-08  Score=86.16  Aligned_cols=225  Identities=9%  Similarity=-0.033  Sum_probs=176.3

Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCch------hHHHH
Q 047393           14 WNLLLKACIKAKDYEMVHELLERIQLCCGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHP------AVGNC   86 (373)
Q Consensus        14 ~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~------~~~~~   86 (373)
                      |-.=++. .-+.+.++|.++|-+|.+.  .| +..+-.+|-+.+.+.|..+.|..+++.+.++   ||.      ..--.
T Consensus        39 Yv~GlNf-LLs~Q~dKAvdlF~e~l~~--d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~q  112 (389)
T COG2956          39 YVKGLNF-LLSNQPDKAVDLFLEMLQE--DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQ  112 (389)
T ss_pred             HHhHHHH-HhhcCcchHHHHHHHHHhc--CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHH
Confidence            4333443 3357789999999999973  34 3345667888999999999999999998764   443      23345


Q ss_pred             HHHHhHhcCCHHHHHHHHccCCCCC---hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHc
Q 047393           87 LININSRCGKIDDADLAFKSTPEKN---SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNP----TTFRSALKAYAL  159 (373)
Q Consensus        87 li~~~~~~g~~~~A~~~~~~m~~~d---~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~----~t~~~ll~~~~~  159 (373)
                      |..=|...|-+|.|+.+|..+.+.+   ...-.-|+..|....+|++|+++-+++.+.+-.+..    ..|.-+...+..
T Consensus       113 L~~Dym~aGl~DRAE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~  192 (389)
T COG2956         113 LGRDYMAAGLLDRAEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALA  192 (389)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhh
Confidence            6667899999999999999988632   456677899999999999999999999887655543    466777777778


Q ss_pred             cCCHHHHHHHHHHhHHHcCCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH--HHHHHHHHHHHHcCCHHHHH
Q 047393          160 MGLVGEAYRLFLSMEEVYHIEPS-EEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP--LIWRTLLLSSRVHGDMKLAK  236 (373)
Q Consensus       160 ~g~~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~--~~~~~li~~~~~~g~~~~A~  236 (373)
                      ..+++.|..++....+.   .|+ +..--.+-+.+...|+++.|.+.++.+.+..|+.  .+...|..+|...|+.+++.
T Consensus       193 ~~~~d~A~~~l~kAlqa---~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~  269 (389)
T COG2956         193 SSDVDRARELLKKALQA---DKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGL  269 (389)
T ss_pred             hhhHHHHHHHHHHHHhh---CccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHH
Confidence            89999999999988665   443 3444456688889999999999999966666653  67889999999999999999


Q ss_pred             HHHHHHhccCC
Q 047393          237 YALDKLLELDP  247 (373)
Q Consensus       237 ~~~~~m~~~~P  247 (373)
                      .++..+.+..|
T Consensus       270 ~fL~~~~~~~~  280 (389)
T COG2956         270 NFLRRAMETNT  280 (389)
T ss_pred             HHHHHHHHccC
Confidence            99999988543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.20  E-value=2.8e-08  Score=101.08  Aligned_cols=126  Identities=11%  Similarity=0.011  Sum_probs=65.0

Q ss_pred             HhCCChHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC--CHhHHHHHHHHHHhcCCH
Q 047393          123 VNHGHPSEALDLFKDKQWRYTS-MNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP--SEEHYSIMVEALGRAGMF  199 (373)
Q Consensus       123 ~~~g~~~~A~~l~~~m~~~g~~-p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p--~~~~~~~li~~~~~~g~~  199 (373)
                      ...|++++|+..|+++.+.+-. |+. .-..+..+|...|++++|..+|+++.+.....+  .......+..++.+.|++
T Consensus       248 l~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~  326 (765)
T PRK10049        248 LARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENY  326 (765)
T ss_pred             HHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccH
Confidence            3445666666666666555421 221 111134456666666666666666543211110  122344445556666666


Q ss_pred             HHHHHHHHhhCCCCC-------------C---HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          200 EEVLEFIKGIVPGKL-------------C---PLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       200 ~~A~~~~~~~~~~~p-------------~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ++|.++++++....|             +   ...+..+...+...|+.++|..+++++....|++
T Consensus       327 ~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n  392 (765)
T PRK10049        327 PGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGN  392 (765)
T ss_pred             HHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            666666666433322             1   1233445555666666666666666666666655

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

Probab=99.18  E-value=6.6e-10  Score=107.18  Aligned_cols=244  Identities=13%  Similarity=0.097  Sum_probs=159.4

Q ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCCC
Q 047393           32 ELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKN  111 (373)
Q Consensus        32 ~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d  111 (373)
                      .++..+...|+.|+.+||..+|.-||..|+++.|- +|..|.-...+.+..+++.++.+..+.++.+.+.       +|.
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~   82 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPL   82 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCc
Confidence            45667888888999999999999999999988888 8888887777888888999988888888877665       677


Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHH-HH-------HcCCCCCHHHH--------------HHHHHHHHccCCHHHHHHH
Q 047393          112 SLSWTFIISARVNHGHPSEALDLFKD-KQ-------WRYTSMNPTTF--------------RSALKAYALMGLVGEAYRL  169 (373)
Q Consensus       112 ~~~~~~li~~~~~~g~~~~A~~l~~~-m~-------~~g~~p~~~t~--------------~~ll~~~~~~g~~~~a~~~  169 (373)
                      +.||+.|..+|.++|+..- ++..++ |.       ..|+.--..-+              .+++.-....|-++.+.++
T Consensus        83 aDtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkl  161 (1088)
T KOG4318|consen   83 ADTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKL  161 (1088)
T ss_pred             hhHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHH
Confidence            8889999999999988654 222222 22       12221111111              1222223344555555555


Q ss_pred             HHHhHHHcCCCCCHhHHHHHHHHHHh-cCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          170 FLSMEEVYHIEPSEEHYSIMVEALGR-AGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       170 ~~~m~~~~g~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      +..+.......|...    ++.-... ...+++-..+... ..-.|++.+|..++++-...|+.+.|..++.+|.+..  
T Consensus       162 l~~~Pvsa~~~p~~v----fLrqnv~~ntpvekLl~~cks-l~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~g--  234 (1088)
T KOG4318|consen  162 LAKVPVSAWNAPFQV----FLRQNVVDNTPVEKLLNMCKS-LVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKG--  234 (1088)
T ss_pred             HhhCCcccccchHHH----HHHHhccCCchHHHHHHHHHH-hhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcC--
Confidence            544421111111111    1222222 2334444444444 3336999999999999999999999999999999843  


Q ss_pred             CccchhheecceEEEEecCCcchHHHHHHHHHHHHHHHHCCCccCCchhhhH
Q 047393          249 MYVGCWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKELGFVLNRSLYQTK  300 (373)
Q Consensus       249 ~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~g~~p~~~~~~~~  300 (373)
                            +......|-.+..+   .+....++.+++.|.+.|+.|+..|+.--
T Consensus       235 ------fpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~ady  277 (1088)
T KOG4318|consen  235 ------FPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADY  277 (1088)
T ss_pred             ------CCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHH
Confidence                  33333333222222   23346688999999999999999996543

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

Probab=99.18  E-value=8e-10  Score=103.84  Aligned_cols=215  Identities=10%  Similarity=0.015  Sum_probs=168.8

Q ss_pred             CHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcC--CCCchhHHHHHHHHhHhcCCHH-HHHH
Q 047393           26 DYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRG--LISHPAVGNCLININSRCGKID-DADL  102 (373)
Q Consensus        26 ~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g--~~~~~~~~~~li~~~~~~g~~~-~A~~  102 (373)
                      +..+|+..|.+.... +.-+......+..+|-..++.++|+++|+.+.+..  ..-+..+|.+.+--+-+.=.+. -|.+
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            568999999985553 33344677788899999999999999999996642  1235678887775443321111 1233


Q ss_pred             HHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC
Q 047393          103 AFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSM-NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP  181 (373)
Q Consensus       103 ~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p  181 (373)
                      +.+.. ...+.||.++.+.|.-.++.+.|++.|++..+.  .| ...+|+.+-.=+.....+|.|...|+...     ..
T Consensus       413 Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al-----~~  484 (638)
T KOG1126|consen  413 LIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKAL-----GV  484 (638)
T ss_pred             HHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhh-----cC
Confidence            33322 346789999999999999999999999998875  45 67899888888889999999999998764     44


Q ss_pred             CHhHHH---HHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          182 SEEHYS---IMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       182 ~~~~~~---~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      |+..||   -+.-.|.|.++++.|+-.|++++++.| +.+....+...+-+.|+.++|.++++++..++|.+
T Consensus       485 ~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn  556 (638)
T KOG1126|consen  485 DPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKN  556 (638)
T ss_pred             CchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCC
Confidence            555565   456789999999999999999888888 56777778888999999999999999999999988

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

Probab=99.15  E-value=7.5e-08  Score=85.77  Aligned_cols=227  Identities=11%  Similarity=-0.019  Sum_probs=166.7

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLINI   90 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~   90 (373)
                      +..|-.-..+--+.|+.+.|-.++.+.-+..-.++...+.+........|+.+.|..-..++.+.+ +.++.+......+
T Consensus       118 ~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~ll~~~-pr~~~vlrLa~r~  196 (400)
T COG3071         118 VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQLLEMT-PRHPEVLRLALRA  196 (400)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHHHHHhC-cCChHHHHHHHHH
Confidence            444555555666677777777777777664334455556666666677777777777777776665 4556677777777


Q ss_pred             hHhcCCHHHHHHHHccCCCC---------------------------------------------ChhHHHHHHHHHHhC
Q 047393           91 NSRCGKIDDADLAFKSTPEK---------------------------------------------NSLSWTFIISARVNH  125 (373)
Q Consensus        91 ~~~~g~~~~A~~~~~~m~~~---------------------------------------------d~~~~~~li~~~~~~  125 (373)
                      |.+.|++.+...++..+.+.                                             ++..-.+++.-+.+.
T Consensus       197 y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l  276 (400)
T COG3071         197 YIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRL  276 (400)
T ss_pred             HHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHc
Confidence            77777777777777655421                                             223334556667788


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHH
Q 047393          126 GHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEF  205 (373)
Q Consensus       126 g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  205 (373)
                      |+.++|.++.++..+.+..|...    .+-.+.+.++.+.-.+..+...+.++-.|  ..+.+|-..|.+.+.+.+|.+.
T Consensus       277 ~~~~~A~~~i~~~Lk~~~D~~L~----~~~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~  350 (400)
T COG3071         277 GDHDEAQEIIEDALKRQWDPRLC----RLIPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEA  350 (400)
T ss_pred             CChHHHHHHHHHHHHhccChhHH----HHHhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHH
Confidence            88888888888888887776622    23345567777777777777766655444  6788899999999999999999


Q ss_pred             HHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          206 IKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       206 ~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      |+.+++..|+..+|+.+.+++.+.|+.++|.++.++...
T Consensus       351 leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         351 LEAALKLRPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             HHHHHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            999899999999999999999999999999999998764

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.12  E-value=4.8e-08  Score=87.93  Aligned_cols=217  Identities=15%  Similarity=-0.090  Sum_probs=156.2

Q ss_pred             CCHhHHHHHHHHHHhcC-CCCC--HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHH
Q 047393           25 KDYEMVHELLERIQLCC-GFID--SYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDAD  101 (373)
Q Consensus        25 g~~~~A~~l~~~m~~~g-~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~  101 (373)
                      +..+.++.-+.++.... ..|+  ...|..+...+.+.|+.++|...|++.++.. +.+...|+.+...|...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            44577888888887543 3333  2457777778899999999999999998865 456889999999999999999999


Q ss_pred             HHHccCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcC
Q 047393          102 LAFKSTPE--K-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYH  178 (373)
Q Consensus       102 ~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g  178 (373)
                      +.|++..+  | +..+|..+...+...|++++|.+.|++..+.  .|+..........+...++.++|...+++....  
T Consensus       119 ~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~--  194 (296)
T PRK11189        119 EAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYEK--  194 (296)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh--
Confidence            99998753  4 5678888899999999999999999998876  454332222222344578899999999776443  


Q ss_pred             CCCCHhHHHHHHHHHHhcCCHHHH--HHHHHhhCCC----CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          179 IEPSEEHYSIMVEALGRAGMFEEV--LEFIKGIVPG----KL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       179 ~~p~~~~~~~li~~~~~~g~~~~A--~~~~~~~~~~----~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ..|+...+ .+..  ...|+..++  .+.+.+..+.    .| ....|..+...+.+.|+.++|...|++..+.+|.+
T Consensus       195 ~~~~~~~~-~~~~--~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~  269 (296)
T PRK11189        195 LDKEQWGW-NIVE--FYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYN  269 (296)
T ss_pred             CCccccHH-HHHH--HHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCch
Confidence            24443222 2332  334554433  3333321221    12 23689999999999999999999999999988744

>TIGR00540 hemY_coli hemY protein

Probab=99.12  E-value=5.1e-08  Score=92.02  Aligned_cols=225  Identities=11%  Similarity=-0.047  Sum_probs=111.1

Q ss_pred             HHHHHcCCHhHHHHHHHHHHhcCCCCCHH--HHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCC
Q 047393           19 KACIKAKDYEMVHELLERIQLCCGFIDSY--SICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGK   96 (373)
Q Consensus        19 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~--~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~   96 (373)
                      ....+.|+++.|.+.+.+..+.  .|+..  .-......+...|+.+.|...++.+.+.. +-+..+...+...|.+.|+
T Consensus       126 ~aa~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d  202 (409)
T TIGR00540       126 EAAQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGA  202 (409)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhh
Confidence            3344455555555555555432  13321  22223444455555555555555555543 3344455555555555566


Q ss_pred             HHHHHHHHccCCCC---ChhHHHH----HHHHHHhCCChHHHHHHHHHHHHcCC---CCCHHHHHHHHHHHHccCCHHHH
Q 047393           97 IDDADLAFKSTPEK---NSLSWTF----IISARVNHGHPSEALDLFKDKQWRYT---SMNPTTFRSALKAYALMGLVGEA  166 (373)
Q Consensus        97 ~~~A~~~~~~m~~~---d~~~~~~----li~~~~~~g~~~~A~~l~~~m~~~g~---~p~~~t~~~ll~~~~~~g~~~~a  166 (373)
                      +++|.+.+..+.+.   +...+..    ...+....+..+++.+.+..+.+...   +.+...+..+...+...|+.++|
T Consensus       203 ~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A  282 (409)
T TIGR00540       203 WQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSA  282 (409)
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHH
Confidence            65555555554421   2221210    00111111222222223333332211   12555566666667777777777


Q ss_pred             HHHHHHhHHHcCCCCCHhH---HHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-H--HHHHHHHHHHHHcCCHHHHHHHHH
Q 047393          167 YRLFLSMEEVYHIEPSEEH---YSIMVEALGRAGMFEEVLEFIKGIVPGKLC-P--LIWRTLLLSSRVHGDMKLAKYALD  240 (373)
Q Consensus       167 ~~~~~~m~~~~g~~p~~~~---~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-~--~~~~~li~~~~~~g~~~~A~~~~~  240 (373)
                      .+++++..+.   .||...   .....-.....++.+.+.+.+++..+..|+ +  ....++...+.+.|++++|.+.|+
T Consensus       283 ~~~l~~~l~~---~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le  359 (409)
T TIGR00540       283 QEIIFDGLKK---LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFK  359 (409)
T ss_pred             HHHHHHHHhh---CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHH
Confidence            7777777554   333321   111112222346666777777665555553 3  455566777777777777777777


Q ss_pred             --HHhccCCCC
Q 047393          241 --KLLELDPGM  249 (373)
Q Consensus       241 --~m~~~~P~~  249 (373)
                        ...+..|+.
T Consensus       360 ~a~a~~~~p~~  370 (409)
T TIGR00540       360 NVAACKEQLDA  370 (409)
T ss_pred             HhHHhhcCCCH
Confidence              354555543

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.

>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=99.09  E-value=8.8e-09  Score=91.76  Aligned_cols=228  Identities=13%  Similarity=0.071  Sum_probs=159.9

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCC-CchhHHHHHHH
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLI-SHPAVGNCLIN   89 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~   89 (373)
                      .....-+.+++...|+++.++   .+..... .|.......+...+....+-+.+..-++........ .+..+.-....
T Consensus        35 ~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~  110 (290)
T PF04733_consen   35 LERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAAT  110 (290)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHH
Confidence            344566778888899877654   3444433 677766666666555545555555544444333323 23333333445


Q ss_pred             HhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc----cCCHHH
Q 047393           90 INSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYAL----MGLVGE  165 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~  165 (373)
                      .|...|++++|+++++..  .+.......+..|.+.++++.|.+.++.|.+.  ..| .+...+..++..    .+.+.+
T Consensus       111 i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD-~~l~qLa~awv~l~~g~e~~~~  185 (290)
T PF04733_consen  111 ILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DED-SILTQLAEAWVNLATGGEKYQD  185 (290)
T ss_dssp             HHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCC-HHHHHHHHHHHHHHHTTTCCCH
T ss_pred             HHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc-HHHHHHHHHHHHHHhCchhHHH
Confidence            678899999999998876  45667777889999999999999999999875  334 444445444433    347999


Q ss_pred             HHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCH-HHHHHHHHHHh
Q 047393          166 AYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDM-KLAKYALDKLL  243 (373)
Q Consensus       166 a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~-~~A~~~~~~m~  243 (373)
                      |..+|+++..  .+.+++.+.|.+..+....|++++|.+++.+++...| ++.+...++......|+. +.+.+.+.++.
T Consensus       186 A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~  263 (290)
T PF04733_consen  186 AFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLK  263 (290)
T ss_dssp             HHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCH
T ss_pred             HHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHH
Confidence            9999999954  4578899999999999999999999999999888666 567777888888888877 77889999999


Q ss_pred             ccCCCC
Q 047393          244 ELDPGM  249 (373)
Q Consensus       244 ~~~P~~  249 (373)
                      ...|++
T Consensus       264 ~~~p~h  269 (290)
T PF04733_consen  264 QSNPNH  269 (290)
T ss_dssp             HHTTTS
T ss_pred             HhCCCC
Confidence            888877

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.

>PRK12370 invasion protein regulator; Provisional

Probab=99.09  E-value=2.7e-08  Score=97.47  Aligned_cols=209  Identities=11%  Similarity=-0.047  Sum_probs=152.8

Q ss_pred             CCHhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHH
Q 047393           25 KDYEMVHELLERIQLCCGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLA  103 (373)
Q Consensus        25 g~~~~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  103 (373)
                      +++++|.+.+++..+.  .| +...+..+...+...|++++|...+++.++.+ +.+...+..+...|...|++++|...
T Consensus       318 ~~~~~A~~~~~~Al~l--dP~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~  394 (553)
T PRK12370        318 NAMIKAKEHAIKATEL--DHNNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQT  394 (553)
T ss_pred             hHHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4588999999999874  45 55677778788889999999999999998876 45577888899999999999999999


Q ss_pred             HccCCC--CC-hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCC
Q 047393          104 FKSTPE--KN-SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSM-NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHI  179 (373)
Q Consensus       104 ~~~m~~--~d-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~  179 (373)
                      +++..+  |+ ...+..++..+...|++++|...+++..+.. .| +...+..+..++...|+.++|...++++...   
T Consensus       395 ~~~Al~l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~---  470 (553)
T PRK12370        395 INECLKLDPTRAAAGITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ---  470 (553)
T ss_pred             HHHHHhcCCCChhhHHHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc---
Confidence            998764  43 2333444555677899999999999987664 34 4455677778888999999999999987543   


Q ss_pred             CCC-HhHHHHHHHHHHhcCCHHHHHHHHHhhCC---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          180 EPS-EEHYSIMVEALGRAGMFEEVLEFIKGIVP---GKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       180 ~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      .|+ ....+.+...|+..|  ++|...++.+.+   ..|....+..+  .+.-.|+.+.+... +++.+-
T Consensus       471 ~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~~~~~~~~~--~~~~~g~~~~~~~~-~~~~~~  535 (553)
T PRK12370        471 EITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRIDNNPGLLPL--VLVAHGEAIAEKMW-NKFKNE  535 (553)
T ss_pred             cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhhcCchHHHH--HHHHHhhhHHHHHH-HHhhcc
Confidence            444 444556666777777  477776666333   33433344333  44456776666655 777663

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

Probab=99.06  E-value=1.2e-07  Score=86.04  Aligned_cols=221  Identities=11%  Similarity=-0.003  Sum_probs=146.1

Q ss_pred             HHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCC--CCchhHHHHHHHHhHhcCCH
Q 047393           20 ACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGL--ISHPAVGNCLININSRCGKI   97 (373)
Q Consensus        20 ~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~--~~~~~~~~~li~~~~~~g~~   97 (373)
                      ++-...+.+++++=.......|+.-+...-+....+.-...++++|..+|+++.+...  --|..+|..++  |.+..+-
T Consensus       236 a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~L--Yv~~~~s  313 (559)
T KOG1155|consen  236 AYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVL--YVKNDKS  313 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHH--HHHhhhH
Confidence            3334445566666666666666544444444444444566677777777777766521  01455665554  3333221


Q ss_pred             H---HHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhH
Q 047393           98 D---DADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSME  174 (373)
Q Consensus        98 ~---~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~  174 (373)
                      .   -|..++ .+.+--+.|...+.+-|.-.++.++|...|++..+.+ +-....|+.+-+-|....+...|.+-|+...
T Consensus       314 kLs~LA~~v~-~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAv  391 (559)
T KOG1155|consen  314 KLSYLAQNVS-NIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAV  391 (559)
T ss_pred             HHHHHHHHHH-HhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHH
Confidence            1   122221 1222235566667777777788888888888887764 3345677777778888888888888888876


Q ss_pred             HHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC
Q 047393          175 EVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELD  246 (373)
Q Consensus       175 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  246 (373)
                      +.  .+-|-..|-.|..+|.-.+...=|+-+|+++...+| |...|.+|.++|.+.++.++|++.|.......
T Consensus       392 di--~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~  462 (559)
T KOG1155|consen  392 DI--NPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG  462 (559)
T ss_pred             hc--CchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc
Confidence            43  244778888888888888888888888888777777 67888888888888888888888888887643

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

Probab=99.05  E-value=4.1e-08  Score=88.63  Aligned_cols=186  Identities=13%  Similarity=0.065  Sum_probs=136.2

Q ss_pred             CchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHH
Q 047393           60 ILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFK  136 (373)
Q Consensus        60 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~  136 (373)
                      |+++.|.+.|.+.+...-......||+ .-.+-..|++++|++.|-++.   ..++.+.--+.+.|-...++..|++++-
T Consensus       504 gd~dka~~~ykeal~ndasc~ealfni-glt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~  582 (840)
T KOG2003|consen  504 GDLDKAAEFYKEALNNDASCTEALFNI-GLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLM  582 (840)
T ss_pred             CcHHHHHHHHHHHHcCchHHHHHHHHh-cccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHH
Confidence            566677777766665443333333332 223556677777777775543   3455555566677777777778877775


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH
Q 047393          137 DKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP  216 (373)
Q Consensus       137 ~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~  216 (373)
                      +.... ++.|.....-+...|-+.|+-..|.+.+-.--+  -++-+..+...|...|....-+++|..+|+++--+.|+.
T Consensus       583 q~~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~  659 (840)
T KOG2003|consen  583 QANSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQ  659 (840)
T ss_pred             Hhccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccH
Confidence            54332 455677888888999999999999888765522  235578888889999999999999999999955589999


Q ss_pred             HHHHHHHHHH-HHcCCHHHHHHHHHHHhccCCCC
Q 047393          217 LIWRTLLLSS-RVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       217 ~~~~~li~~~-~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +-|..|+..| .+.|++.+|.++|+.+.+.-|.+
T Consensus       660 ~kwqlmiasc~rrsgnyqka~d~yk~~hrkfped  693 (840)
T KOG2003|consen  660 SKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPED  693 (840)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccc
Confidence            9999999876 56999999999999999988877

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

Probab=99.03  E-value=1.2e-07  Score=82.18  Aligned_cols=230  Identities=12%  Similarity=0.016  Sum_probs=176.2

Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCH------HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHH
Q 047393           14 WNLLLKACIKAKDYEMVHELLERIQLCCGFIDS------YSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCL   87 (373)
Q Consensus        14 ~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~------~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l   87 (373)
                      --+|-+-|-+.|..++|+++-+.+.++   ||.      ...-.|..-|...|-++.|+.+|..+.+.| ..-...-.-|
T Consensus        72 ~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqL  147 (389)
T COG2956          72 HLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQL  147 (389)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHH
Confidence            346777888999999999999888864   442      234456677888999999999999998765 3445677789


Q ss_pred             HHHhHhcCCHHHHHHHHccCCCCCh--------hHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 047393           88 ININSRCGKIDDADLAFKSTPEKNS--------LSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYAL  159 (373)
Q Consensus        88 i~~~~~~g~~~~A~~~~~~m~~~d~--------~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~  159 (373)
                      +..|-...+|++|+++-+++.+-+.        ..|.-|...+....+.+.|..++.+..+.+ +-.+..-..+-+....
T Consensus       148 l~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~-~~cvRAsi~lG~v~~~  226 (389)
T COG2956         148 LNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQAD-KKCVRASIILGRVELA  226 (389)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhC-ccceehhhhhhHHHHh
Confidence            9999999999999999887765433        345555566666788999999999988764 2233344455567888


Q ss_pred             cCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047393          160 MGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYAL  239 (373)
Q Consensus       160 ~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  239 (373)
                      .|+++.|.+.|+.+.++ +..--..+...|..+|...|+.++...++.++|...+++..-..+-.--....-.+.|...+
T Consensus       227 ~g~y~~AV~~~e~v~eQ-n~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l  305 (389)
T COG2956         227 KGDYQKAVEALERVLEQ-NPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADAELMLADLIELQEGIDAAQAYL  305 (389)
T ss_pred             ccchHHHHHHHHHHHHh-ChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccHHHHHHHHHHHhhChHHHHHHH
Confidence            99999999999999776 33334567788999999999999999999998887777777777766666666667777777


Q ss_pred             HHHhccCCCC
Q 047393          240 DKLLELDPGM  249 (373)
Q Consensus       240 ~~m~~~~P~~  249 (373)
                      .+-+...|+.
T Consensus       306 ~~Ql~r~Pt~  315 (389)
T COG2956         306 TRQLRRKPTM  315 (389)
T ss_pred             HHHHhhCCcH
Confidence            7766666643

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

Probab=99.01  E-value=2.7e-08  Score=86.27  Aligned_cols=230  Identities=11%  Similarity=-0.005  Sum_probs=188.9

Q ss_pred             HHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhc
Q 047393           15 NLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRC   94 (373)
Q Consensus        15 n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~   94 (373)
                      +.+-.+|.+.|.+.+|...|+.-...  .|-+.||..|-++|.+..++..|+.++.+-++. ++-|+.....+...+-..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHH
Confidence            66788999999999999999887764  567778888999999999999999999887664 234444445667778888


Q ss_pred             CCHHHHHHHHccCCCC---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 047393           95 GKIDDADLAFKSTPEK---NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFL  171 (373)
Q Consensus        95 g~~~~A~~~~~~m~~~---d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~  171 (373)
                      ++.++|.++++...+.   ++.+-.++..+|.-.++++-|+..++++.+.|+. +...|+.+--+|.-.+++|-++.-|+
T Consensus       304 ~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            9999999999987643   5666667778888899999999999999999964 67778888778888999999999998


Q ss_pred             HhHHHcCCCCCH--hHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          172 SMEEVYHIEPSE--EHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC-PLIWRTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       172 ~m~~~~g~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      +.... --.|+.  .+|-.+-......|++..|.+-|+-++...|+ ...+|.|.-.-.+.|++++|..++....++.|+
T Consensus       383 RAlst-at~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P~  461 (478)
T KOG1129|consen  383 RALST-ATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVMPD  461 (478)
T ss_pred             HHHhh-ccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCcc
Confidence            88543 334543  56777777777889999999999987765664 478898888888999999999999999998887


Q ss_pred             C
Q 047393          249 M  249 (373)
Q Consensus       249 ~  249 (373)
                      .
T Consensus       462 m  462 (478)
T KOG1129|consen  462 M  462 (478)
T ss_pred             c
Confidence            6

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.01  E-value=4.3e-07  Score=91.67  Aligned_cols=91  Identities=12%  Similarity=-0.020  Sum_probs=67.1

Q ss_pred             HHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCC-------CCHHHHHHHHHHHHH
Q 047393          156 AYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGK-------LCPLIWRTLLLSSRV  228 (373)
Q Consensus       156 ~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-------p~~~~~~~li~~~~~  228 (373)
                      ++...|+..++.+.|+.+... +.+.-..+-..+.++|...+++++|..++..+....       ++......|..++..
T Consensus       301 aL~~r~r~~~vi~~y~~l~~~-~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld  379 (822)
T PRK14574        301 ALLVRHQTADLIKEYEAMEAE-GYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNE  379 (822)
T ss_pred             HHHHhhhHHHHHHHHHHhhhc-CCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHh
Confidence            355667777788888887443 544344466788899999999999999999854422       133345778889999


Q ss_pred             cCCHHHHHHHHHHHhccCC
Q 047393          229 HGDMKLAKYALDKLLELDP  247 (373)
Q Consensus       229 ~g~~~~A~~~~~~m~~~~P  247 (373)
                      .+++++|..+++.+.+..|
T Consensus       380 ~e~~~~A~~~l~~~~~~~p  398 (822)
T PRK14574        380 SEQLDKAYQFAVNYSEQTP  398 (822)
T ss_pred             cccHHHHHHHHHHHHhcCC
Confidence            9999999999999988555

>PF12854 PPR_1: PPR repeat

Probab=98.97  E-value=7.5e-10  Score=64.29  Aligned_cols=34  Identities=26%  Similarity=0.328  Sum_probs=28.1

Q ss_pred             cCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCC
Q 047393           75 RGLISHPAVGNCLININSRCGKIDDADLAFKSTP  108 (373)
Q Consensus        75 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  108 (373)
                      +|+.||..|||+||++||+.|++++|.++|++|+
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            3778888888888888888888888888888874

>PRK14574 hmsH outer membrane protein; Provisional

Probab=98.94  E-value=5.7e-07  Score=90.79  Aligned_cols=221  Identities=7%  Similarity=-0.077  Sum_probs=173.6

Q ss_pred             HhHHHHHHHHHHhc-CCCCCH-HHH----HHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHH
Q 047393           27 YEMVHELLERIQLC-CGFIDS-YSI----CDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDA  100 (373)
Q Consensus        27 ~~~A~~l~~~m~~~-g~~p~~-~~~----~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  100 (373)
                      .+.|+.-++.+... +-.|.. ..|    .-.+-++...++..++.+.|+.+...|.+....+-.++.++|...+++++|
T Consensus       267 ~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA  346 (822)
T PRK14574        267 ADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKA  346 (822)
T ss_pred             HHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHH
Confidence            34566666665542 222432 222    234557788899999999999999988765667888999999999999999


Q ss_pred             HHHHccCCCC---------ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCC-----------CCC--H-HHHHHHHHHH
Q 047393          101 DLAFKSTPEK---------NSLSWTFIISARVNHGHPSEALDLFKDKQWRYT-----------SMN--P-TTFRSALKAY  157 (373)
Q Consensus       101 ~~~~~~m~~~---------d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-----------~p~--~-~t~~~ll~~~  157 (373)
                      +.+|+++..+         +......|.-+|...+++++|..+++++.+.-.           .||  - ..+..++..+
T Consensus       347 ~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~  426 (822)
T PRK14574        347 APILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSL  426 (822)
T ss_pred             HHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHH
Confidence            9999987532         233457889999999999999999999987311           122  2 2344567778


Q ss_pred             HccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHH
Q 047393          158 ALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAK  236 (373)
Q Consensus       158 ~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~  236 (373)
                      ...|++.+|++.++.+...  -+-|......+.+.+...|++.+|++.++.+....| +..+......++...|++.+|.
T Consensus       427 ~~~gdl~~Ae~~le~l~~~--aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~  504 (822)
T PRK14574        427 VALNDLPTAQKKLEDLSST--APANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQME  504 (822)
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHH
Confidence            8999999999999999654  244889999999999999999999999988555777 4567778888899999999999


Q ss_pred             HHHHHHhccCCCC
Q 047393          237 YALDKLLELDPGM  249 (373)
Q Consensus       237 ~~~~~m~~~~P~~  249 (373)
                      .+.+.+.+..|++
T Consensus       505 ~~~~~l~~~~Pe~  517 (822)
T PRK14574        505 LLTDDVISRSPED  517 (822)
T ss_pred             HHHHHHHhhCCCc
Confidence            9999999988876

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

Probab=98.93  E-value=1.1e-08  Score=99.09  Aligned_cols=183  Identities=12%  Similarity=0.065  Sum_probs=109.5

Q ss_pred             CCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCC------------------------CCCHHHHHHHHHHHcCCCchH
Q 047393            8 SDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCG------------------------FIDSYSICDILNSCLNPILLN   63 (373)
Q Consensus         8 ~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~------------------------~p~~~~~~~ll~~~~~~~~~~   63 (373)
                      .||.+||.++|..||..|+.+.|- +|.-|.-..+                        .|.+.||..|..+|.+.||+.
T Consensus        22 ~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~Ll~ayr~hGDli  100 (1088)
T KOG4318|consen   22 LPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNLLKAYRIHGDLI  100 (1088)
T ss_pred             CCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHHHHHHHhccchH
Confidence            699999999999999999999988 7776654322                        345667777777777777654


Q ss_pred             H---HHHHHHHHH----HcCC-----------------CCchhHHHHHHHHhHhcCCHHHHHHHHccCC-----------
Q 047393           64 V---GTQAQAYMT----KRGL-----------------ISHPAVGNCLININSRCGKIDDADLAFKSTP-----------  108 (373)
Q Consensus        64 ~---a~~~~~~m~----~~g~-----------------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~-----------  108 (373)
                      .   +.+.+....    ..|+                 -||..   .++....-.|.++.+++++..++           
T Consensus       101 ~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---n~illlv~eglwaqllkll~~~Pvsa~~~p~~vf  177 (1088)
T KOG4318|consen  101 LFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---NAILLLVLEGLWAQLLKLLAKVPVSAWNAPFQVF  177 (1088)
T ss_pred             HHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---HHHHHHHHHHHHHHHHHHHhhCCcccccchHHHH
Confidence            3   222222211    1121                 12211   12222222333444444432222           


Q ss_pred             -----------------------CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH
Q 047393          109 -----------------------EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGE  165 (373)
Q Consensus       109 -----------------------~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  165 (373)
                                             .++..+|.+++..-...|+.+.|..++.+|.+.|++-+..-|-.++-+   .++...
T Consensus       178 Lrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~  254 (1088)
T KOG4318|consen  178 LRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQV  254 (1088)
T ss_pred             HHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchH
Confidence                                   135566666666666677777777777777777777666666666655   666666


Q ss_pred             HHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCC
Q 047393          166 AYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGM  198 (373)
Q Consensus       166 a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~  198 (373)
                      ++.+++.|.. .|+.|+..|+...+..+.++|.
T Consensus       255 ~e~vlrgmqe-~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  255 FEFVLRGMQE-KGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             HHHHHHHHHH-hcCCCCcchhHHHHHhhhcchh
Confidence            6667766644 3777777777666655555444

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

Probab=98.89  E-value=4.1e-07  Score=82.57  Aligned_cols=216  Identities=15%  Similarity=0.102  Sum_probs=173.4

Q ss_pred             HHHcCCHhHHHHHHHHHHhcC-CC-CCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHH
Q 047393           21 CIKAKDYEMVHELLERIQLCC-GF-IDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKID   98 (373)
Q Consensus        21 ~~~~g~~~~A~~l~~~m~~~g-~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~   98 (373)
                      .-...++++|+.+|+++.++. .+ -|..+|+.++-.--....    ...+.+-.-.=-+-.+.|+-++.+-|+-.++.+
T Consensus       272 ~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~sk----Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHE  347 (559)
T KOG1155|consen  272 SYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSK----LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHE  347 (559)
T ss_pred             HhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHH----HHHHHHHHHHhccCCccceeeehhHHHHHHhHH
Confidence            346789999999999999863 12 256788888754332222    222222211111234567888888899999999


Q ss_pred             HHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHH
Q 047393           99 DADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEE  175 (373)
Q Consensus        99 ~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  175 (373)
                      +|...|++..+   .....|+.+..-|....+...|++-+++..+-. +.|-..|-.+-++|.-.+++.-|+-+|++.. 
T Consensus       348 KAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~-  425 (559)
T KOG1155|consen  348 KAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKAL-  425 (559)
T ss_pred             HHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHH-
Confidence            99999998764   356889999999999999999999999998874 6688999999999999999999999999884 


Q ss_pred             HcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          176 VYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVP-GKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       176 ~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                        .++| |...|.+|.+.|.+.+++++|.+-|.+++. -+.+...+..|.+.+-+.++.++|.+.|++-++
T Consensus       426 --~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  426 --ELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             --hcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence              3466 889999999999999999999999999776 233458999999999999999999999998776

>PF12854 PPR_1: PPR repeat

Probab=98.85  E-value=5.3e-09  Score=60.69  Aligned_cols=31  Identities=23%  Similarity=0.486  Sum_probs=19.3

Q ss_pred             CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHh
Q 047393          178 HIEPSEEHYSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       178 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                      |+.||..|||+||++||+.|++++|.++|++
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~   32 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDE   32 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHh
Confidence            5566666666666666666666666666665

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.84  E-value=1.3e-06  Score=78.58  Aligned_cols=203  Identities=8%  Similarity=-0.096  Sum_probs=144.4

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      ...|..+-..|...|++++|...|++..+.  .| +...|+.+...+...|++++|...|+..++.. +-+..+|..+..
T Consensus        64 a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~  140 (296)
T PRK11189         64 AQLHYERGVLYDSLGLRALARNDFSQALAL--RPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAYLNRGI  140 (296)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            355777788889999999999999999874  45 56789999999999999999999999998754 334678888889


Q ss_pred             HhHhcCCHHHHHHHHccCCC--CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHH
Q 047393           90 INSRCGKIDDADLAFKSTPE--KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAY  167 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~~--~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~  167 (373)
                      ++...|++++|.+.|+...+  |+..............+++++|.+.|.+..... .|+...+ .+..  ...|+...+ 
T Consensus       141 ~l~~~g~~~eA~~~~~~al~~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~~~~~~~-~~~~--~~lg~~~~~-  215 (296)
T PRK11189        141 ALYYGGRYELAQDDLLAFYQDDPNDPYRALWLYLAESKLDPKQAKENLKQRYEKL-DKEQWGW-NIVE--FYLGKISEE-  215 (296)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-CccccHH-HHHH--HHccCCCHH-
Confidence            99999999999999988763  332212222223456788999999997765432 3332222 2222  234555444 


Q ss_pred             HHHHHhHHHcCCCC-----CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHH
Q 047393          168 RLFLSMEEVYHIEP-----SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRT  221 (373)
Q Consensus       168 ~~~~~m~~~~g~~p-----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~  221 (373)
                      +.++.+.+.....|     ....|..+...+.+.|+.++|...|++++...| |.+-+..
T Consensus       216 ~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~e~~~  275 (296)
T PRK11189        216 TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFVEHRY  275 (296)
T ss_pred             HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHHHHHH
Confidence            35555533211112     235788899999999999999999999887665 5544444

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

Probab=98.82  E-value=8.9e-07  Score=84.73  Aligned_cols=227  Identities=15%  Similarity=0.066  Sum_probs=139.5

Q ss_pred             HHHHHcCCHhHHHHHHHHHHhcCCCCCHH-HHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhc---
Q 047393           19 KACIKAKDYEMVHELLERIQLCCGFIDSY-SICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRC---   94 (373)
Q Consensus        19 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~---   94 (373)
                      ..+...|++++|++.++.-..  .-+|.. ........+.+.|+.++|..++..+++.+ +.|..-|..+..+..-.   
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~--~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEK--QILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhh--hCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhccc
Confidence            446789999999999977544  345654 46667778899999999999999999988 45666667777766332   


Q ss_pred             --CCHHHHHHHHccCCC--CChhHHHHHHHHHHhCCChH-HHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHH
Q 047393           95 --GKIDDADLAFKSTPE--KNSLSWTFIISARVNHGHPS-EALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRL  169 (373)
Q Consensus        95 --g~~~~A~~~~~~m~~--~d~~~~~~li~~~~~~g~~~-~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~  169 (373)
                        .+.+...++++++.+  |...+..-+.-.+.....+. .+...+..+..+|+++   +|+.+-..|......+-..++
T Consensus        89 ~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l  165 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESL  165 (517)
T ss_pred             ccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHH
Confidence              256777788877653  22222211211122111222 3344555566666543   444444445544444444455


Q ss_pred             HHHhHHHc---C----------CCCCHhHH--HHHHHHHHhcCCHHHHHHHHHhhCCCCCC-HHHHHHHHHHHHHcCCHH
Q 047393          170 FLSMEEVY---H----------IEPSEEHY--SIMVEALGRAGMFEEVLEFIKGIVPGKLC-PLIWRTLLLSSRVHGDMK  233 (373)
Q Consensus       170 ~~~m~~~~---g----------~~p~~~~~--~~li~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~  233 (373)
                      +.......   +          -+|+...|  .-+...|-..|+.++|++++++++...|+ +..|..-.+.+...|+++
T Consensus       166 ~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~  245 (517)
T PF12569_consen  166 VEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLK  245 (517)
T ss_pred             HHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHH
Confidence            44443221   0          12333233  44455666777777777777777776675 457777777777777777


Q ss_pred             HHHHHHHHHhccCCCC-cc
Q 047393          234 LAKYALDKLLELDPGM-YV  251 (373)
Q Consensus       234 ~A~~~~~~m~~~~P~~-y~  251 (373)
                      +|.+.++...++++.+ |+
T Consensus       246 ~Aa~~~~~Ar~LD~~DRyi  264 (517)
T PF12569_consen  246 EAAEAMDEARELDLADRYI  264 (517)
T ss_pred             HHHHHHHHHHhCChhhHHH
Confidence            7777777777777666 54

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 [], [].

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

Probab=98.79  E-value=4.1e-06  Score=74.91  Aligned_cols=231  Identities=14%  Similarity=0.011  Sum_probs=181.8

Q ss_pred             HHHHHHHH--cCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHh
Q 047393           16 LLLKACIK--AKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSR   93 (373)
Q Consensus        16 ~li~~~~~--~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~   93 (373)
                      .+..+..+  .|+|.+|+++..+-.+.+-.| ...|..-..+--+.|+.+.+-.++.+.-+..-.++..+.-+.......
T Consensus        87 ~~~egl~~l~eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~  165 (400)
T COG3071          87 ALNEGLLKLFEGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLN  165 (400)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHh
Confidence            34455543  699999999999877765433 334666777888999999999999999876446777888888888999


Q ss_pred             cCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHccCCH
Q 047393           94 CGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNP-------TTFRSALKAYALMGLV  163 (373)
Q Consensus        94 ~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-------~t~~~ll~~~~~~g~~  163 (373)
                      .|+.+.|..-.++..   ..+...-.....+|.+.|++.+...++.+|.+.|.--|+       .+|+.+++-....+..
T Consensus       166 ~~d~~aA~~~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~  245 (400)
T COG3071         166 RRDYPAARENVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGS  245 (400)
T ss_pred             CCCchhHHHHHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccc
Confidence            999999988777554   458889999999999999999999999999999876554       4888888887777777


Q ss_pred             HHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCC-------------------------------C
Q 047393          164 GEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVP-------------------------------G  212 (373)
Q Consensus       164 ~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------------------------------~  212 (373)
                      +.-...|+....+  .+-++..-.+++.-+.++|+.++|.++..+.++                               .
T Consensus       246 ~gL~~~W~~~pr~--lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~~~~~~l~~~d~~~l~k~~e~~l~~  323 (400)
T COG3071         246 EGLKTWWKNQPRK--LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLCRLIPRLRPGDPEPLIKAAEKWLKQ  323 (400)
T ss_pred             hHHHHHHHhccHH--hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHHHHHhhcCCCCchHHHHHHHHHHHh
Confidence            7777777777543  355666677788888888888888887766532                               1


Q ss_pred             CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          213 KL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       213 ~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .| ++..+.+|...|.+.+.+.+|...|+...+..|+.
T Consensus       324 h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~  361 (400)
T COG3071         324 HPEDPLLLSTLGRLALKNKLWGKASEALEAALKLRPSA  361 (400)
T ss_pred             CCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCCh
Confidence            12 45778888899999999999999999888877654

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

Probab=98.76  E-value=1.2e-06  Score=80.11  Aligned_cols=216  Identities=10%  Similarity=0.016  Sum_probs=165.4

Q ss_pred             HHHcCCHhHHHHHHHHHHhcCCCCCHHH-HHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHH
Q 047393           21 CIKAKDYEMVHELLERIQLCCGFIDSYS-ICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDD   99 (373)
Q Consensus        21 ~~~~g~~~~A~~l~~~m~~~g~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~   99 (373)
                      +.-.|+...|.+-|+..+...  |.... |--+...|....+.++..+.|+...+.. +-|..+|..-..++.-.+++++
T Consensus       336 ~fL~g~~~~a~~d~~~~I~l~--~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~  412 (606)
T KOG0547|consen  336 HFLKGDSLGAQEDFDAAIKLD--PAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEE  412 (606)
T ss_pred             hhhcCCchhhhhhHHHHHhcC--cccchHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHH
Confidence            344688889999999888743  33222 6777778899999999999999987765 4566677766677777789999


Q ss_pred             HHHHHccCCCC---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHH
Q 047393          100 ADLAFKSTPEK---NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEV  176 (373)
Q Consensus       100 A~~~~~~m~~~---d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  176 (373)
                      |..=|++...-   ++..|--+-.+.-+.+++++++..|++.+++ ++--...|+.....+...++++.|.+.|+...+ 
T Consensus       413 A~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~-  490 (606)
T KOG0547|consen  413 AIADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE-  490 (606)
T ss_pred             HHHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh-
Confidence            99999877643   5566666666777888999999999998876 455577888889999999999999999998753 


Q ss_pred             cCCCCC-------H--hHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          177 YHIEPS-------E--EHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       177 ~g~~p~-------~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                        +.|+       .  .+--+++..- -.+++..|.+++++++++.| ....|.+|...-.+.|+.++|.++|++...
T Consensus       491 --LE~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  491 --LEPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             --hccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence              2443       1  1112222222 34899999999999888887 457899999999999999999999998765

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

Probab=98.75  E-value=7.5e-06  Score=68.15  Aligned_cols=198  Identities=13%  Similarity=0.018  Sum_probs=156.3

Q ss_pred             HHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHh
Q 047393           48 SICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVN  124 (373)
Q Consensus        48 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~  124 (373)
                      +...|.-.|.+.|+...|..-++..+++. +.+..+|..+...|.+.|+.+.|.+-|+...   ..+..+.|....-+|.
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~  115 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHh
Confidence            45567778889999999999999998876 4557788999999999999999999998654   3356677777777899


Q ss_pred             CCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHH
Q 047393          125 HGHPSEALDLFKDKQWRYTSM-NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEV  202 (373)
Q Consensus       125 ~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A  202 (373)
                      .|++++|...|++....-.-| -..||..+--+..+.|+.+.|...|++..+.   .| ...+.-.+.....+.|+...|
T Consensus       116 qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~---dp~~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALEL---DPQFPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHh---CcCCChHHHHHHHHHHhcccchHH
Confidence            999999999999987753322 3467877777778899999999999988654   44 446667788888899999999


Q ss_pred             HHHHHhhCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          203 LEFIKGIVP-GKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       203 ~~~~~~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ..++++.-. ..++..+.-..|+.-.+.|+.+.+.+.=.++.+.-|..
T Consensus       193 r~~~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s  240 (250)
T COG3063         193 RLYLERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYS  240 (250)
T ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCc
Confidence            999988332 44677777777888888999998888877777766654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.75  E-value=2.5e-06  Score=80.98  Aligned_cols=198  Identities=13%  Similarity=0.064  Sum_probs=151.2

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHHc-----CC-CCchh-HHHHHHHHhHhcCCHHHHHHHHccCCC-------C--
Q 047393           47 YSICDILNSCLNPILLNVGTQAQAYMTKR-----GL-ISHPA-VGNCLININSRCGKIDDADLAFKSTPE-------K--  110 (373)
Q Consensus        47 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----g~-~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~-------~--  110 (373)
                      .+...+...|...|+++.|..++++.++.     |. .|.+. ..+.+...|...+++++|..+|+++..       +  
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            46666889999999999999999988665     21 23433 334577789999999999999987652       1  


Q ss_pred             --ChhHHHHHHHHHHhCCChHHHHHHHHHHHH---c--CC-CCCH-HHHHHHHHHHHccCCHHHHHHHHHHhHHHcC--C
Q 047393          111 --NSLSWTFIISARVNHGHPSEALDLFKDKQW---R--YT-SMNP-TTFRSALKAYALMGLVGEAYRLFLSMEEVYH--I  179 (373)
Q Consensus       111 --d~~~~~~li~~~~~~g~~~~A~~l~~~m~~---~--g~-~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g--~  179 (373)
                        -..+++.|..+|.+.|++++|...+++..+   .  |. .|.. ..++.+...|+..+++++|..+++...+.+-  .
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence              356788888899999999999888877543   1  22 2233 2456777788999999999999998765443  2


Q ss_pred             CCC----HhHHHHHHHHHHhcCCHHHHHHHHHhhCC--------CCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          180 EPS----EEHYSIMVEALGRAGMFEEVLEFIKGIVP--------GKLC-PLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       180 ~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~--------~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      .++    ..+++.|-..|...|++++|++++++++.        ..+. -..++.|..+|.+.++.++|.++|.+...
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~  437 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKD  437 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHH
Confidence            222    36899999999999999999999998764        1222 35778889999999999999999998765

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

Probab=98.70  E-value=1.1e-05  Score=75.28  Aligned_cols=238  Identities=11%  Similarity=-0.017  Sum_probs=156.2

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      |+..--.-..-+...+++.+..++++...+. .++....+..=|.++...|+-.+-..+=..|++.- |....+|-++.-
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~-dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~  320 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEK-DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGC  320 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhh-CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHH
Confidence            3444444555667788999999999988764 34455555566667777777666666666666543 556788988888


Q ss_pred             HhHhcCCHHHHHHHHccCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHc-------------------------
Q 047393           90 INSRCGKIDDADLAFKSTPE--K-NSLSWTFIISARVNHGHPSEALDLFKDKQWR-------------------------  141 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-------------------------  141 (373)
                      -|.-.|+.++|.+.|.+-..  | =...|-.+..+|+-.|..++|+..+...-+.                         
T Consensus       321 YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe  400 (611)
T KOG1173|consen  321 YYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAE  400 (611)
T ss_pred             HHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHH
Confidence            88888999999999976543  2 2345666666666666666665555443221                         


Q ss_pred             -------CCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcC-CCC----CHhHHHHHHHHHHhcCCHHHHHHHHHh
Q 047393          142 -------YTSM-NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYH-IEP----SEEHYSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       142 -------g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g-~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                             ++-| |+...+-+--..-+.+.+.+|..+|+.....-. +.+    -..+++.|..+|.+.++.++|...+++
T Consensus       401 ~Ff~~A~ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~  480 (611)
T KOG1173|consen  401 KFFKQALAIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQK  480 (611)
T ss_pred             HHHHHHHhcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHH
Confidence                   1222 333344333333345667777777766542100 011    223567777888888888888888888


Q ss_pred             hCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          209 IVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       209 ~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ++...| +..++.++.-.|...|+++.|.+.|.+.+.+.|++
T Consensus       481 aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n  522 (611)
T KOG1173|consen  481 ALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDN  522 (611)
T ss_pred             HHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCcc
Confidence            776555 67788888888888888888888888888888776

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

Probab=98.66  E-value=6.2e-07  Score=78.03  Aligned_cols=199  Identities=15%  Similarity=0.075  Sum_probs=163.5

Q ss_pred             HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC--CChhHH-HHHHHHH
Q 047393           46 SYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE--KNSLSW-TFIISAR  122 (373)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~d~~~~-~~li~~~  122 (373)
                      -.--+.+-++|.+.|.+.+|.+.++.-++.  .|-+.||-.|-.+|-+..+.+.|+.+|.+..+  |-.+|| ..+...+
T Consensus       223 wwWk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~  300 (478)
T KOG1129|consen  223 WWWKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIH  300 (478)
T ss_pred             HHHHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHH
Confidence            334467888999999999999999988776  46778888899999999999999999998874  544555 4466778


Q ss_pred             HhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHH
Q 047393          123 VNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEV  202 (373)
Q Consensus       123 ~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A  202 (373)
                      -..++.++|.++++...+.. +-+......+...|.-.++++.|..+|+++.+- |+ -++..|+.+.-+|.-.+++|-+
T Consensus       301 eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqm-G~-~speLf~NigLCC~yaqQ~D~~  377 (478)
T KOG1129|consen  301 EAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQM-GA-QSPELFCNIGLCCLYAQQIDLV  377 (478)
T ss_pred             HHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHh-cC-CChHHHhhHHHHHHhhcchhhh
Confidence            88899999999999988763 445666777777888899999999999999665 65 4667888888888889999999


Q ss_pred             HHHHHhhCC--CCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          203 LEFIKGIVP--GKLC--PLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       203 ~~~~~~~~~--~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +.-|++++.  ..|+  ...|..+-......|++..|.+.|+....-+|++
T Consensus       378 L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h  428 (478)
T KOG1129|consen  378 LPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQH  428 (478)
T ss_pred             HHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcch
Confidence            999998765  3354  3689999999999999999999999998877766

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

Probab=98.66  E-value=1.2e-05  Score=66.87  Aligned_cols=203  Identities=10%  Similarity=-0.052  Sum_probs=164.8

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCC-HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCGFID-SYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLINI   90 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~   90 (373)
                      .+.--+--+|.+.|++..|..-+++..+.  .|+ ..++..+...|.+.|+.+.|.+-|+...+.. +-+..+.|.....
T Consensus        36 ~arlqLal~YL~~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~F  112 (250)
T COG3063          36 KARLQLALGYLQQGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAF  112 (250)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHH
Confidence            34566778899999999999999999984  564 4578999999999999999999999998765 4567888999999


Q ss_pred             hHhcCCHHHHHHHHccCC-CC----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH
Q 047393           91 NSRCGKIDDADLAFKSTP-EK----NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGE  165 (373)
Q Consensus        91 ~~~~g~~~~A~~~~~~m~-~~----d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  165 (373)
                      +|..|++++|...|++.. .|    -..||..+.-+..+.|+.+.|.+.|++-.+.. +-...+...+.+...+.|+...
T Consensus       113 LC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~  191 (250)
T COG3063         113 LCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAP  191 (250)
T ss_pred             HHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchH
Confidence            999999999999998765 45    35688888888889999999999999988763 3345677888888899999999


Q ss_pred             HHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHH
Q 047393          166 AYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWR  220 (373)
Q Consensus       166 a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  220 (373)
                      |..+++.....  ..++..+.-..|..--+.|+-+.|.++=...-+..|...-|.
T Consensus       192 Ar~~~~~~~~~--~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s~e~q  244 (250)
T COG3063         192 ARLYLERYQQR--GGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYSEEYQ  244 (250)
T ss_pred             HHHHHHHHHhc--ccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHH
Confidence            99999998654  348888877788888888998888776555222455544443

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

Probab=98.63  E-value=2.1e-05  Score=74.64  Aligned_cols=231  Identities=12%  Similarity=0.034  Sum_probs=144.3

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      +...|-+-+.--..+.++++|..+|.+...  ..|+...|.--++.---.+..++|.+++++.++.- +.-...|-.+..
T Consensus       617 seeiwlaavKle~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~f-p~f~Kl~lmlGQ  693 (913)
T KOG0495|consen  617 SEEIWLAAVKLEFENDELERARDLLAKARS--ISGTERVWMKSANLERYLDNVEEALRLLEEALKSF-PDFHKLWLMLGQ  693 (913)
T ss_pred             cHHHHHHHHHHhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhC-CchHHHHHHHhH
Confidence            334455555555555666666666655554  23444444444444444455666666666555431 222334555555


Q ss_pred             HhHhcCCHHHHHHHHccCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHH
Q 047393           90 INSRCGKIDDADLAFKSTPE--K-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEA  166 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a  166 (373)
                      .+-+.++++.|.+.|..-.+  | .+-.|-.|...=-+.|.+..|..++++..-.+ +-|...|...|+.-.+.|+.+.|
T Consensus       694 i~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a  772 (913)
T KOG0495|consen  694 IEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQA  772 (913)
T ss_pred             HHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHH
Confidence            56666666666666655443  3 34456666666667778888888888877665 45778888888888888888888


Q ss_pred             HHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC
Q 047393          167 YRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELD  246 (373)
Q Consensus       167 ~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  246 (373)
                      ..+..+..++  ++.+...|.--|.+..+.++-.++..-+.+   .+.|++..-.+...+....++++|.+.|.+...++
T Consensus       773 ~~lmakALQe--cp~sg~LWaEaI~le~~~~rkTks~DALkk---ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d  847 (913)
T KOG0495|consen  773 ELLMAKALQE--CPSSGLLWAEAIWLEPRPQRKTKSIDALKK---CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKD  847 (913)
T ss_pred             HHHHHHHHHh--CCccchhHHHHHHhccCcccchHHHHHHHh---ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence            8888877664  455666676666666666665555444444   23456666666677777777888888888887777


Q ss_pred             CCC
Q 047393          247 PGM  249 (373)
Q Consensus       247 P~~  249 (373)
                      |+.
T Consensus       848 ~d~  850 (913)
T KOG0495|consen  848 PDN  850 (913)
T ss_pred             Ccc
Confidence            766

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

Probab=98.62  E-value=2.7e-05  Score=70.10  Aligned_cols=233  Identities=12%  Similarity=-0.017  Sum_probs=155.7

Q ss_pred             CCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHH----HHHHHHHHHcCCCchHHHHHHHHHHHHcC-------
Q 047393            8 SDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSY----SICDILNSCLNPILLNVGTQAQAYMTKRG-------   76 (373)
Q Consensus         8 ~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~m~~~g-------   76 (373)
                      +-|+.....+...+...|+.++|...|++.+.  +.|+..    .|..|   +.+.|+.++...+...+....       
T Consensus       229 r~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~--~dpy~i~~MD~Ya~L---L~~eg~~e~~~~L~~~Lf~~~~~ta~~w  303 (564)
T KOG1174|consen  229 RCNEHLMMALGKCLYYNGDYFQAEDIFSSTLC--ANPDNVEAMDLYAVL---LGQEGGCEQDSALMDYLFAKVKYTASHW  303 (564)
T ss_pred             CccHHHHHHHhhhhhhhcCchHHHHHHHHHhh--CChhhhhhHHHHHHH---HHhccCHhhHHHHHHHHHhhhhcchhhh
Confidence            34677788888999999999999999988765  344432    23333   344555555444444432111       


Q ss_pred             -----------------------CCCchhHHHHH---HHHhHhcCCHHHHHHHHccCC--CC-ChhHHHHHHHHHHhCCC
Q 047393           77 -----------------------LISHPAVGNCL---ININSRCGKIDDADLAFKSTP--EK-NSLSWTFIISARVNHGH  127 (373)
Q Consensus        77 -----------------------~~~~~~~~~~l---i~~~~~~g~~~~A~~~~~~m~--~~-d~~~~~~li~~~~~~g~  127 (373)
                                             +..|.....++   ...+...|+.++|.-.|+...  .| +..+|..|+.+|...|+
T Consensus       304 fV~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~  383 (564)
T KOG1174|consen  304 FVHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKR  383 (564)
T ss_pred             hhhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhch
Confidence                                   11222222222   234556677778777777544  33 77888888888888888


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHH-HHHH-ccCCHHHHHHHHHHhHHHcCCCCC-HhHHHHHHHHHHhcCCHHHHHH
Q 047393          128 PSEALDLFKDKQWRYTSMNPTTFRSAL-KAYA-LMGLVGEAYRLFLSMEEVYHIEPS-EEHYSIMVEALGRAGMFEEVLE  204 (373)
Q Consensus       128 ~~~A~~l~~~m~~~g~~p~~~t~~~ll-~~~~-~~g~~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~  204 (373)
                      ..+|.-+-+...+. ++.+..+.+.+- ..|. ..-.-++|.++++.-.   .+.|+ ....+.+.+.+...|+.+++..
T Consensus       384 ~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L---~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~  459 (564)
T KOG1174|consen  384 FKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSL---KINPIYTPAVNLIAELCQVEGPTKDIIK  459 (564)
T ss_pred             HHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhh---ccCCccHHHHHHHHHHHHhhCccchHHH
Confidence            88887766554433 233444444331 2222 2233467777777654   34564 4566777788888999999999


Q ss_pred             HHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          205 FIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       205 ~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ++++.+...||....+.|.+.+...+.+++|.+.|....+++|++
T Consensus       460 LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~  504 (564)
T KOG1174|consen  460 LLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKS  504 (564)
T ss_pred             HHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccc
Confidence            999988888999999999999999999999999999999988754

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

Probab=98.62  E-value=4.4e-06  Score=82.26  Aligned_cols=235  Identities=14%  Similarity=0.040  Sum_probs=159.4

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhc---CCCCCHH-------HHHHHHHHHcCCCchHHHHHHHHHHHHcCCC
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLC---CGFIDSY-------SICDILNSCLNPILLNVGTQAQAYMTKRGLI   78 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~---g~~p~~~-------~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~   78 (373)
                      +-....|.+..-+...|++++|...|......   ...+|..       -|| +....-..++.+.|.+.|..+.+..  
T Consensus       450 ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YN-larl~E~l~~~~~A~e~Yk~Ilkeh--  526 (1018)
T KOG2002|consen  450 IPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYN-LARLLEELHDTEVAEEMYKSILKEH--  526 (1018)
T ss_pred             CCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHH-HHHHHHhhhhhhHHHHHHHHHHHHC--
Confidence            66677888888888899999999999887764   1223331       233 3334445567777777777766542  


Q ss_pred             Cch-hHHHHHHHHhHhcCCHHHHHHHHccCC---------------------------------------CCChhHHHHH
Q 047393           79 SHP-AVGNCLININSRCGKIDDADLAFKSTP---------------------------------------EKNSLSWTFI  118 (373)
Q Consensus        79 ~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~---------------------------------------~~d~~~~~~l  118 (373)
                      |+. ..|--+..+--..+.+.+|...++...                                       .+|+.+--+|
T Consensus       527 p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaL  606 (1018)
T KOG2002|consen  527 PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIAL  606 (1018)
T ss_pred             chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHh
Confidence            322 222222212222234444444443221                                       1233333333


Q ss_pred             HHHHHh------------CCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHH
Q 047393          119 ISARVN------------HGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHY  186 (373)
Q Consensus       119 i~~~~~------------~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~  186 (373)
                      .+.|.+            .+..++|+++|.+.++.. +-|...-|.+--.++..|++.+|..+|.+.++..  .-+..+|
T Consensus       607 GN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~--~~~~dv~  683 (1018)
T KOG2002|consen  607 GNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREAT--SDFEDVW  683 (1018)
T ss_pred             hHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHH--hhCCcee
Confidence            333322            234678888888877664 4466777777778889999999999999997652  3355678


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhCC---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          187 SIMVEALGRAGMFEEVLEFIKGIVP---GKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       187 ~~li~~~~~~g~~~~A~~~~~~~~~---~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      -.+...|..+|++..|.++|+..++   -..++...+.|.+++.+.|++.+|.+.+.......|.+
T Consensus       684 lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~  749 (1018)
T KOG2002|consen  684 LNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSN  749 (1018)
T ss_pred             eeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCcc
Confidence            8899999999999999999998776   23478899999999999999999999999999998888

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

Probab=98.62  E-value=5.7e-05  Score=72.53  Aligned_cols=221  Identities=14%  Similarity=0.064  Sum_probs=151.1

Q ss_pred             HHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHc-C-----CCchHHHHHHHHHHH-------------
Q 047393           13 PWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCL-N-----PILLNVGTQAQAYMT-------------   73 (373)
Q Consensus        13 ~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~-~-----~~~~~~a~~~~~~m~-------------   73 (373)
                      ........+.+.|+.++|..+|..+.+.+  |+...|-..+..+. -     ..+.+...++++++.             
T Consensus        40 ~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~  117 (517)
T PF12569_consen   40 VLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKYPRSDAPRRLP  117 (517)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhCccccchhHhh
Confidence            34555677889999999999999999865  66666544444333 1     123555556666543             


Q ss_pred             ---------------------HcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCC------------------CCChh-
Q 047393           74 ---------------------KRGLISHPAVGNCLININSRCGKIDDADLAFKSTP------------------EKNSL-  113 (373)
Q Consensus        74 ---------------------~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~------------------~~d~~-  113 (373)
                                           +.|+|   .+|+.|-..|....+.+-..+++....                  .|... 
T Consensus       118 L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~l  194 (517)
T PF12569_consen  118 LDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLL  194 (517)
T ss_pred             cccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHH
Confidence                                 33432   245555555554444444444443321                  12232 


Q ss_pred             -HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHH
Q 047393          114 -SWTFIISARVNHGHPSEALDLFKDKQWRYTSMN-PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMV  190 (373)
Q Consensus       114 -~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li  190 (373)
                       ++.-+...|-..|++++|++.+++.++.  .|+ ...|..-.+.+-+.|++++|...++..++   +.+ |...-+-..
T Consensus       195 w~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~---LD~~DRyiNsK~a  269 (517)
T PF12569_consen  195 WTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARE---LDLADRYINSKCA  269 (517)
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---CChhhHHHHHHHH
Confidence             3455677788999999999999998886  566 56788888999999999999999999843   344 666666778


Q ss_pred             HHHHhcCCHHHHHHHHHhhCCCC---C--CH----HHH--HHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          191 EALGRAGMFEEVLEFIKGIVPGK---L--CP----LIW--RTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       191 ~~~~~~g~~~~A~~~~~~~~~~~---p--~~----~~~--~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      ..+.|+|++++|.+++.. +...   |  |.    ..|  .-...+|.+.|++..|.+.|..+.+
T Consensus       270 Ky~LRa~~~e~A~~~~~~-Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  270 KYLLRAGRIEEAEKTASL-FTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHHHCCCHHHHHHHHHh-hcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            889999999999999988 5411   2  11    233  3345688999999999998887775

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 [], [].

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

Probab=98.60  E-value=3.8e-05  Score=65.35  Aligned_cols=175  Identities=14%  Similarity=0.068  Sum_probs=127.7

Q ss_pred             HHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCH
Q 047393           68 AQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNP  147 (373)
Q Consensus        68 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~  147 (373)
                      +.+.+.......+......-...|++.|++++|++.......-+....+.  ..+.+..+.+-|.+.+++|.+-   -+.
T Consensus        95 l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~~lE~~Al~V--qI~lk~~r~d~A~~~lk~mq~i---ded  169 (299)
T KOG3081|consen   95 LYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGENLEAAALNV--QILLKMHRFDLAEKELKKMQQI---DED  169 (299)
T ss_pred             HHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccchHHHHHHHH--HHHHHHHHHHHHHHHHHHHHcc---chH
Confidence            34444433333443334444556899999999999998854444444443  3456777899999999999875   367


Q ss_pred             HHHHHHHHHHHc----cCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHH
Q 047393          148 TTFRSALKAYAL----MGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTL  222 (373)
Q Consensus       148 ~t~~~ll~~~~~----~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l  222 (373)
                      .|.+-|..++.+    .+.+..|.-+|++|.+  ..+|+..+-+-...++...|++++|..+++.++...+ ++.+...+
T Consensus       170 ~tLtQLA~awv~la~ggek~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nl  247 (299)
T KOG3081|consen  170 ATLTQLAQAWVKLATGGEKIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANL  247 (299)
T ss_pred             HHHHHHHHHHHHHhccchhhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHH
Confidence            788877777664    4578999999999954  4689999999999999999999999999999877444 66666666


Q ss_pred             HHHHHHcC-CHHHHHHHHHHHhccCCCC
Q 047393          223 LLSSRVHG-DMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       223 i~~~~~~g-~~~~A~~~~~~m~~~~P~~  249 (373)
                      +-.-...| +.+--.+...++....|..
T Consensus       248 iv~a~~~Gkd~~~~~r~l~QLk~~~p~h  275 (299)
T KOG3081|consen  248 IVLALHLGKDAEVTERNLSQLKLSHPEH  275 (299)
T ss_pred             HHHHHHhCCChHHHHHHHHHHHhcCCcc
Confidence            65555555 5555667888888888776

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.60  E-value=4.4e-06  Score=72.64  Aligned_cols=60  Identities=15%  Similarity=0.028  Sum_probs=49.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhCCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCC
Q 047393          188 IMVEALGRAGMFEEVLEFIKGIVPGKLC----PLIWRTLLLSSRVHGDMKLAKYALDKLLELDP  247 (373)
Q Consensus       188 ~li~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P  247 (373)
                      .+...|.+.|+.++|...+++++...|+    ...+..+..++...|+.++|...++.+....|
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            4556788899999999999997765443    47889999999999999999999988876555

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).

>PLN02789 farnesyltranstransferase

Probab=98.60  E-value=4.9e-05  Score=68.81  Aligned_cols=229  Identities=10%  Similarity=-0.054  Sum_probs=163.1

Q ss_pred             HHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHH-HHHHHHHHHcCCC-chHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 047393           13 PWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSY-SICDILNSCLNPI-LLNVGTQAQAYMTKRGLISHPAVGNCLINI   90 (373)
Q Consensus        13 ~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-~~~~ll~~~~~~~-~~~~a~~~~~~m~~~g~~~~~~~~~~li~~   90 (373)
                      +++.+-..+...++.++|+.+.+++++  +.|+.. +|+.--.++...+ .+++++..++.+.+.. +.+..+|+.---.
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~--lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~  115 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIR--LNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWL  115 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHH--HCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHH
Confidence            455666667778899999999999987  456554 4665555566666 6899999999998775 4556677765555


Q ss_pred             hHhcCC--HHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc---CC
Q 047393           91 NSRCGK--IDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALM---GL  162 (373)
Q Consensus        91 ~~~~g~--~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~---g~  162 (373)
                      +.+.|+  .+++..+++++.+   .|..+|+-..-.+.+.|+++++++.++++++.+. -|...|+.....+.+.   |.
T Consensus       116 l~~l~~~~~~~el~~~~kal~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~-~N~sAW~~R~~vl~~~~~l~~  194 (320)
T PLN02789        116 AEKLGPDAANKELEFTRKILSLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDV-RNNSAWNQRYFVITRSPLLGG  194 (320)
T ss_pred             HHHcCchhhHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCC-CchhHHHHHHHHHHhcccccc
Confidence            556665  3677888877763   4778888888888899999999999999998863 3556666655555444   22


Q ss_pred             ----HHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhc----CCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcC---
Q 047393          163 ----VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRA----GMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHG---  230 (373)
Q Consensus       163 ----~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~----g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g---  230 (373)
                          .+....+...+...  .+-|...|+.+...+...    ++..+|.+++.+.....| ++.....|++.|+...   
T Consensus       195 ~~~~~e~el~y~~~aI~~--~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~  272 (320)
T PLN02789        195 LEAMRDSELKYTIDAILA--NPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPT  272 (320)
T ss_pred             ccccHHHHHHHHHHHHHh--CCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccc
Confidence                24566776566543  134678888888888773    445678888888666555 5678888888887632   


Q ss_pred             ---------------CHHHHHHHHHHHhccCC
Q 047393          231 ---------------DMKLAKYALDKLLELDP  247 (373)
Q Consensus       231 ---------------~~~~A~~~~~~m~~~~P  247 (373)
                                     ..++|.++++.+.+.+|
T Consensus       273 ~~~~~~~~~~~~~~~~~~~a~~~~~~l~~~d~  304 (320)
T PLN02789        273 AEFRDTVDTLAEELSDSTLAQAVCSELEVADP  304 (320)
T ss_pred             hhhhhhhhccccccccHHHHHHHHHHHHhhCc
Confidence                           24678888888866665

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

Probab=98.59  E-value=2.3e-05  Score=76.86  Aligned_cols=68  Identities=22%  Similarity=0.315  Sum_probs=58.0

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          182 SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL--CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       182 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ++..|.-+.++|...|++.+|..+|..+....+  +...|..+..+|...|..++|.+.|+.++...|++
T Consensus       413 ~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~p~~  482 (895)
T KOG2076|consen  413 DVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILAPDN  482 (895)
T ss_pred             hHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcCCCc
Confidence            566778888999999999999999998444222  56789999999999999999999999999999988

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.58  E-value=9.2e-08  Score=56.01  Aligned_cols=35  Identities=23%  Similarity=0.152  Sum_probs=31.5

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCH
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDS   46 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~   46 (373)
                      ++||++|++|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47999999999999999999999999999999873

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.

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

Probab=98.54  E-value=9.6e-05  Score=70.30  Aligned_cols=189  Identities=10%  Similarity=0.039  Sum_probs=97.1

Q ss_pred             HcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCC--CCChhHHHHHHHHHHhCCChHHHHH
Q 047393           56 CLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTP--EKNSLSWTFIISARVNHGHPSEALD  133 (373)
Q Consensus        56 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~--~~d~~~~~~li~~~~~~g~~~~A~~  133 (373)
                      .-..|++..|..++.+..+.. +-+...|-+-+..-.++.+++.|..+|.+..  .++...|.--+..-.-.++.++|.+
T Consensus       594 ~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~r  672 (913)
T KOG0495|consen  594 KWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALR  672 (913)
T ss_pred             HHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHH
Confidence            334455555555555554433 2234455555555555555555555554433  2344444444444444455555555


Q ss_pred             HHHHHHHcCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCC
Q 047393          134 LFKDKQWRYTSMN-PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPG  212 (373)
Q Consensus       134 l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  212 (373)
                      ++++..+.  -|+ ...|..+-..+-+.++++.|...|..=.+  .++-.+..|-.|...=-+.|.+-+|..++++..-.
T Consensus       673 llEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k--~cP~~ipLWllLakleEk~~~~~rAR~ildrarlk  748 (913)
T KOG0495|consen  673 LLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK--KCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLK  748 (913)
T ss_pred             HHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc--cCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhc
Confidence            55555443  333 23444444455555555555555544322  12334455555555555566666666666653223


Q ss_pred             CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          213 KL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       213 ~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .| +...|-..|+.=.+.|+.+.|..++.+.++--|++
T Consensus       749 NPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~s  786 (913)
T KOG0495|consen  749 NPKNALLWLESIRMELRAGNKEQAELLMAKALQECPSS  786 (913)
T ss_pred             CCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcc
Confidence            34 45566666666666666666666666666655554

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

Probab=98.50  E-value=3.8e-05  Score=78.49  Aligned_cols=224  Identities=15%  Similarity=0.127  Sum_probs=130.5

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCC-----HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHH
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCGFID-----SYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNC   86 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~   86 (373)
                      ..|-..|.-..+.++.++|.+++++.... +.+.     ...|.++++.-...|.-+...++|+++.+..  -...+|..
T Consensus      1459 i~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~~~ 1535 (1710)
T KOG1070|consen 1459 ILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVHLK 1535 (1710)
T ss_pred             hHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHHHH
Confidence            55666777777777777777777776643 2111     1234444444444455566667777665532  22456667


Q ss_pred             HHHHhHhcCCHHHHHHHHccCCCC---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC--HH-HHHHHHHHHHcc
Q 047393           87 LININSRCGKIDDADLAFKSTPEK---NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMN--PT-TFRSALKAYALM  160 (373)
Q Consensus        87 li~~~~~~g~~~~A~~~~~~m~~~---d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~-t~~~ll~~~~~~  160 (373)
                      |...|.+.++.++|-++|+.|.+.   ....|...+..+.++++.+.|..++.+..+.  -|-  .+ ...-.+..-.+.
T Consensus      1536 L~~iy~k~ek~~~A~ell~~m~KKF~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1536 LLGIYEKSEKNDEADELLRLMLKKFGQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHHHhhcchhHHHHHHHHHHHhcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHHhhc
Confidence            777777777777777777777643   4566777777777777777777777766554  233  21 222233334456


Q ss_pred             CCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC----HHHHHHHHHHHHHcCCHHHHH
Q 047393          161 GLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC----PLIWRTLLLSSRVHGDMKLAK  236 (373)
Q Consensus       161 g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~  236 (373)
                      |+.+.+..+|+.....+  +--...|+.+|++-.+.|..+.+..+|++++.....    -..|..-+.-=.++|+-+.++
T Consensus      1614 GDaeRGRtlfEgll~ay--PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE 1691 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSAY--PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVE 1691 (1710)
T ss_pred             CCchhhHHHHHHHHhhC--ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHH
Confidence            77777777777665543  334556777777777777777777777775542221    134444444444555554444


Q ss_pred             HHHHHH
Q 047393          237 YALDKL  242 (373)
Q Consensus       237 ~~~~~m  242 (373)
                      .+-.++
T Consensus      1692 ~VKarA 1697 (1710)
T KOG1070|consen 1692 YVKARA 1697 (1710)
T ss_pred             HHHHHH
Confidence            444333

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.48  E-value=2.4e-05  Score=68.04  Aligned_cols=180  Identities=15%  Similarity=0.013  Sum_probs=111.5

Q ss_pred             CCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCH----HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchh-
Q 047393            8 SDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDS----YSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPA-   82 (373)
Q Consensus         8 ~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~-   82 (373)
                      ......+..+...+...|++++|...|++....  .|+.    .++..+..++.+.|++++|...++.+.+..- .+.. 
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~  106 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESR--YPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHP-NHPDA  106 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCc-CCCch
Confidence            345566777777888888888888888887763  2332    3556677778888888888888888876531 1222 


Q ss_pred             --HHHHHHHHhHhc--------CCHHHHHHHHccCCC--CC-hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHH
Q 047393           83 --VGNCLININSRC--------GKIDDADLAFKSTPE--KN-SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTT  149 (373)
Q Consensus        83 --~~~~li~~~~~~--------g~~~~A~~~~~~m~~--~d-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t  149 (373)
                        ++..+..++.+.        |+.++|.+.|+++..  |+ ...+.++.....    ....       .       ...
T Consensus       107 ~~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~~~~----~~~~-------~-------~~~  168 (235)
T TIGR03302       107 DYAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPNSEYAPDAKKRMDY----LRNR-------L-------AGK  168 (235)
T ss_pred             HHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCCChhHHHHHHHHHH----HHHH-------H-------HHH
Confidence              344444445443        567777777766643  22 122221111100    0000       0       001


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHh
Q 047393          150 FRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       150 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                      ...+...+.+.|++++|...++...+.+.-.| ....+..+..++.+.|+.++|..+++.
T Consensus       169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~  228 (235)
T TIGR03302       169 ELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAV  228 (235)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            12345567788888888888888876643223 356777888888888888888888877

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).

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.47  E-value=3.1e-07  Score=53.43  Aligned_cols=34  Identities=26%  Similarity=0.307  Sum_probs=29.6

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCC
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFI   44 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p   44 (373)
                      +.+||++|.+|++.|+++.|.++|++|.+.|++|
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            3688999999999999999999999999888877

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

Probab=98.45  E-value=2.7e-05  Score=65.64  Aligned_cols=148  Identities=14%  Similarity=0.105  Sum_probs=109.0

Q ss_pred             HHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHH
Q 047393           88 ININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAY  167 (373)
Q Consensus        88 i~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~  167 (373)
                      +.+|...|+++.+..-.+.+..+. .       .+...++.+++...+++..+.. +.|...|..+...|...|++++|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~-~-------~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL-H-------QFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc-c-------cccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            345777777776654443322221 0       1122566677777777766654 567888888989999999999999


Q ss_pred             HHHHHhHHHcCCCC-CHhHHHHHHHHH-HhcCC--HHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047393          168 RLFLSMEEVYHIEP-SEEHYSIMVEAL-GRAGM--FEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKL  242 (373)
Q Consensus       168 ~~~~~m~~~~g~~p-~~~~~~~li~~~-~~~g~--~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m  242 (373)
                      ..|++..+-   .| +...+..+..++ ...|+  .++|.++++++++..| ++..+..+...+...|++++|...|+++
T Consensus        94 ~a~~~Al~l---~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~a  170 (198)
T PRK10370         94 LAYRQALQL---RGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKV  170 (198)
T ss_pred             HHHHHHHHh---CCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999988643   44 667777777764 67777  5899999999888777 5678888888999999999999999999


Q ss_pred             hccCC
Q 047393          243 LELDP  247 (373)
Q Consensus       243 ~~~~P  247 (373)
                      .+..|
T Consensus       171 L~l~~  175 (198)
T PRK10370        171 LDLNS  175 (198)
T ss_pred             HhhCC
Confidence            98665

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.44  E-value=3.5e-07  Score=53.43  Aligned_cols=34  Identities=26%  Similarity=0.387  Sum_probs=28.1

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWRYTSMN  146 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~  146 (373)
                      ++||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            3688888888888888888888888888888886

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.

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.41  E-value=1e-05  Score=64.52  Aligned_cols=98  Identities=11%  Similarity=-0.063  Sum_probs=73.6

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHH
Q 047393          150 FRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRV  228 (373)
Q Consensus       150 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~  228 (373)
                      +.....++...|++++|...|+.....  -+.+...|..+..++.+.|++++|...|++++...| ++..+..+..++..
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~  104 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMA--QPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKM  104 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Confidence            445566667788888888888877543  133667777788888888888888888888777666 56777888888888


Q ss_pred             cCCHHHHHHHHHHHhccCCCC
Q 047393          229 HGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       229 ~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .|+.++|...|+..++..|++
T Consensus       105 ~g~~~eAi~~~~~Al~~~p~~  125 (144)
T PRK15359        105 MGEPGLAREAFQTAIKMSYAD  125 (144)
T ss_pred             cCCHHHHHHHHHHHHHhCCCC
Confidence            888888888888888877765

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

Probab=98.40  E-value=0.0002  Score=70.44  Aligned_cols=228  Identities=12%  Similarity=-0.006  Sum_probs=158.4

Q ss_pred             HHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHH
Q 047393           19 KACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKID   98 (373)
Q Consensus        19 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~   98 (373)
                      +.+...|++++|.+++.+.++.. +.+...|-+|...|-+.|+.+.+....-..- +-.+.|...|-.+-+...+.|.++
T Consensus       147 N~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAA-HL~p~d~e~W~~ladls~~~~~i~  224 (895)
T KOG2076|consen  147 NNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAA-HLNPKDYELWKRLADLSEQLGNIN  224 (895)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHH-hcCCCChHHHHHHHHHHHhcccHH
Confidence            33344499999999999998752 3466789999999999999998876654432 223556788999999999999999


Q ss_pred             HHHHHHccCCCCChhHH---HHHHHHHHhCCChHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHHccCCHHHHHHHH
Q 047393           99 DADLAFKSTPEKNSLSW---TFIISARVNHGHPSEALDLFKDKQWRYTSMNP-----TTFRSALKAYALMGLVGEAYRLF  170 (373)
Q Consensus        99 ~A~~~~~~m~~~d~~~~---~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-----~t~~~ll~~~~~~g~~~~a~~~~  170 (373)
                      .|.-.|.+..+.++.-|   ---+..|-+.|+...|.+.|.++.+... |..     .+--.++..+...++-+.|.+.+
T Consensus       225 qA~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p-~~d~er~~d~i~~~~~~~~~~~~~e~a~~~l  303 (895)
T KOG2076|consen  225 QARYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDP-PVDIERIEDLIRRVAHYFITHNERERAAKAL  303 (895)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCC-chhHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            99999988775433333   3345678888999999999988887632 222     23334455666667667777777


Q ss_pred             HHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhh-----------------------------------------
Q 047393          171 LSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGI-----------------------------------------  209 (373)
Q Consensus       171 ~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-----------------------------------------  209 (373)
                      +......+-.-+...++.++..|.+...++.|......+                                         
T Consensus       304 e~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl  383 (895)
T KOG2076|consen  304 EGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRL  383 (895)
T ss_pred             HHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhH
Confidence            776654444445556666666666666666655543321                                         


Q ss_pred             ---------------------CC-CCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          210 ---------------------VP-GKL--CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       210 ---------------------~~-~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                                           .. ..|  ++..|.-+..+|...|++.+|..++..+....+..
T Consensus       384 ~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~  447 (895)
T KOG2076|consen  384 MICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQ  447 (895)
T ss_pred             hhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCcccc
Confidence                                 00 011  33567778888999999999999999998866655

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

Probab=98.39  E-value=6.6e-06  Score=73.42  Aligned_cols=198  Identities=12%  Similarity=0.003  Sum_probs=131.6

Q ss_pred             CCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHH
Q 047393            8 SDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNC   86 (373)
Q Consensus         8 ~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~   86 (373)
                      .|.......+...+...++-+.++.-+++....+..+ +..........+...|++++|.+++..    +  .+......
T Consensus        63 ~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~----~--~~lE~~al  136 (290)
T PF04733_consen   63 SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHK----G--GSLELLAL  136 (290)
T ss_dssp             SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTT----T--TCHHHHHH
T ss_pred             ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHc----c--CcccHHHH
Confidence            4666655544443333344555655555544333332 333333344567788999999988854    2  45677777


Q ss_pred             HHHHhHhcCCHHHHHHHHccCCCC--ChhH---HHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC
Q 047393           87 LININSRCGKIDDADLAFKSTPEK--NSLS---WTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMG  161 (373)
Q Consensus        87 li~~~~~~g~~~~A~~~~~~m~~~--d~~~---~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g  161 (373)
                      .+..|.+.++++.|.+.++.|.+-  |...   ..+.+..+.-.+.+.+|..+|+++.+. ..++..+.+.+..++...|
T Consensus       137 ~Vqi~L~~~R~dlA~k~l~~~~~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~  215 (290)
T PF04733_consen  137 AVQILLKMNRPDLAEKELKNMQQIDEDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLG  215 (290)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhC
Confidence            889999999999999999999853  3322   233344343345799999999998665 6789999999999999999


Q ss_pred             CHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCH-HHHHHHHHhhCC-CCCC
Q 047393          162 LVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMF-EEVLEFIKGIVP-GKLC  215 (373)
Q Consensus       162 ~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~-~~A~~~~~~~~~-~~p~  215 (373)
                      ++++|..++++....  -+-+..+...+|....-.|+. +.+.+++.. ++ ..|+
T Consensus       216 ~~~eAe~~L~~al~~--~~~~~d~LaNliv~~~~~gk~~~~~~~~l~q-L~~~~p~  268 (290)
T PF04733_consen  216 HYEEAEELLEEALEK--DPNDPDTLANLIVCSLHLGKPTEAAERYLSQ-LKQSNPN  268 (290)
T ss_dssp             -HHHHHHHHHHHCCC---CCHHHHHHHHHHHHHHTT-TCHHHHHHHHH-CHHHTTT
T ss_pred             CHHHHHHHHHHHHHh--ccCCHHHHHHHHHHHHHhCCChhHHHHHHHH-HHHhCCC
Confidence            999999999987543  133566777788877778887 677888888 55 4454

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=98.39  E-value=4.2e-05  Score=69.63  Aligned_cols=203  Identities=13%  Similarity=0.036  Sum_probs=154.8

Q ss_pred             HcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHH
Q 047393           23 KAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADL  102 (373)
Q Consensus        23 ~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  102 (373)
                      .+|++++|.+.|++.....-.-....||.=+ .+-..|++++|+..|-.+... +.-+..+.--+.+.|-...+...|.+
T Consensus       502 ~ngd~dka~~~ykeal~ndasc~ealfnigl-t~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie  579 (840)
T KOG2003|consen  502 ANGDLDKAAEFYKEALNNDASCTEALFNIGL-TAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIE  579 (840)
T ss_pred             ecCcHHHHHHHHHHHHcCchHHHHHHHHhcc-cHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHH
Confidence            3688999999999988653222223343322 345678999999988776332 12456666777888888889999999


Q ss_pred             HHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCC
Q 047393          103 AFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHI  179 (373)
Q Consensus       103 ~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~  179 (373)
                      ++-+..   ..|+...+-|...|-+.|+-..|.+..-+-..- ++-|..|...+...|....-++++..+|+...   -+
T Consensus       580 ~~~q~~slip~dp~ilskl~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaa---li  655 (840)
T KOG2003|consen  580 LLMQANSLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAA---LI  655 (840)
T ss_pred             HHHHhcccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH---hc
Confidence            987654   458899999999999999999998876543322 45677888889999999999999999999873   46


Q ss_pred             CCCHhHHHHHHHHHH-hcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCC
Q 047393          180 EPSEEHYSIMVEALG-RAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGD  231 (373)
Q Consensus       180 ~p~~~~~~~li~~~~-~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~  231 (373)
                      .|+..-|..+|..|. |.|++.+|++++...-+.-| |......|++.+...|.
T Consensus       656 qp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  656 QPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             CccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            999999998886554 68999999999998333334 77888888888887774

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

Probab=98.39  E-value=0.00021  Score=66.15  Aligned_cols=90  Identities=9%  Similarity=0.034  Sum_probs=42.7

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCH--hHHHHHHHHHHhc
Q 047393          119 ISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSE--EHYSIMVEALGRA  196 (373)
Q Consensus       119 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~--~~~~~li~~~~~~  196 (373)
                      ...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|..+++.........|+.  ..|..+...+...
T Consensus       121 a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~  199 (355)
T cd05804         121 AFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLER  199 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHC
Confidence            334455555555555555555442 2233444445555555555555555555543321111221  1233444555555


Q ss_pred             CCHHHHHHHHHhh
Q 047393          197 GMFEEVLEFIKGI  209 (373)
Q Consensus       197 g~~~~A~~~~~~~  209 (373)
                      |+.++|..+++++
T Consensus       200 G~~~~A~~~~~~~  212 (355)
T cd05804         200 GDYEAALAIYDTH  212 (355)
T ss_pred             CCHHHHHHHHHHH
Confidence            5555555555553

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.

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

Probab=98.37  E-value=8.1e-05  Score=69.59  Aligned_cols=210  Identities=11%  Similarity=0.004  Sum_probs=159.9

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCC-HHHHHHHHHHHcCCCchHHHHHHHHHHHHc--CCCCchhHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFID-SYSICDILNSCLNPILLNVGTQAQAYMTKR--GLISHPAVGNC   86 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--g~~~~~~~~~~   86 (373)
                      ..++|-++---|.-.|+..+|.+.|.+...  +.|. ...|.....+++-.+..++|...+...-+.  |.. -+..|. 
T Consensus       311 ~a~sW~aVg~YYl~i~k~seARry~SKat~--lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~h-lP~LYl-  386 (611)
T KOG1173|consen  311 KALSWFAVGCYYLMIGKYSEARRYFSKATT--LDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCH-LPSLYL-  386 (611)
T ss_pred             CCcchhhHHHHHHHhcCcHHHHHHHHHHhh--cCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCc-chHHHH-
Confidence            457788888888888888888888887654  3333 235777778888888888888888776443  211 122222 


Q ss_pred             HHHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHc----C--CCCCHHHHHHHHHHH
Q 047393           87 LININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWR----Y--TSMNPTTFRSALKAY  157 (373)
Q Consensus        87 li~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g--~~p~~~t~~~ll~~~  157 (373)
                       .--|.+.+.++.|.+.|.+..   ..|+...+-+.-.....+.+.+|..+|+..+..    +  ......+++.+-.+|
T Consensus       387 -gmey~~t~n~kLAe~Ff~~A~ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~  465 (611)
T KOG1173|consen  387 -GMEYMRTNNLKLAEKFFKQALAIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAY  465 (611)
T ss_pred             -HHHHHHhccHHHHHHHHHHHHhcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHH
Confidence             233778888999999987655   347888888877777788899999999887621    1  112556789999999


Q ss_pred             HccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 047393          158 ALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSS  226 (373)
Q Consensus       158 ~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~  226 (373)
                      .+.+..++|...++.....  .+-+..++.++.-.|...|+++.|.+.|.+++.+.|+..+-..++.-+
T Consensus       466 Rkl~~~~eAI~~~q~aL~l--~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  466 RKLNKYEEAIDYYQKALLL--SPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLA  532 (611)
T ss_pred             HHHhhHHHHHHHHHHHHHc--CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHH
Confidence            9999999999999998653  355889999999999999999999999999888999887777777643

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

Probab=98.36  E-value=0.00038  Score=64.03  Aligned_cols=237  Identities=11%  Similarity=0.072  Sum_probs=162.8

Q ss_pred             CCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHc-CC-CCchhHHH
Q 047393            8 SDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKR-GL-ISHPAVGN   85 (373)
Q Consensus         8 ~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-g~-~~~~~~~~   85 (373)
                      +|+...|++.|+.=.+-..++.|..++++..-  +.|++.+|.-...-=-+.|.+..|.++|+..++. |- .-+...++
T Consensus       171 ~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfv  248 (677)
T KOG1915|consen  171 EPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFV  248 (677)
T ss_pred             CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            68888999999888888889999999888875  5688888888777777788888888888876543 10 01112222


Q ss_pred             HHHHHhHhcCCHHHHHHHHc----cCC----------------------------------------CC---ChhHHHHH
Q 047393           86 CLININSRCGKIDDADLAFK----STP----------------------------------------EK---NSLSWTFI  118 (373)
Q Consensus        86 ~li~~~~~~g~~~~A~~~~~----~m~----------------------------------------~~---d~~~~~~l  118 (373)
                      +....=.++..++.|.-+|+    .++                                        ..   |-.+|--.
T Consensus       249 aFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np~nYDsWfdy  328 (677)
T KOG1915|consen  249 AFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNPYNYDSWFDY  328 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCCCCchHHHHH
Confidence            22222233334444444432    111                                        11   44556666


Q ss_pred             HHHHHhCCChHHHHHHHHHHHHcCCCCCH-------HHHHH---HHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHH
Q 047393          119 ISARVNHGHPSEALDLFKDKQWRYTSMNP-------TTFRS---ALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSI  188 (373)
Q Consensus       119 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~-------~t~~~---ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~  188 (373)
                      +..-...|+.+...++|++.... ++|-.       ..|.-   .+..-....+++.+.++|+...+  =++-...|+.-
T Consensus       329 lrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~--lIPHkkFtFaK  405 (677)
T KOG1915|consen  329 LRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD--LIPHKKFTFAK  405 (677)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hcCcccchHHH
Confidence            66667778999999999988765 45522       12221   22222356788888899988864  24445667766


Q ss_pred             HHHHHH----hcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          189 MVEALG----RAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       189 li~~~~----~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +--+|+    ++.++..|.+++..++...|-..+|...|..=.+.++++....++++-++..|.+
T Consensus       406 iWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~  470 (677)
T KOG1915|consen  406 IWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPEN  470 (677)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHh
Confidence            655554    5788888999998888878888888888888888889999999999998888888

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

Probab=98.35  E-value=0.00019  Score=71.25  Aligned_cols=237  Identities=14%  Similarity=0.050  Sum_probs=152.3

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCC-C-CCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCch--hHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCG-F-IDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHP--AVG   84 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~-~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~--~~~   84 (373)
                      -|.+..|.|-+-|.-.|++..++.+...+..... . .-..+|-.+.+++-..|++++|...|.+..+..  ++-  ..+
T Consensus       268 ~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~--~d~~~l~~  345 (1018)
T KOG2002|consen  268 ENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKAD--NDNFVLPL  345 (1018)
T ss_pred             CCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccC--CCCccccc
Confidence            5778888888889999999999998888776431 1 123457778888889999999999997766543  443  344


Q ss_pred             HHHHHHhHhcCCHHHHHHHHccCCC--C-ChhHHHHHHHHHHhCC----ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 047393           85 NCLININSRCGKIDDADLAFKSTPE--K-NSLSWTFIISARVNHG----HPSEALDLFKDKQWRYTSMNPTTFRSALKAY  157 (373)
Q Consensus        85 ~~li~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g----~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~  157 (373)
                      -.|..+|.+.|+++.|...|+.+.+  | +..|...|...|...+    ..+.|..++.+..+.- +-|...|..+...+
T Consensus       346 ~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~  424 (1018)
T KOG2002|consen  346 VGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLL  424 (1018)
T ss_pred             cchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHH
Confidence            5677889999999999998887763  3 4566666666666654    3455555555554432 33555666665554


Q ss_pred             HccCCHHHHHHHHHHhH---HHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCC-----CCCH------HHHHHHH
Q 047393          158 ALMGLVGEAYRLFLSME---EVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPG-----KLCP------LIWRTLL  223 (373)
Q Consensus       158 ~~~g~~~~a~~~~~~m~---~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~p~~------~~~~~li  223 (373)
                      -. +++..++.+|....   ...+-.+.+...|.+.......|.+.+|...|..+...     .++.      .+-..+.
T Consensus       425 e~-~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNla  503 (1018)
T KOG2002|consen  425 EQ-TDPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLA  503 (1018)
T ss_pred             Hh-cChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHH
Confidence            43 34444455554432   11233456667777777777777777777777765431     1222      1222334


Q ss_pred             HHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          224 LSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       224 ~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ..+-..++.+.|.+.|..+.+..|.-
T Consensus       504 rl~E~l~~~~~A~e~Yk~Ilkehp~Y  529 (1018)
T KOG2002|consen  504 RLLEELHDTEVAEEMYKSILKEHPGY  529 (1018)
T ss_pred             HHHHhhhhhhHHHHHHHHHHHHCchh
Confidence            44445567777777777777766644

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

Probab=98.34  E-value=0.00047  Score=63.79  Aligned_cols=94  Identities=16%  Similarity=0.049  Sum_probs=49.0

Q ss_pred             HHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC---CH--HHHHHHHHHH
Q 047393          152 SALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL---CP--LIWRTLLLSS  226 (373)
Q Consensus       152 ~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p---~~--~~~~~li~~~  226 (373)
                      .+...+...|++++|...+++..+.  -+.+...+..+...|...|++++|..++++.++..|   +.  ..|..+...+
T Consensus       119 ~~a~~~~~~G~~~~A~~~~~~al~~--~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~  196 (355)
T cd05804         119 MLAFGLEEAGQYDRAEEAARRALEL--NPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFY  196 (355)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHH
Confidence            3344455566666666666655432  122344455555556666666666666665444222   11  2344455555


Q ss_pred             HHcCCHHHHHHHHHHHhccCC
Q 047393          227 RVHGDMKLAKYALDKLLELDP  247 (373)
Q Consensus       227 ~~~g~~~~A~~~~~~m~~~~P  247 (373)
                      ...|+.++|..++++.....|
T Consensus       197 ~~~G~~~~A~~~~~~~~~~~~  217 (355)
T cd05804         197 LERGDYEAALAIYDTHIAPSA  217 (355)
T ss_pred             HHCCCHHHHHHHHHHHhcccc
Confidence            666666666666666554333

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.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.33  E-value=9.8e-07  Score=51.24  Aligned_cols=33  Identities=21%  Similarity=0.357  Sum_probs=23.6

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCC
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWRYTSM  145 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p  145 (373)
                      .+|+++|.+|++.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            467777777777777777777777777777666

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

Probab=98.32  E-value=3e-05  Score=71.25  Aligned_cols=186  Identities=15%  Similarity=0.078  Sum_probs=144.8

Q ss_pred             CCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHH
Q 047393           59 PILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLF  135 (373)
Q Consensus        59 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~  135 (373)
                      .|+.-.|.+-|+..++....++ ..|--+..+|....+-++..+.|+...   ..|+.+|.--...+.-.+++++|..=|
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF  417 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADF  417 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHH
Confidence            4778888888888887653332 237677778999999999999998765   336677777777777788899999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC
Q 047393          136 KDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC  215 (373)
Q Consensus       136 ~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  215 (373)
                      ++.+... +-+...|..+..+.-+.+.++++...|++.+++  ++.-+..|+-....+...+++++|.+.|+.++...|+
T Consensus       418 ~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~  494 (606)
T KOG0547|consen  418 QKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK--FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPR  494 (606)
T ss_pred             HHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccc
Confidence            9988763 335667778878888899999999999999775  4667788999999999999999999999998886665


Q ss_pred             ---------HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          216 ---------PLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       216 ---------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                               +..--.++-.-. .+++..|.+++++..+++|..
T Consensus       495 ~~~~~v~~~plV~Ka~l~~qw-k~d~~~a~~Ll~KA~e~Dpkc  536 (606)
T KOG0547|consen  495 EHLIIVNAAPLVHKALLVLQW-KEDINQAENLLRKAIELDPKC  536 (606)
T ss_pred             cccccccchhhhhhhHhhhch-hhhHHHHHHHHHHHHccCchH
Confidence                     122222222222 389999999999999999976

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.31  E-value=1.7e-05  Score=63.26  Aligned_cols=102  Identities=10%  Similarity=-0.120  Sum_probs=67.2

Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHH
Q 047393          112 SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE  191 (373)
Q Consensus       112 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  191 (373)
                      +..+..+...+...|++++|...|+...... +.+..+|..+..++...|++++|...|+.....  -+.+...+..+..
T Consensus        24 p~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l--~p~~~~a~~~lg~  100 (144)
T PRK15359         24 PETVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALML--DASHPEPVYQTGV  100 (144)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCcHHHHHHHH
Confidence            3334445566667777777777777766553 335666677777777777777777777777542  2335666777777


Q ss_pred             HHHhcCCHHHHHHHHHhhCCCCCCH
Q 047393          192 ALGRAGMFEEVLEFIKGIVPGKLCP  216 (373)
Q Consensus       192 ~~~~~g~~~~A~~~~~~~~~~~p~~  216 (373)
                      ++.+.|+.++|...|++++...|+.
T Consensus       101 ~l~~~g~~~eAi~~~~~Al~~~p~~  125 (144)
T PRK15359        101 CLKMMGEPGLAREAFQTAIKMSYAD  125 (144)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            7777777777777777766666643

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

Probab=98.28  E-value=0.00014  Score=74.49  Aligned_cols=200  Identities=12%  Similarity=0.084  Sum_probs=163.6

Q ss_pred             CCCH-HHHHHHHHHHcCCCchHHHHHHHHHHHHc-CCC---CchhHHHHHHHHhHhcCCHHHHHHHHccCCCC-C-hhHH
Q 047393           43 FIDS-YSICDILNSCLNPILLNVGTQAQAYMTKR-GLI---SHPAVGNCLININSRCGKIDDADLAFKSTPEK-N-SLSW  115 (373)
Q Consensus        43 ~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-g~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-d-~~~~  115 (373)
                      .||. ..|-.-|....+.++++.|+++.++.+.. ++.   --...|.++++.-.--|.-+...++|++..+- | ...|
T Consensus      1454 sPNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~ 1533 (1710)
T KOG1070|consen 1454 SPNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVH 1533 (1710)
T ss_pred             CCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHH
Confidence            3654 46888888888999999999999998654 221   12457888888777778888889999988753 3 4678


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC---HhHHHHHHHH
Q 047393          116 TFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS---EEHYSIMVEA  192 (373)
Q Consensus       116 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~---~~~~~~li~~  192 (373)
                      ..|...|.+.++.++|.++++.|.+. +.-....|...+..+.+..+-+.|..++.+..+.   .|.   +....-.+..
T Consensus      1534 ~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~---lPk~eHv~~IskfAqL 1609 (1710)
T KOG1070|consen 1534 LKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS---LPKQEHVEFISKFAQL 1609 (1710)
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh---cchhhhHHHHHHHHHH
Confidence            89999999999999999999999876 3467789999999999999999999999988654   454   4455556677


Q ss_pred             HHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC
Q 047393          193 LGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELD  246 (373)
Q Consensus       193 ~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  246 (373)
                      -.+.|+.+.+..+|+..+...| -...|+..|+.=.++|+.+.+..+|++++.+.
T Consensus      1610 EFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~ 1664 (1710)
T KOG1070|consen 1610 EFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELK 1664 (1710)
T ss_pred             HhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcC
Confidence            7789999999999999666566 56899999999999999999999999999843

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.27  E-value=1.9e-05  Score=73.87  Aligned_cols=191  Identities=16%  Similarity=0.110  Sum_probs=149.3

Q ss_pred             HcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCC---ChhHHHHHHHHHHhCCChHHHH
Q 047393           56 CLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEK---NSLSWTFIISARVNHGHPSEAL  132 (373)
Q Consensus        56 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---d~~~~~~li~~~~~~g~~~~A~  132 (373)
                      +.+.|++.+|.-.|+..++.. +-+...|--|.......++-..|+..+++..+-   |....-+|.-.|...|.-.+|+
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHH
Confidence            457788999999999988776 567889999998999999888898888877643   5667777778899999999999


Q ss_pred             HHHHHHHHcCCC--------CCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHH
Q 047393          133 DLFKDKQWRYTS--------MNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLE  204 (373)
Q Consensus       133 ~l~~~m~~~g~~--------p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  204 (373)
                      ..++.-+....+        ++..+=+.  ..+.....+....++|-++....+..+|..+...|--.|--.|.+++|..
T Consensus       374 ~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD  451 (579)
T KOG1125|consen  374 KMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD  451 (579)
T ss_pred             HHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH
Confidence            999887654210        01110000  12223334556667777776766766788888888888999999999999


Q ss_pred             HHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          205 FIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       205 ~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      -|+.++..+| |..+||.|...++...+.++|...|.+.+++.|.-
T Consensus       452 cf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~y  497 (579)
T KOG1125|consen  452 CFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGY  497 (579)
T ss_pred             HHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCe
Confidence            9999999888 67899999999999999999999999999999854

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

Probab=98.26  E-value=3e-05  Score=60.98  Aligned_cols=101  Identities=14%  Similarity=0.001  Sum_probs=76.4

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHH
Q 047393          147 PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLS  225 (373)
Q Consensus       147 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~  225 (373)
                      ......+...+...|+.++|...++.....  .+.+...+..+...+.+.|++++|...+++++...| ++..+..+...
T Consensus        17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~   94 (135)
T TIGR02552        17 LEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAEC   94 (135)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHH
Confidence            344556666777788888888888887553  244667777888888888888888888888666555 46777777788


Q ss_pred             HHHcCCHHHHHHHHHHHhccCCCC
Q 047393          226 SRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       226 ~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +...|+.++|...++...+.+|++
T Consensus        95 ~~~~g~~~~A~~~~~~al~~~p~~  118 (135)
T TIGR02552        95 LLALGEPESALKALDLAIEICGEN  118 (135)
T ss_pred             HHHcCCHHHHHHHHHHHHHhcccc
Confidence            888888888888888888877755

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

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

Probab=98.25  E-value=1.2e-06  Score=49.63  Aligned_cols=31  Identities=16%  Similarity=0.270  Sum_probs=26.1

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCC
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCG   42 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~   42 (373)
                      ++||++|++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            5788888888888888888888888888764

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.

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

Probab=98.23  E-value=4.7e-05  Score=73.17  Aligned_cols=211  Identities=14%  Similarity=0.045  Sum_probs=161.9

Q ss_pred             HHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcC
Q 047393           16 LLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCG   95 (373)
Q Consensus        16 ~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g   95 (373)
                      .+...+...|-...|+.+|++...         +..++.+|+..|+-..|..+..+-.+  -+||...|-.+.+......
T Consensus       403 ~laell~slGitksAl~I~Erlem---------w~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s  471 (777)
T KOG1128|consen  403 LLAELLLSLGITKSALVIFERLEM---------WDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPS  471 (777)
T ss_pred             HHHHHHHHcchHHHHHHHHHhHHH---------HHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChH
Confidence            345566778888888888887643         55677788888888888888887776  3788889999998888888


Q ss_pred             CHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHH
Q 047393           96 KIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEE  175 (373)
Q Consensus        96 ~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  175 (373)
                      -+++|.++++....+   +-..+.....+.++++++.+.|+.-.+.+ +.-..+|-..-.+..+.++++.|.+.|.....
T Consensus       472 ~yEkawElsn~~sar---A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q~av~aF~rcvt  547 (777)
T KOG1128|consen  472 LYEKAWELSNYISAR---AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQAAVKAFHRCVT  547 (777)
T ss_pred             HHHHHHHHhhhhhHH---HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhHHHHHHHHHHhh
Confidence            889999988776543   22222222334788899988888765543 34567787777778889999999999987753


Q ss_pred             HcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          176 VYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       176 ~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                         ..| +...||.+-.+|.+.|+..+|...+.++++..- +...|...+....+.|.+++|.+.+.++..
T Consensus       548 ---L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  548 ---LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             ---cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence               355 568899999999999999999999999877433 456777778888899999999999998876

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

Probab=98.21  E-value=0.00021  Score=72.19  Aligned_cols=217  Identities=14%  Similarity=0.028  Sum_probs=118.1

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHH-HHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYS-ICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCL   87 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l   87 (373)
                      .+...|-.|+..+...+++++|.++.+...+  ..|+... |-.+...+.+.++...+..+  .+               
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~--~~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~---------------   89 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLK--EHKKSISALYISGILSLSRRPLNDSNLL--NL---------------   89 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHH--hCCcceehHHHHHHHHHhhcchhhhhhh--hh---------------
Confidence            3556667777777777777777777765544  2344332 22222234444444444333  21               


Q ss_pred             HHHhHhcCCHHHHHHHHccCCC--CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH
Q 047393           88 ININSRCGKIDDADLAFKSTPE--KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGE  165 (373)
Q Consensus        88 i~~~~~~g~~~~A~~~~~~m~~--~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  165 (373)
                      ++......++.-...+...|..  .+..++..+..+|-+.|+.++|..+++++.+.. +-|..+.|.+...|+.. ++++
T Consensus        90 l~~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~K  167 (906)
T PRK14720         90 IDSFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEK  167 (906)
T ss_pred             hhhcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHH
Confidence            1112222222111111122211  123456677778888888888888888888776 45677888888888888 8888


Q ss_pred             HHHHHHHhHHHcCCCCCHhHHHHHHHH---HHh--cCCHHHHHHHHHhhCC---CCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047393          166 AYRLFLSMEEVYHIEPSEEHYSIMVEA---LGR--AGMFEEVLEFIKGIVP---GKLCPLIWRTLLLSSRVHGDMKLAKY  237 (373)
Q Consensus       166 a~~~~~~m~~~~g~~p~~~~~~~li~~---~~~--~g~~~~A~~~~~~~~~---~~p~~~~~~~li~~~~~~g~~~~A~~  237 (373)
                      |.+++......+   .+..-|+.+...   ++.  ..+.+.-.++.+++..   ...-+.++..+-..|...++++++..
T Consensus       168 A~~m~~KAV~~~---i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~  244 (906)
T PRK14720        168 AITYLKKAIYRF---IKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIY  244 (906)
T ss_pred             HHHHHHHHHHHH---HhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHH
Confidence            888887775541   111122222211   111  1222222233333111   12233556666677777788888888


Q ss_pred             HHHHHhccCCCC
Q 047393          238 ALDKLLELDPGM  249 (373)
Q Consensus       238 ~~~~m~~~~P~~  249 (373)
                      +++.+++.+|++
T Consensus       245 iLK~iL~~~~~n  256 (906)
T PRK14720        245 ILKKILEHDNKN  256 (906)
T ss_pred             HHHHHHhcCCcc
Confidence            888888888877

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.18  E-value=5.1e-05  Score=71.10  Aligned_cols=219  Identities=14%  Similarity=-0.008  Sum_probs=165.8

Q ss_pred             HHHcCCHhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHH
Q 047393           21 CIKAKDYEMVHELLERIQLCCGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDD   99 (373)
Q Consensus        21 ~~~~g~~~~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~   99 (373)
                      +.+.|++-+|.-.|+.....  .| +...|.-|-..-...++=..|...+.+.++.. +-|..+.-+|.-.|...|.=.+
T Consensus       295 lm~nG~L~~A~LafEAAVkq--dP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQ--DPQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhh--ChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHH
Confidence            57889999999999988875  35 55678888888888888888888888887754 4467788888889999999999


Q ss_pred             HHHHHccCCC--C----------ChhHHHHHHHHHHhCCChHHHHHHHHHH-HHcCCCCCHHHHHHHHHHHHccCCHHHH
Q 047393          100 ADLAFKSTPE--K----------NSLSWTFIISARVNHGHPSEALDLFKDK-QWRYTSMNPTTFRSALKAYALMGLVGEA  166 (373)
Q Consensus       100 A~~~~~~m~~--~----------d~~~~~~li~~~~~~g~~~~A~~l~~~m-~~~g~~p~~~t~~~ll~~~~~~g~~~~a  166 (373)
                      |.+.|+.-..  |          +..+-+.  ..+..........++|-++ .+.+.++|......|--.|--.|.+++|
T Consensus       372 Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            9999875421  1          1000000  1122222234455555555 4455446666666666667789999999


Q ss_pred             HHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          167 YRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP-LIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       167 ~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      .+.|+.....   .| |..+||.|-..++...+.++|..-|.+++.++|+- ..+..|.-+|...|.+++|.+.|-..+.
T Consensus       450 iDcf~~AL~v---~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  450 VDCFEAALQV---KPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHHHhc---CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            9999998754   56 77999999999999999999999999999999974 5778888899999999999999988887


Q ss_pred             cCC
Q 047393          245 LDP  247 (373)
Q Consensus       245 ~~P  247 (373)
                      +.+
T Consensus       527 mq~  529 (579)
T KOG1125|consen  527 MQR  529 (579)
T ss_pred             hhh
Confidence            654

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

Probab=98.17  E-value=0.00048  Score=58.03  Aligned_cols=153  Identities=10%  Similarity=0.049  Sum_probs=104.6

Q ss_pred             HHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCH
Q 047393           18 LKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKI   97 (373)
Q Consensus        18 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~   97 (373)
                      +..|...|++..+..-.+.+..    |.        ..+...++.+++...++..++.. +.|...|..|...|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCH
Confidence            4567888888876443322211    11        01223566677777777776665 56788888888888888888


Q ss_pred             HHHHHHHccCCC---CChhHHHHHHHH-HHhCCC--hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 047393           98 DDADLAFKSTPE---KNSLSWTFIISA-RVNHGH--PSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFL  171 (373)
Q Consensus        98 ~~A~~~~~~m~~---~d~~~~~~li~~-~~~~g~--~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~  171 (373)
                      ++|...|++..+   .+...+..+..+ +...|+  .++|.+++++..+.+ +-+..++..+...+.+.|++++|...|+
T Consensus        90 ~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         90 DNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            888888886653   366777777775 356676  488888888888764 3356677777778888888888888888


Q ss_pred             HhHHHcCCCCCHhHH
Q 047393          172 SMEEVYHIEPSEEHY  186 (373)
Q Consensus       172 ~m~~~~g~~p~~~~~  186 (373)
                      .+.+.  .+|+..-+
T Consensus       169 ~aL~l--~~~~~~r~  181 (198)
T PRK10370        169 KVLDL--NSPRVNRT  181 (198)
T ss_pred             HHHhh--CCCCccHH
Confidence            88653  35555433

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

Probab=98.14  E-value=0.0012  Score=61.08  Aligned_cols=161  Identities=13%  Similarity=0.004  Sum_probs=109.8

Q ss_pred             CchhHHHHHHHHhHhcCCHHHHHHHHccCCC-CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHH
Q 047393           79 SHPAVGNCLININSRCGKIDDADLAFKSTPE-KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPT-TFRSALKA  156 (373)
Q Consensus        79 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~~  156 (373)
                      |+...+...+.+......-..+-..+.+-.+ .....+....-.+...|++++|+..++.+...  .||.. ........
T Consensus       272 ~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~aa~YG~A~~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i  349 (484)
T COG4783         272 PDFQLARARIRAKYEALPNQQAADLLAKRSKRGGLAAQYGRALQTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDI  349 (484)
T ss_pred             ccHHHHHHHHHHHhccccccchHHHHHHHhCccchHHHHHHHHHHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            4455555555544333222222222222222 23333444444556678899999999998776  45544 44455677


Q ss_pred             HHccCCHHHHHHHHHHhHHHcCCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHH
Q 047393          157 YALMGLVGEAYRLFLSMEEVYHIEPS-EEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKL  234 (373)
Q Consensus       157 ~~~~g~~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~  234 (373)
                      +.+.++..+|.+.++.+...   .|+ ....-.+-.+|.+.|++.+|..++++.....| |+..|..|..+|...|+..+
T Consensus       350 ~~~~nk~~~A~e~~~kal~l---~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~  426 (484)
T COG4783         350 LLEANKAKEAIERLKKALAL---DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAE  426 (484)
T ss_pred             HHHcCChHHHHHHHHHHHhc---CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHH
Confidence            88899999999999988654   565 56666788899999999999999988555455 78899999999999999888


Q ss_pred             HHHHHHHHhc
Q 047393          235 AKYALDKLLE  244 (373)
Q Consensus       235 A~~~~~~m~~  244 (373)
                      +.....+...
T Consensus       427 a~~A~AE~~~  436 (484)
T COG4783         427 ALLARAEGYA  436 (484)
T ss_pred             HHHHHHHHHH
Confidence            8887777665

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

Probab=98.13  E-value=3.1e-06  Score=47.89  Aligned_cols=31  Identities=26%  Similarity=0.400  Sum_probs=21.4

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHcCC
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWRYT  143 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  143 (373)
                      +|||++|++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3677777777777777777777777766653

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

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.11  E-value=0.001  Score=66.47  Aligned_cols=128  Identities=7%  Similarity=-0.073  Sum_probs=64.1

Q ss_pred             HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC--C-ChhHHHHHHHHH
Q 047393           46 SYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE--K-NSLSWTFIISAR  122 (373)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~  122 (373)
                      +..+-.|..+..+.|..++|..+++...+.. +-+......+...+.+.+++++|...+++...  | +....+.+..++
T Consensus        86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a~~l  164 (694)
T PRK15179         86 ELFQVLVARALEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEAKSW  164 (694)
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHHHHH
Confidence            4444445555555555555555555554432 22233444455555555555555555555442  2 233444444555


Q ss_pred             HhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHH
Q 047393          123 VNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEE  175 (373)
Q Consensus       123 ~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  175 (373)
                      .+.|++++|.++|++....+ +-+..++..+-.++-..|+.++|...|+....
T Consensus       165 ~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        165 DEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55555555555555555421 22345555555555555555555555555543

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.11  E-value=0.00098  Score=56.58  Aligned_cols=186  Identities=15%  Similarity=0.094  Sum_probs=116.2

Q ss_pred             chHHHHHHHHHHHH---cC-CCCchh-HHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHH---HHHHHhCCChHHHH
Q 047393           61 LLNVGTQAQAYMTK---RG-LISHPA-VGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFI---ISARVNHGHPSEAL  132 (373)
Q Consensus        61 ~~~~a~~~~~~m~~---~g-~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~l---i~~~~~~g~~~~A~  132 (373)
                      +.++..++..+++.   .| ..++.. .|.-++-+..-.|+.+.|..+++.+...-+.++...   ..-+-..|++++|+
T Consensus        27 nseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~  106 (289)
T KOG3060|consen   27 NSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAI  106 (289)
T ss_pred             CHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHH
Confidence            34455555554432   23 445543 344445555566777777777766543212222211   11244567788888


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCC
Q 047393          133 DLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPG  212 (373)
Q Consensus       133 ~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  212 (373)
                      ++++...+.. +.|.+++--=+...--.|.--+|++-+....+.  +..|...|.-+-+.|...|++++|.--+++++-+
T Consensus       107 e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~--F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~  183 (289)
T KOG3060|consen  107 EYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK--FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLI  183 (289)
T ss_pred             HHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHc
Confidence            8888887775 456666665555555566666777776666554  3678888888888888888888888888886666


Q ss_pred             CC-CHHHHHHHHHHHHHcC---CHHHHHHHHHHHhccCCCC
Q 047393          213 KL-CPLIWRTLLLSSRVHG---DMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       213 ~p-~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~~P~~  249 (373)
                      .| ++..+..+...+...|   +.+.|.+.|.+..++.|.+
T Consensus       184 ~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~  224 (289)
T KOG3060|consen  184 QPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKN  224 (289)
T ss_pred             CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHh
Confidence            77 5566666666655444   5667788888888877744

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

Probab=98.09  E-value=0.00017  Score=66.81  Aligned_cols=121  Identities=21%  Similarity=0.125  Sum_probs=72.3

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhc
Q 047393          117 FIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRA  196 (373)
Q Consensus       117 ~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~  196 (373)
                      +|+..+...++++.|.++|+++.+..  |+.  ...++..+...++-.+|.+++.+..+..  +-+........+.+.+.
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~--p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKEN--PQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhc
Confidence            34445555666666666666666553  443  2235555555566666666666665431  23445555555566666


Q ss_pred             CCHHHHHHHHHhhCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 047393          197 GMFEEVLEFIKGIVPGKLCP-LIWRTLLLSSRVHGDMKLAKYALDKLL  243 (373)
Q Consensus       197 g~~~~A~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~  243 (373)
                      ++.+.|+++.+++....|+. .+|..|..+|...|+++.|.-.+.-+-
T Consensus       248 ~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  248 KKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            77777777777666666643 477777777777777777776666544

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

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

Probab=98.09  E-value=5e-05  Score=56.09  Aligned_cols=80  Identities=11%  Similarity=0.067  Sum_probs=69.7

Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHhcCC-CCCHHHHHHHHHHHcCCC--------chHHHHHHHHHHHHcCCCCchhHH
Q 047393           14 WNLLLKACIKAKDYEMVHELLERIQLCCG-FIDSYSICDILNSCLNPI--------LLNVGTQAQAYMTKRGLISHPAVG   84 (373)
Q Consensus        14 ~n~li~~~~~~g~~~~A~~l~~~m~~~g~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~m~~~g~~~~~~~~   84 (373)
                      -...|..+...+++...-.+|+.+++.|+ .|+..+|+.++.+.++..        ++...+.+|+.|+..+++|+..+|
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etY  107 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHH
Confidence            35567777888999999999999999999 899999999999887642        355678999999999999999999


Q ss_pred             HHHHHHhHh
Q 047393           85 NCLININSR   93 (373)
Q Consensus        85 ~~li~~~~~   93 (373)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            999988765

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 [, , ].

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

Probab=98.09  E-value=0.00099  Score=56.81  Aligned_cols=153  Identities=12%  Similarity=0.046  Sum_probs=83.2

Q ss_pred             HHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCCh
Q 047393           52 ILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHP  128 (373)
Q Consensus        52 ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~  128 (373)
                      +-.++...|+-+....+...... .-+.|....+.++....+.|++..|...|++...   +|..+|+.+.-+|.+.|+.
T Consensus        72 ~a~a~~~~G~a~~~l~~~~~~~~-~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~Gr~  150 (257)
T COG5010          72 LATALYLRGDADSSLAVLQKSAI-AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRF  150 (257)
T ss_pred             HHHHHHhcccccchHHHHhhhhc-cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHccCh
Confidence            33444444444444444433221 1133444555566666666666666666665542   3566666666666666666


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHh
Q 047393          129 SEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       129 ~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                      ++|..-|.+..+.. .-+...+|.+.-.+.-.|+.+.|..++......  -.-|..+-..+.......|++++|..+...
T Consensus       151 ~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~--~~ad~~v~~NLAl~~~~~g~~~~A~~i~~~  227 (257)
T COG5010         151 DEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLS--PAADSRVRQNLALVVGLQGDFREAEDIAVQ  227 (257)
T ss_pred             hHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhC--CCCchHHHHHHHHHHhhcCChHHHHhhccc
Confidence            66666666655541 223344555555555566666666666655332  122555555666666666666666666554

>PLN02789 farnesyltranstransferase

Probab=98.07  E-value=0.0011  Score=60.19  Aligned_cols=190  Identities=10%  Similarity=-0.017  Sum_probs=134.8

Q ss_pred             HcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcC-CHHHHHHHHccCCC---CChhHHHHHHHHHHhCCCh--H
Q 047393           56 CLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCG-KIDDADLAFKSTPE---KNSLSWTFIISARVNHGHP--S  129 (373)
Q Consensus        56 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~--~  129 (373)
                      +...+..++|..+...+++.. +-+..+|+.--.++.+.| ++++++..++++.+   .+..+|+-....+.+.|+.  +
T Consensus        47 l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~  125 (320)
T PLN02789         47 YASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAAN  125 (320)
T ss_pred             HHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhH
Confidence            344567888999999888764 344556776666666667 67999999988763   3556677555555566653  6


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhc---CCH----HHH
Q 047393          130 EALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRA---GMF----EEV  202 (373)
Q Consensus       130 ~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~---g~~----~~A  202 (373)
                      ++++.++++.+.. +-|..+|+...-++.+.|+++++++.++++.+..  +-|...|+.....+.+.   |..    +++
T Consensus       126 ~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d--~~N~sAW~~R~~vl~~~~~l~~~~~~~e~e  202 (320)
T PLN02789        126 KELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED--VRNNSAWNQRYFVITRSPLLGGLEAMRDSE  202 (320)
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC--CCchhHHHHHHHHHHhccccccccccHHHH
Confidence            7888888888764 4477889888888888999999999999997752  34566676665555444   222    467


Q ss_pred             HHHHHhhCCCCC-CHHHHHHHHHHHHHc----CCHHHHHHHHHHHhccCCCC
Q 047393          203 LEFIKGIVPGKL-CPLIWRTLLLSSRVH----GDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       203 ~~~~~~~~~~~p-~~~~~~~li~~~~~~----g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .++..+++...| |...|+-+...+...    ++..+|.+++.+....+|+.
T Consensus       203 l~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s  254 (320)
T PLN02789        203 LKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNH  254 (320)
T ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCc
Confidence            777767677777 567888888888773    34466888888877766544

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

Probab=98.05  E-value=0.0024  Score=58.90  Aligned_cols=232  Identities=11%  Similarity=-0.013  Sum_probs=162.4

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHH-------HHHHHHHHH---cCCCchHHHHHHHHHHHHcCCCC
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSY-------SICDILNSC---LNPILLNVGTQAQAYMTKRGLIS   79 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-------~~~~ll~~~---~~~~~~~~a~~~~~~m~~~g~~~   79 (373)
                      |--+|-..++.-...|+.+...++|++.... ++|-..       .|.-+=-+|   ....+++.+.++|+..++ =++.
T Consensus       321 nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~-lIPH  398 (677)
T KOG1915|consen  321 NYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD-LIPH  398 (677)
T ss_pred             CchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh-hcCc
Confidence            4456666677677778888888999888753 666321       121111122   245778888888888877 3455


Q ss_pred             chhHHHHHHHHhH----hcCCHHHHHHHHccCC--CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 047393           80 HPAVGNCLININS----RCGKIDDADLAFKSTP--EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSA  153 (373)
Q Consensus        80 ~~~~~~~li~~~~----~~g~~~~A~~~~~~m~--~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~l  153 (373)
                      ...||.-+=-+|+    ++.++..|.+++....  .|..-+|...|..=.+.+.++....++++.++-+ +-|..+|...
T Consensus       399 kkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~-Pe~c~~W~ky  477 (677)
T KOG1915|consen  399 KKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS-PENCYAWSKY  477 (677)
T ss_pred             ccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-hHhhHHHHHH
Confidence            5667766655554    5678888888887654  5777788888888888888888888888888765 4467778777


Q ss_pred             HHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHH-----H
Q 047393          154 LKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSR-----V  228 (373)
Q Consensus       154 l~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~-----~  228 (373)
                      ...-...|+.+.|..+|+-...+..+......|-+.|+-=...|.+++|..++++.+...+...+|-++..--.     +
T Consensus       478 aElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~kvWisFA~fe~s~~~~~  557 (677)
T KOG1915|consen  478 AELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVKVWISFAKFEASASEGQ  557 (677)
T ss_pred             HHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccchHHHhHHHHhccccccc
Confidence            77777788899999998888665333334566777777777888899999988887765666667777665433     3


Q ss_pred             cC-----------CHHHHHHHHHHHhc
Q 047393          229 HG-----------DMKLAKYALDKLLE  244 (373)
Q Consensus       229 ~g-----------~~~~A~~~~~~m~~  244 (373)
                      .+           .+..|..+|++...
T Consensus       558 ~~~~~~~~e~~~~~~~~AR~iferAn~  584 (677)
T KOG1915|consen  558 EDEDLAELEITDENIKRARKIFERANT  584 (677)
T ss_pred             cccchhhhhcchhHHHHHHHHHHHHHH
Confidence            33           45677777777654

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.04  E-value=0.00082  Score=67.12  Aligned_cols=130  Identities=8%  Similarity=0.033  Sum_probs=79.2

Q ss_pred             CCchhHHHHHHHHhHhcCCHHHHHHHHccCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC-HHHHHHH
Q 047393           78 ISHPAVGNCLININSRCGKIDDADLAFKSTPE--K-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMN-PTTFRSA  153 (373)
Q Consensus        78 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~l  153 (373)
                      +.+...+-.|.....+.|.+++|+.+++...+  | +...+..+...+.+.+++++|+...++....  .|+ ......+
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~~  160 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILLE  160 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHHH
Confidence            44566666666666666777777776666552  3 3445555666666667777776666666655  333 3344455


Q ss_pred             HHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCC
Q 047393          154 LKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVP  211 (373)
Q Consensus       154 l~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  211 (373)
                      ..++.+.|+.++|..+|++....  .+-+..++..+-.++-..|+.++|...|++++.
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~--~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQ--HPEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            55566667777777777666542  122355666666666666777777776666554

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

Probab=98.01  E-value=0.0003  Score=62.76  Aligned_cols=134  Identities=12%  Similarity=0.107  Sum_probs=103.7

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHH
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKA-YALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE  191 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~-~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  191 (373)
                      .+|-.++....+.+..+.|..+|.+..+.+ .-+...|...... +...++.+.|..+|+...+.+  +.+...|...++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f--~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKF--PSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHH--TT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHH
Confidence            478888888888888999999999998653 2233444443333 233677888999999998875  667788999999


Q ss_pred             HHHhcCCHHHHHHHHHhhCCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          192 ALGRAGMFEEVLEFIKGIVPGKLCP----LIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       192 ~~~~~g~~~~A~~~~~~~~~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .+.+.|+.+.|..+|++++..-|..    ..|...++-=.+.|+.+.+.++.+++.+.-|+.
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~  140 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPED  140 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhh
Confidence            9999999999999999988755544    499999999999999999999999999866654

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.

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.00  E-value=0.0048  Score=52.52  Aligned_cols=191  Identities=11%  Similarity=0.042  Sum_probs=143.2

Q ss_pred             cCCHhHHHHHHHHHHh---cC-CCCCHHH-HHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHH
Q 047393           24 AKDYEMVHELLERIQL---CC-GFIDSYS-ICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKID   98 (373)
Q Consensus        24 ~g~~~~A~~l~~~m~~---~g-~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~   98 (373)
                      ..+.++.++++.++..   .| ..|+..+ |-.++-+....|+.+.|...++.+...- +-+..+-..=.-.+--.|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchh
Confidence            4578999999998875   35 6677765 6667777788899999999999987653 222222221122244568999


Q ss_pred             HHHHHHccCCCC---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHH
Q 047393           99 DADLAFKSTPEK---NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEE  175 (373)
Q Consensus        99 ~A~~~~~~m~~~---d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  175 (373)
                      +|.++++.+.+.   |.++|---+...-..|+-.+|++-+.+..+. +..|...|.-+...|...|+++.|.-.++++.-
T Consensus       104 ~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  104 EAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             hHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            999999998853   6777877777777888888999988888776 677999999999999999999999999999964


Q ss_pred             HcCCCC-CHhHHHHHHHHHHhc---CCHHHHHHHHHhhCCCCC-CHHHH
Q 047393          176 VYHIEP-SEEHYSIMVEALGRA---GMFEEVLEFIKGIVPGKL-CPLIW  219 (373)
Q Consensus       176 ~~g~~p-~~~~~~~li~~~~~~---g~~~~A~~~~~~~~~~~p-~~~~~  219 (373)
                      .   .| +...+..+.+.+--.   .+..-|.++|.+++++.| +...+
T Consensus       183 ~---~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~ral  228 (289)
T KOG3060|consen  183 I---QPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNLRAL  228 (289)
T ss_pred             c---CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhHHHH
Confidence            3   55 555555666655544   356679999999888666 44433

>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=97.99  E-value=0.00022  Score=66.00  Aligned_cols=125  Identities=14%  Similarity=0.109  Sum_probs=105.1

Q ss_pred             HHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHH
Q 047393           85 NCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVG  164 (373)
Q Consensus        85 ~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~  164 (373)
                      .+|+..+...++++.|.++|+++.+.++.....++..+...++-.+|.+++++..+.. +-+......-...+.+.++.+
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~~~  251 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKKYE  251 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHH
Confidence            3455666677999999999999998877777888999999999999999999988652 446666666777789999999


Q ss_pred             HHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC
Q 047393          165 EAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL  214 (373)
Q Consensus       165 ~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p  214 (373)
                      .|..+.+++.+.   .| +..+|..|..+|.+.|++++|+..++. ++..|
T Consensus       252 lAL~iAk~av~l---sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs-~Pm~~  298 (395)
T PF09295_consen  252 LALEIAKKAVEL---SPSEFETWYQLAECYIQLGDFENALLALNS-CPMLT  298 (395)
T ss_pred             HHHHHHHHHHHh---CchhHHHHHHHHHHHHhcCCHHHHHHHHhc-CcCCC
Confidence            999999999654   56 557999999999999999999999999 77443

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

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

Probab=97.98  E-value=0.00059  Score=58.14  Aligned_cols=156  Identities=12%  Similarity=-0.000  Sum_probs=122.8

Q ss_pred             HHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhc
Q 047393           15 NLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRC   94 (373)
Q Consensus        15 n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~   94 (373)
                      .-.-..+...|+-+.++.+..+.... -.-|............+.|++.+|...+.+..... ++|..+|+.+.-+|-+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            33455566667777776666554431 22344556668888999999999999999997655 78999999999999999


Q ss_pred             CCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 047393           95 GKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFL  171 (373)
Q Consensus        95 g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~  171 (373)
                      |++++|..-|.+..   ..+....|.|.-.+.-.|+.+.|..++......+ .-|...-..+.......|++++|.++-.
T Consensus       148 Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         148 GRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             cChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            99999999987665   3477888999999999999999999999988775 3366666777778889999999998775


Q ss_pred             Hh
Q 047393          172 SM  173 (373)
Q Consensus       172 ~m  173 (373)
                      .-
T Consensus       227 ~e  228 (257)
T COG5010         227 QE  228 (257)
T ss_pred             cc
Confidence            43

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

Probab=97.96  E-value=0.00026  Score=55.58  Aligned_cols=100  Identities=15%  Similarity=0.009  Sum_probs=54.4

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHH
Q 047393          115 WTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALG  194 (373)
Q Consensus       115 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~  194 (373)
                      ...+...+...|++++|.+.|+...+.+ +.+...+..+...+.+.|++++|...+++..+.  .+.+...+..+...|.
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~   96 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL--DPDDPRPYFHAAECLL   96 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCCChHHHHHHHHHHH
Confidence            3444455555566666666665555543 334455555555555666666666666655332  1334455555555666


Q ss_pred             hcCCHHHHHHHHHhhCCCCCCHH
Q 047393          195 RAGMFEEVLEFIKGIVPGKLCPL  217 (373)
Q Consensus       195 ~~g~~~~A~~~~~~~~~~~p~~~  217 (373)
                      ..|+.++|.+.|+++++..|+..
T Consensus        97 ~~g~~~~A~~~~~~al~~~p~~~  119 (135)
T TIGR02552        97 ALGEPESALKALDLAIEICGENP  119 (135)
T ss_pred             HcCCHHHHHHHHHHHHHhccccc
Confidence            66666666666666555445443

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

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.95  E-value=0.00022  Score=54.40  Aligned_cols=99  Identities=19%  Similarity=0.152  Sum_probs=48.1

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC----HHHHHHHHHH
Q 047393          151 RSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC----PLIWRTLLLS  225 (373)
Q Consensus       151 ~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~li~~  225 (373)
                      ......+.+.|++++|...++.+.+.+.-.| ....+..+...+.+.|++++|.+.|+.+....|+    +..+..+..+
T Consensus         6 ~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~   85 (119)
T TIGR02795         6 YDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMS   85 (119)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHH
Confidence            3334444455555555555555543311101 1223334555555555555555555553333332    2345555555


Q ss_pred             HHHcCCHHHHHHHHHHHhccCCCC
Q 047393          226 SRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       226 ~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +...|+.++|...++++.+..|++
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~p~~  109 (119)
T TIGR02795        86 LQELGDKEKAKATLQQVIKRYPGS  109 (119)
T ss_pred             HHHhCChHHHHHHHHHHHHHCcCC
Confidence            555666666666666665555543

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.

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.95  E-value=0.00016  Score=51.83  Aligned_cols=94  Identities=24%  Similarity=0.223  Sum_probs=50.5

Q ss_pred             HHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcC
Q 047393          152 SALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHG  230 (373)
Q Consensus       152 ~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g  230 (373)
                      .+...+...|++++|...++...+..  +.+...+..+...+...|++++|.+.|++.+...| +..++..+...+...|
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALELD--PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            33444445555666666555553321  22234455555555556666666666665444333 2345555566666666


Q ss_pred             CHHHHHHHHHHHhccCC
Q 047393          231 DMKLAKYALDKLLELDP  247 (373)
Q Consensus       231 ~~~~A~~~~~~m~~~~P  247 (373)
                      +.+.|...+....+..|
T Consensus        83 ~~~~a~~~~~~~~~~~~   99 (100)
T cd00189          83 KYEEALEAYEKALELDP   99 (100)
T ss_pred             hHHHHHHHHHHHHccCC
Confidence            66666666666655544

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

Probab=97.94  E-value=0.0023  Score=59.23  Aligned_cols=114  Identities=16%  Similarity=0.085  Sum_probs=57.1

Q ss_pred             hHhcCCHHHHHHHHccCC--CC-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCHHHH
Q 047393           91 NSRCGKIDDADLAFKSTP--EK-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMN-PTTFRSALKAYALMGLVGEA  166 (373)
Q Consensus        91 ~~~~g~~~~A~~~~~~m~--~~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a  166 (373)
                      +.+.|++++|+..++.+.  .| |+..+......+.+.|+..+|.+.++++...  .|+ .....++-+++.+.|++.+|
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~ea  393 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEA  393 (484)
T ss_pred             HHHhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHH
Confidence            334455555555555543  23 3333444444555555555555555555543  343 33333444555555555555


Q ss_pred             HHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHh
Q 047393          167 YRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       167 ~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                      ..+++....  ..+-|+..|..|..+|...|+..+|..-..+
T Consensus       394 i~~L~~~~~--~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE  433 (484)
T COG4783         394 IRILNRYLF--NDPEDPNGWDLLAQAYAELGNRAEALLARAE  433 (484)
T ss_pred             HHHHHHHhh--cCCCCchHHHHHHHHHHHhCchHHHHHHHHH
Confidence            555555432  2234555555555555555555555555444

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

Probab=97.92  E-value=0.0023  Score=61.09  Aligned_cols=238  Identities=14%  Similarity=0.029  Sum_probs=134.4

Q ss_pred             CCCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHH
Q 047393            7 ISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNC   86 (373)
Q Consensus         7 ~~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~   86 (373)
                      |..-...|-.++.+|- .+++...+.+.+.+.+. .+--..|....--.+...|+-++|......-.+.. ..+.+.|..
T Consensus         4 ~~KE~~lF~~~lk~yE-~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv   80 (700)
T KOG1156|consen    4 SPKENALFRRALKCYE-TKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHV   80 (700)
T ss_pred             ChHHHHHHHHHHHHHH-HHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHH
Confidence            3344455667777554 67788888888877762 22223344443344566788999988887776644 345677887


Q ss_pred             HHHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCH
Q 047393           87 LININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLV  163 (373)
Q Consensus        87 li~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~  163 (373)
                      +.-.+....++++|.+.|....   +.|...|.-+--.-.+.|+++...+......+.. +-....|..+..++--.|+.
T Consensus        81 ~gl~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y  159 (700)
T KOG1156|consen   81 LGLLQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEY  159 (700)
T ss_pred             HHHHHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHH
Confidence            7777777888999999998654   2344555444444455555555555555554441 22334555555555556666


Q ss_pred             HHHHHHHHHhHHHcCCCCCHhHHHHHH------HHHHhcCCHHHHHHHHHhhCC-CCCCH-HHHHHHHHHHHHcCCHHHH
Q 047393          164 GEAYRLFLSMEEVYHIEPSEEHYSIMV------EALGRAGMFEEVLEFIKGIVP-GKLCP-LIWRTLLLSSRVHGDMKLA  235 (373)
Q Consensus       164 ~~a~~~~~~m~~~~g~~p~~~~~~~li------~~~~~~g~~~~A~~~~~~~~~-~~p~~-~~~~~li~~~~~~g~~~~A  235 (373)
                      ..|..+.++..+...-.|+...|....      ....+.|..++|.+-+.+ .+ ..-|- ..-.+-...+.+.+++++|
T Consensus       160 ~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~-~e~~i~Dkla~~e~ka~l~~kl~~lEeA  238 (700)
T KOG1156|consen  160 KMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLD-NEKQIVDKLAFEETKADLLMKLGQLEEA  238 (700)
T ss_pred             HHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHh-hhhHHHHHHHHhhhHHHHHHHHhhHHhH
Confidence            666666666644322234444443222      223345555555555554 22 01111 1222333444556666666


Q ss_pred             HHHHHHHhccCCCC
Q 047393          236 KYALDKLLELDPGM  249 (373)
Q Consensus       236 ~~~~~~m~~~~P~~  249 (373)
                      ..++..++...||+
T Consensus       239 ~~~y~~Ll~rnPdn  252 (700)
T KOG1156|consen  239 VKVYRRLLERNPDN  252 (700)
T ss_pred             HHHHHHHHhhCchh
Confidence            66666666666666

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.90  E-value=0.0028  Score=66.43  Aligned_cols=233  Identities=10%  Similarity=0.047  Sum_probs=153.7

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcC--C-CC--CHHHHHHHHHHHcCCCchHHHHHHHHHHHH----cCCC--C-
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCC--G-FI--DSYSICDILNSCLNPILLNVGTQAQAYMTK----RGLI--S-   79 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g--~-~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~----~g~~--~-   79 (373)
                      ...+.+...+...|++++|...+++.....  . .+  ...++..+...+...|++++|...+++...    .|..  + 
T Consensus       492 ~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~  571 (903)
T PRK04841        492 VATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPM  571 (903)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccH
Confidence            345666677788999999999998876521  1 11  123455566677889999999998887654    2321  1 


Q ss_pred             chhHHHHHHHHhHhcCCHHHHHHHHccCCC------C--ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC-CCHHHH
Q 047393           80 HPAVGNCLININSRCGKIDDADLAFKSTPE------K--NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTS-MNPTTF  150 (373)
Q Consensus        80 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~------~--d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-p~~~t~  150 (373)
                      ....+..+...+...|++++|...+++...      +  ...++..+...+...|++++|.+.+++.....-. .....+
T Consensus       572 ~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~  651 (903)
T PRK04841        572 HEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDW  651 (903)
T ss_pred             HHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhH
Confidence            223445556667778999999988876532      1  1334455666788899999999998887542111 111111


Q ss_pred             -----HHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCH----hHHHHHHHHHHhcCCHHHHHHHHHhhCCC------CCC
Q 047393          151 -----RSALKAYALMGLVGEAYRLFLSMEEVYHIEPSE----EHYSIMVEALGRAGMFEEVLEFIKGIVPG------KLC  215 (373)
Q Consensus       151 -----~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~p~  215 (373)
                           ...+..+...|+.+.|..++...... . ....    .....+..++...|+.++|...+++++..      .++
T Consensus       652 ~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~-~-~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~  729 (903)
T PRK04841        652 IANADKVRLIYWQMTGDKEAAANWLRQAPKP-E-FANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSD  729 (903)
T ss_pred             hhHHHHHHHHHHHHCCCHHHHHHHHHhcCCC-C-CccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHH
Confidence                 11224445689999999998776321 1 1111    11345667788899999999999886541      111


Q ss_pred             -HHHHHHHHHHHHHcCCHHHHHHHHHHHhccC
Q 047393          216 -PLIWRTLLLSSRVHGDMKLAKYALDKLLELD  246 (373)
Q Consensus       216 -~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  246 (373)
                       ..+...+..++.+.|+.++|...+.+..+..
T Consensus       730 ~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        730 LNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence             2466677788899999999999999998843

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

Probab=97.90  E-value=0.0013  Score=52.34  Aligned_cols=125  Identities=18%  Similarity=0.112  Sum_probs=77.2

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCH--hHHHH
Q 047393          114 SWTFIISARVNHGHPSEALDLFKDKQWRYTSMN---PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSE--EHYSI  188 (373)
Q Consensus       114 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~---~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~--~~~~~  188 (373)
                      .|..++..+ ..++...+...++.+.+.. +.+   ....-.+...+...|++++|...|+..... .-.|+.  .....
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~   90 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHH
Confidence            444555555 3677777777777777653 222   123333445667778888888888877654 212221  23334


Q ss_pred             HHHHHHhcCCHHHHHHHHHhhCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047393          189 MVEALGRAGMFEEVLEFIKGIVP-GKLCPLIWRTLLLSSRVHGDMKLAKYALDKL  242 (373)
Q Consensus       189 li~~~~~~g~~~~A~~~~~~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  242 (373)
                      |...+...|++++|+..++. .. ....+..+......+.+.|+.++|...|+..
T Consensus        91 LA~~~~~~~~~d~Al~~L~~-~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQ-IPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHh-ccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            56667777888888888876 43 2224456666677778888888888877654

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

Probab=97.89  E-value=0.00077  Score=53.76  Aligned_cols=123  Identities=14%  Similarity=0.095  Sum_probs=78.7

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCH----HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCch--hHHH
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDS----YSICDILNSCLNPILLNVGTQAQAYMTKRGLISHP--AVGN   85 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~--~~~~   85 (373)
                      ..|..++..+ ..++...+.+.++.+....  |+.    .....+...+...|++++|...|+........|+.  ...-
T Consensus        13 ~~y~~~~~~~-~~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l   89 (145)
T PF09976_consen   13 ALYEQALQAL-QAGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARL   89 (145)
T ss_pred             HHHHHHHHHH-HCCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHH
Confidence            3466666666 3777787877777777642  222    23333456677778888888888888776522322  2333


Q ss_pred             HHHHHhHhcCCHHHHHHHHccCCCC--ChhHHHHHHHHHHhCCChHHHHHHHHH
Q 047393           86 CLININSRCGKIDDADLAFKSTPEK--NSLSWTFIISARVNHGHPSEALDLFKD  137 (373)
Q Consensus        86 ~li~~~~~~g~~~~A~~~~~~m~~~--d~~~~~~li~~~~~~g~~~~A~~l~~~  137 (373)
                      .|...+...|++++|+..++....+  ....+......|.+.|++++|...|+.
T Consensus        90 ~LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   90 RLARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            4566677778888888877665433  344555666677777777777777764

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.88  E-value=0.0023  Score=60.51  Aligned_cols=216  Identities=15%  Similarity=0.099  Sum_probs=138.9

Q ss_pred             HHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHH--HHHHh--H
Q 047393           17 LLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNC--LININ--S   92 (373)
Q Consensus        17 li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~--li~~~--~   92 (373)
                      =++-+.+.|++++|.+..+++...+ +-|...+..-+-++.+.+.+++|+.+.+.   .+.   ..+++.  +=.+|  .
T Consensus        18 ~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk---~~~---~~~~~~~~fEKAYc~Y   90 (652)
T KOG2376|consen   18 DLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKK---NGA---LLVINSFFFEKAYCEY   90 (652)
T ss_pred             HHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHh---cch---hhhcchhhHHHHHHHH
Confidence            4566788899999999999998754 33445566667778888999999855433   221   122222  23455  4


Q ss_pred             hcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCHHHHHHHHH
Q 047393           93 RCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMN-PTTFRSALKAYALMGLVGEAYRLFL  171 (373)
Q Consensus        93 ~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~  171 (373)
                      +.+..|+|+..++.....|..+-..-...+.+.|++++|+++|+.+.+.+..-- ..--..++.+-.    .-.+. +. 
T Consensus        91 rlnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a----~l~~~-~~-  164 (652)
T KOG2376|consen   91 RLNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAA----ALQVQ-LL-  164 (652)
T ss_pred             HcccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH----hhhHH-HH-
Confidence            679999999999966665655666667778899999999999999987753221 111122222111    11111 22 


Q ss_pred             HhHHHcCCCCCHhHHHHH---HHHHHhcCCHHHHHHHHHhhCC--------CCCC---H-----HHHHHHHHHHHHcCCH
Q 047393          172 SMEEVYHIEPSEEHYSIM---VEALGRAGMFEEVLEFIKGIVP--------GKLC---P-----LIWRTLLLSSRVHGDM  232 (373)
Q Consensus       172 ~m~~~~g~~p~~~~~~~l---i~~~~~~g~~~~A~~~~~~~~~--------~~p~---~-----~~~~~li~~~~~~g~~  232 (373)
                         +.....| ..+|..+   ...+...|++.+|+++++.+++        -..+   +     ..--.|...+-..|+.
T Consensus       165 ---q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt  240 (652)
T KOG2376|consen  165 ---QSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQT  240 (652)
T ss_pred             ---HhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcch
Confidence               2223344 2244433   3455678999999999998632        0111   1     2333455567789999


Q ss_pred             HHHHHHHHHHhccCCCC
Q 047393          233 KLAKYALDKLLELDPGM  249 (373)
Q Consensus       233 ~~A~~~~~~m~~~~P~~  249 (373)
                      ++|..++..+++.+|-+
T Consensus       241 ~ea~~iy~~~i~~~~~D  257 (652)
T KOG2376|consen  241 AEASSIYVDIIKRNPAD  257 (652)
T ss_pred             HHHHHHHHHHHHhcCCC
Confidence            99999999999866544

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

Probab=97.86  E-value=0.0091  Score=53.05  Aligned_cols=222  Identities=10%  Similarity=-0.031  Sum_probs=161.8

Q ss_pred             HHHHcCCHhHHHHHHHHHHhcCCCCCH----H------------HHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhH
Q 047393           20 ACIKAKDYEMVHELLERIQLCCGFIDS----Y------------SICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAV   83 (373)
Q Consensus        20 ~~~~~g~~~~A~~l~~~m~~~g~~p~~----~------------~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~   83 (373)
                      .+.+.|.+++|..=|+...+..  |+.    .            .....+..+.-.|+...|......+++.- +.|...
T Consensus       115 vllK~Gele~A~~DF~~vl~~~--~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l  191 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQHE--PSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASL  191 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhcC--CCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHH
Confidence            4678999999999999988753  321    1            12223445566789999999999988764 578888


Q ss_pred             HHHHHHHhHhcCCHHHHHHHHcc---CCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHH------
Q 047393           84 GNCLININSRCGKIDDADLAFKS---TPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSAL------  154 (373)
Q Consensus        84 ~~~li~~~~~~g~~~~A~~~~~~---m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll------  154 (373)
                      |..-..+|...|++..|+.=++.   +...++.++.-+-..+..-|+.+.++...++.++.  .||...+-..-      
T Consensus       192 ~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv  269 (504)
T KOG0624|consen  192 RQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKV  269 (504)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHH
Confidence            88889999999999999765544   44557777777778888899999999888888765  57754321111      


Q ss_pred             -------HHHHccCCHHHHHHHHHHhHHHcCCCCC--Hh---HHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-HHHHHH
Q 047393          155 -------KAYALMGLVGEAYRLFLSMEEVYHIEPS--EE---HYSIMVEALGRAGMFEEVLEFIKGIVPGKLC-PLIWRT  221 (373)
Q Consensus       155 -------~~~~~~g~~~~a~~~~~~m~~~~g~~p~--~~---~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~  221 (373)
                             ......++|.++..-.+...+.   .|.  ..   .+..+-.++...|++.+|.+...+++.+.|+ +.++--
T Consensus       270 ~K~les~e~~ie~~~~t~cle~ge~vlk~---ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~d  346 (504)
T KOG0624|consen  270 VKSLESAEQAIEEKHWTECLEAGEKVLKN---EPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCD  346 (504)
T ss_pred             HHHHHHHHHHHhhhhHHHHHHHHHHHHhc---CCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHH
Confidence                   1233456777777766666443   444  22   2334445666679999999999998887885 778877


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          222 LLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       222 li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      =..+|.-...++.|+.=|+...+.+|++
T Consensus       347 RAeA~l~dE~YD~AI~dye~A~e~n~sn  374 (504)
T KOG0624|consen  347 RAEAYLGDEMYDDAIHDYEKALELNESN  374 (504)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHhcCccc
Confidence            7889988899999999999999988877

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

Probab=97.85  E-value=0.014  Score=57.13  Aligned_cols=130  Identities=15%  Similarity=0.117  Sum_probs=86.1

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHH
Q 047393          116 TFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALG  194 (373)
Q Consensus       116 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~  194 (373)
                      ......+.+.+..++|...+.+..+. .+-....|...-..+...|.+++|.+.|....   -+.| ++...+++..++.
T Consensus       654 llaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al---~ldP~hv~s~~Ala~~ll  729 (799)
T KOG4162|consen  654 LLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVAL---ALDPDHVPSMTALAELLL  729 (799)
T ss_pred             HHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHH---hcCCCCcHHHHHHHHHHH
Confidence            34445566666666666655555443 12334444444455566777777777777653   3455 4567777888888


Q ss_pred             hcCCHHHHHH--HHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          195 RAGMFEEVLE--FIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       195 ~~g~~~~A~~--~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +.|+..-|..  ++..+++.+| ++..|..+...+.+.|+.+.|.+.|.-..++++.+
T Consensus       730 e~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S~  787 (799)
T KOG4162|consen  730 ELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEESN  787 (799)
T ss_pred             HhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhccCC
Confidence            8887766666  7777677776 56788888888888888888888888877766544

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.84  E-value=0.00075  Score=65.22  Aligned_cols=131  Identities=19%  Similarity=0.146  Sum_probs=77.3

Q ss_pred             HHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHH
Q 047393           21 CIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDA  100 (373)
Q Consensus        21 ~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  100 (373)
                      -..+.+|.+|+.+++.++.+..  -.--|..+...|+..|+++.|.++|.+.         ..++-.|.+|.+.|+|++|
T Consensus       742 ai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da  810 (1636)
T KOG3616|consen  742 AIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDA  810 (1636)
T ss_pred             HhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHH
Confidence            3445667777777776665432  2223566667777777777777777432         2355567777777777777


Q ss_pred             HHHHccCCCC--ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 047393          101 DLAFKSTPEK--NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFL  171 (373)
Q Consensus       101 ~~~~~~m~~~--d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~  171 (373)
                      .++-.+...|  ..+.|-+-..-+-++|++.+|.+++-...    .|+.     .|..|-+.|..+...++.+
T Consensus       811 ~kla~e~~~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~~-----aiqmydk~~~~ddmirlv~  874 (1636)
T KOG3616|consen  811 FKLAEECHGPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPDK-----AIQMYDKHGLDDDMIRLVE  874 (1636)
T ss_pred             HHHHHHhcCchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----CchH-----HHHHHHhhCcchHHHHHHH
Confidence            7777666544  34455555555666777777766654332    2221     2444555555555554443

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

Probab=97.81  E-value=0.032  Score=53.64  Aligned_cols=163  Identities=14%  Similarity=0.146  Sum_probs=94.7

Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHccCCCCC-------hhHHHHHHHHHHhCCChHHHHHHHHHHHHcC-----------CC
Q 047393           83 VGNCLININSRCGKIDDADLAFKSTPEKN-------SLSWTFIISARVNHGHPSEALDLFKDKQWRY-----------TS  144 (373)
Q Consensus        83 ~~~~li~~~~~~g~~~~A~~~~~~m~~~d-------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-----------~~  144 (373)
                      .|-.+.+.|-..|+++.|..+|++..+-+       ..+|......=.++.+++.|+.+++......           .+
T Consensus       389 Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~p  468 (835)
T KOG2047|consen  389 LWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEP  468 (835)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCc
Confidence            45566777888888888888888776432       3456666666667778888888777654221           11


Q ss_pred             C------CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCC--CCCH
Q 047393          145 M------NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPG--KLCP  216 (373)
Q Consensus       145 p------~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~p~~  216 (373)
                      +      +...|...++.--..|-++....+|+.+..- .+. ++...-.....+-.+.-++++++++++-+.+  .|++
T Consensus       469 vQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidL-ria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v  546 (835)
T KOG2047|consen  469 VQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDL-RIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNV  546 (835)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHH-hcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccH
Confidence            1      1223333444444445666666666666432 221 1111112222334456677788888775552  3444


Q ss_pred             -HHHHHHHHHHHH-c--CCHHHHHHHHHHHhccCC
Q 047393          217 -LIWRTLLLSSRV-H--GDMKLAKYALDKLLELDP  247 (373)
Q Consensus       217 -~~~~~li~~~~~-~--g~~~~A~~~~~~m~~~~P  247 (373)
                       ..|+..+.-+.+ -  ...+.|..+|++.++.-|
T Consensus       547 ~diW~tYLtkfi~rygg~klEraRdLFEqaL~~Cp  581 (835)
T KOG2047|consen  547 YDIWNTYLTKFIKRYGGTKLERARDLFEQALDGCP  581 (835)
T ss_pred             HHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCC
Confidence             467776655432 2  267888888888887555

>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=97.80  E-value=0.00014  Score=60.42  Aligned_cols=89  Identities=11%  Similarity=0.062  Sum_probs=67.2

Q ss_pred             CCChhHHHHHHHHHHHc-----CCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCC----------------CchHHHH
Q 047393            8 SDVEIPWNLLLKACIKA-----KDYEMVHELLERIQLCCGFIDSYSICDILNSCLNP----------------ILLNVGT   66 (373)
Q Consensus         8 ~p~~~~~n~li~~~~~~-----g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~----------------~~~~~a~   66 (373)
                      .+|-.+|..+|..|.+.     |.++=....+..|.+-|+.-|..+|+.|++.+=+.                .+.+-|.
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            56777888888888754     56666666677888888888888888888877553                2345678


Q ss_pred             HHHHHHHHcCCCCchhHHHHHHHHhHhcCC
Q 047393           67 QAQAYMTKRGLISHPAVGNCLININSRCGK   96 (373)
Q Consensus        67 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~   96 (373)
                      +++++|...|+.||..++..|++.+++.+.
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            888888888888888888888888876654

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

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

Probab=97.80  E-value=0.00047  Score=51.02  Aligned_cols=82  Identities=12%  Similarity=0.134  Sum_probs=66.8

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHccC--------CHHHHHHHHHHhHHHcCCCCCH
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWRYT-SMNPTTFRSALKAYALMG--------LVGEAYRLFLSMEEVYHIEPSE  183 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-~p~~~t~~~ll~~~~~~g--------~~~~a~~~~~~m~~~~g~~p~~  183 (373)
                      .|....|..+...+++.....+|+.+++.|+ .|+..+|+.++.+-++..        ++-+.+.+|+.|... +++|+.
T Consensus        26 ~t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~-~lKP~~  104 (120)
T PF08579_consen   26 ETQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSN-KLKPND  104 (120)
T ss_pred             HHHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHh-ccCCcH
Confidence            3445567777778999999999999999999 999999999999877653        234567888888765 899999


Q ss_pred             hHHHHHHHHHHh
Q 047393          184 EHYSIMVEALGR  195 (373)
Q Consensus       184 ~~~~~li~~~~~  195 (373)
                      .+|+.++..+.+
T Consensus       105 etYnivl~~Llk  116 (120)
T PF08579_consen  105 ETYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHHH
Confidence            999999887765

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 [, , ].

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.79  E-value=0.00042  Score=49.55  Aligned_cols=97  Identities=19%  Similarity=0.124  Sum_probs=63.8

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHH
Q 047393          115 WTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALG  194 (373)
Q Consensus       115 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~  194 (373)
                      |..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.++.....  .+.+..++..+...+.
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~   79 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALEL--DPDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--CCcchhHHHHHHHHHH
Confidence            4455666677777777777777776552 233456666677777777788888777776443  1334456667777777


Q ss_pred             hcCCHHHHHHHHHhhCCCCC
Q 047393          195 RAGMFEEVLEFIKGIVPGKL  214 (373)
Q Consensus       195 ~~g~~~~A~~~~~~~~~~~p  214 (373)
                      ..|+.++|...+.+..+..|
T Consensus        80 ~~~~~~~a~~~~~~~~~~~~   99 (100)
T cd00189          80 KLGKYEEALEAYEKALELDP   99 (100)
T ss_pred             HHHhHHHHHHHHHHHHccCC
Confidence            77888888777777444333

>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=97.79  E-value=0.00026  Score=58.84  Aligned_cols=96  Identities=15%  Similarity=0.163  Sum_probs=68.0

Q ss_pred             HHHccC--CCCChhHHHHHHHHHHhC-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc--------------
Q 047393          102 LAFKST--PEKNSLSWTFIISARVNH-----GHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALM--------------  160 (373)
Q Consensus       102 ~~~~~m--~~~d~~~~~~li~~~~~~-----g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~--------------  160 (373)
                      ..|+..  ..+|..+|..++..|.+.     |..+=...-++.|.+-|+.-|..+|+.||+.+=+.              
T Consensus        35 ~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~h  114 (228)
T PF06239_consen   35 ELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMH  114 (228)
T ss_pred             HHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhcc
Confidence            344444  345666666666666543     55666666677777778888888888888775432              


Q ss_pred             --CCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCC
Q 047393          161 --GLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGM  198 (373)
Q Consensus       161 --g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~  198 (373)
                        .+.+-|.+++++| +.+|+-||..++..|++.+++.+.
T Consensus       115 yp~Qq~c~i~lL~qM-E~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  115 YPRQQECAIDLLEQM-ENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             CcHHHHHHHHHHHHH-HHcCCCCcHHHHHHHHHHhccccH
Confidence              2456788999999 667999999999999999877665

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

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

Probab=97.78  E-value=0.0012  Score=63.81  Aligned_cols=186  Identities=12%  Similarity=0.106  Sum_probs=146.7

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHh
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININ   91 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~   91 (373)
                      ..|.-+|-+|...|+-.+|.++..+-.+  -+||+..|..+.+......-++.|.++.+..-..       .-..+....
T Consensus       425 emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~  495 (777)
T KOG1128|consen  425 EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLI  495 (777)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhcccc
Confidence            4588899999999999999998887776  4789999999998888877788888888765322       222222233


Q ss_pred             HhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCHHHHH
Q 047393           92 SRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMN-PTTFRSALKAYALMGLVGEAY  167 (373)
Q Consensus        92 ~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~  167 (373)
                      .+.++++++.+.|+.-.   .--..+|-.+-.+..+.++++.|.+-|......  .|| ...||++-.+|.+.|+-.+|.
T Consensus       496 ~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~  573 (777)
T KOG1128|consen  496 LSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAF  573 (777)
T ss_pred             ccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHHH
Confidence            44788999999987543   235678888888888999999999999887764  555 568999999999999999999


Q ss_pred             HHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhC
Q 047393          168 RLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIV  210 (373)
Q Consensus       168 ~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  210 (373)
                      ..+++..+- + .-+...|...+....+.|.+++|.+.+.++.
T Consensus       574 ~~l~EAlKc-n-~~~w~iWENymlvsvdvge~eda~~A~~rll  614 (777)
T KOG1128|consen  574 RKLKEALKC-N-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLL  614 (777)
T ss_pred             HHHHHHhhc-C-CCCCeeeechhhhhhhcccHHHHHHHHHHHH
Confidence            999998553 4 4566678888888889999999999988854

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

Probab=97.78  E-value=0.0061  Score=61.98  Aligned_cols=199  Identities=10%  Similarity=-0.011  Sum_probs=100.6

Q ss_pred             HHHHcCCHhHHHHHHHHHHhcCCCCCH-------------------HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCc
Q 047393           20 ACIKAKDYEMVHELLERIQLCCGFIDS-------------------YSICDILNSCLNPILLNVGTQAQAYMTKRGLISH   80 (373)
Q Consensus        20 ~~~~~g~~~~A~~l~~~m~~~g~~p~~-------------------~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~   80 (373)
                      .+.+.++..++..+  .+... ...+.                   ..+-.+..+|-+.|+.++|..+++++++.. +-|
T Consensus        74 l~~q~~~~~~~~lv--~~l~~-~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n  149 (906)
T PRK14720         74 LSLSRRPLNDSNLL--NLIDS-FSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDN  149 (906)
T ss_pred             HHHhhcchhhhhhh--hhhhh-cccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-ccc
Confidence            56677777776666  33322 22232                   344455555666666666766776666665 455


Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 047393           81 PAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALM  160 (373)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~  160 (373)
                      +.+.|.+...|+.. ++++|.+++.+.           +..|...+++.++.++|.++....  |+              
T Consensus       150 ~~aLNn~AY~~ae~-dL~KA~~m~~KA-----------V~~~i~~kq~~~~~e~W~k~~~~~--~~--------------  201 (906)
T PRK14720        150 PEIVKKLATSYEEE-DKEKAITYLKKA-----------IYRFIKKKQYVGIEEIWSKLVHYN--SD--------------  201 (906)
T ss_pred             HHHHHHHHHHHHHh-hHHHHHHHHHHH-----------HHHHHhhhcchHHHHHHHHHHhcC--cc--------------
Confidence            66666666666666 666666655543           222444555555666555555431  22              


Q ss_pred             CCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHH------------
Q 047393          161 GLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSR------------  227 (373)
Q Consensus       161 g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~------------  227 (373)
                       +.+.-.++.+.+....|..--+.++--+...|-..++++++..++..+++..| |.....-++.+|.            
T Consensus       202 -d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~~kY~~~~~~ee~  280 (906)
T PRK14720        202 -DFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYKEKYKDHSLLEDY  280 (906)
T ss_pred             -cchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHHHHccCcchHHHH
Confidence             11122222222222112222223333344444555555555555555444333 2233333343332            


Q ss_pred             -------Hc-CCHHHHHHHHHHHhccCCCCcc
Q 047393          228 -------VH-GDMKLAKYALDKLLELDPGMYV  251 (373)
Q Consensus       228 -------~~-g~~~~A~~~~~~m~~~~P~~y~  251 (373)
                             .. ..+..|..-|+.....+|.+|+
T Consensus       281 l~~s~l~~~~~~~~~~i~~fek~i~f~~G~yv  312 (906)
T PRK14720        281 LKMSDIGNNRKPVKDCIADFEKNIVFDTGNFV  312 (906)
T ss_pred             HHHhccccCCccHHHHHHHHHHHeeecCCCEE
Confidence                   11 2345666667777777777755

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

Probab=97.74  E-value=0.00046  Score=64.28  Aligned_cols=118  Identities=9%  Similarity=0.019  Sum_probs=71.9

Q ss_pred             CCchhHHHHHHHHhHhcCCHHHHHHHHccCCC-C-----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHH
Q 047393           78 ISHPAVGNCLININSRCGKIDDADLAFKSTPE-K-----NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFR  151 (373)
Q Consensus        78 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~-----d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~  151 (373)
                      +.+......+++......+++++..++.+... |     -..|..++|..|.+.|..++++++++.=..-|+-||..|+|
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            44555555666666666666666666655542 1     23344567777777777777777776666677777777777


Q ss_pred             HHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhc
Q 047393          152 SALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRA  196 (373)
Q Consensus       152 ~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~  196 (373)
                      .+|+.+.+.|++..|.++...|..+ +...+..|+.--+.+|.+.
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQ-e~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQ-EEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHh-hccCCchHHHHHHHHHHHh
Confidence            7777777777777777776666544 4444444544444444433

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 [].

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.73  E-value=0.013  Score=52.32  Aligned_cols=95  Identities=17%  Similarity=0.128  Sum_probs=70.7

Q ss_pred             HHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHH-HHHHHHHhcCCHHHHHHHHHhhCCCCCCHH-HHHHHHHHHHHc
Q 047393          152 SALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYS-IMVEALGRAGMFEEVLEFIKGIVPGKLCPL-IWRTLLLSSRVH  229 (373)
Q Consensus       152 ~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~-~li~~~~~~g~~~~A~~~~~~~~~~~p~~~-~~~~li~~~~~~  229 (373)
                      .+..+++..|+..+|+++|-++. .-.+ .|..+|. .|..+|.++++++.|.+++-+ +....+.. ....+.+-|.+.
T Consensus       398 N~AQAk~atgny~eaEelf~~is-~~~i-kn~~~Y~s~LArCyi~nkkP~lAW~~~lk-~~t~~e~fsLLqlIAn~CYk~  474 (557)
T KOG3785|consen  398 NLAQAKLATGNYVEAEELFIRIS-GPEI-KNKILYKSMLARCYIRNKKPQLAWDMMLK-TNTPSERFSLLQLIANDCYKA  474 (557)
T ss_pred             HHHHHHHHhcChHHHHHHHhhhc-Chhh-hhhHHHHHHHHHHHHhcCCchHHHHHHHh-cCCchhHHHHHHHHHHHHHHH
Confidence            45567778899999999998773 2122 3455665 456888999999999999988 66222333 444555688899


Q ss_pred             CCHHHHHHHHHHHhccCCCC
Q 047393          230 GDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       230 g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +.+--|.+.|+++...+|+.
T Consensus       475 ~eFyyaaKAFd~lE~lDP~p  494 (557)
T KOG3785|consen  475 NEFYYAAKAFDELEILDPTP  494 (557)
T ss_pred             HHHHHHHHhhhHHHccCCCc
Confidence            99999999999999999877

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

Probab=97.71  E-value=0.0036  Score=53.63  Aligned_cols=166  Identities=12%  Similarity=0.038  Sum_probs=113.5

Q ss_pred             HHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCC-Ch
Q 047393           34 LERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEK-NS  112 (373)
Q Consensus        34 ~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-d~  112 (373)
                      .+.+......-+......-...|+..+++++|.+....    |  -+....-.=+..+.|..+++-|.+.++.|.+- +.
T Consensus        96 ~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~----~--~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~ided  169 (299)
T KOG3081|consen   96 YELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHL----G--ENLEAAALNVQILLKMHRFDLAEKELKKMQQIDED  169 (299)
T ss_pred             HHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhc----c--chHHHHHHHHHHHHHHHHHHHHHHHHHHHHccchH
Confidence            33344433333433333344568899999999988765    2  22333333344567778899999999999975 34


Q ss_pred             hHHHHHHHHH----HhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHH
Q 047393          113 LSWTFIISAR----VNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSI  188 (373)
Q Consensus       113 ~~~~~li~~~----~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~  188 (373)
                      .|.+-|..++    .-.+...+|.-+|++|-++ .+|+..+.+....++...|++++|..++++...+.  .-++.+...
T Consensus       170 ~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd--~~dpetL~N  246 (299)
T KOG3081|consen  170 ATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD--AKDPETLAN  246 (299)
T ss_pred             HHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc--CCCHHHHHH
Confidence            5555455554    4456789999999999765 68999999999999999999999999999997653  345555555


Q ss_pred             HHHHHHhcCCHHH-HHHHHHh
Q 047393          189 MVEALGRAGMFEE-VLEFIKG  208 (373)
Q Consensus       189 li~~~~~~g~~~~-A~~~~~~  208 (373)
                      +|-.-.-.|...+ ..+.+..
T Consensus       247 liv~a~~~Gkd~~~~~r~l~Q  267 (299)
T KOG3081|consen  247 LIVLALHLGKDAEVTERNLSQ  267 (299)
T ss_pred             HHHHHHHhCCChHHHHHHHHH
Confidence            5555555555433 3445555

>PRK04841 transcriptional regulator MalT; Provisional

Probab=97.70  E-value=0.013  Score=61.43  Aligned_cols=226  Identities=12%  Similarity=-0.019  Sum_probs=147.0

Q ss_pred             HHHHHcCCHhHHHHHHHHHHhcCCCCCH----HHHHHHHHHHcCCCchHHHHHHHHHHHHcCC---CCc--hhHHHHHHH
Q 047393           19 KACIKAKDYEMVHELLERIQLCCGFIDS----YSICDILNSCLNPILLNVGTQAQAYMTKRGL---ISH--PAVGNCLIN   89 (373)
Q Consensus        19 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~---~~~--~~~~~~li~   89 (373)
                      ..+...|++++|...+++....--..+.    ...+.+...+...|++++|...+++.....-   .+.  ..+...+..
T Consensus       460 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~  539 (903)
T PRK04841        460 QVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSE  539 (903)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHH
Confidence            3456789999999999987763111121    2345555667789999999999988764311   111  234556667


Q ss_pred             HhHhcCCHHHHHHHHccCCC-------C----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHc--CCCCC--HHHHHHHH
Q 047393           90 INSRCGKIDDADLAFKSTPE-------K----NSLSWTFIISARVNHGHPSEALDLFKDKQWR--YTSMN--PTTFRSAL  154 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~~-------~----d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~--g~~p~--~~t~~~ll  154 (373)
                      .+...|++++|...+++...       +    ....+..+...+...|++++|...+++....  ...+.  ..++..+.
T Consensus       540 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  619 (903)
T PRK04841        540 ILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLA  619 (903)
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHH
Confidence            78889999999998875431       1    1233445556677789999999999887543  11222  33444556


Q ss_pred             HHHHccCCHHHHHHHHHHhHHHcCCCCCHhHH-----HHHHHHHHhcCCHHHHHHHHHhhCCCCC-CH----HHHHHHHH
Q 047393          155 KAYALMGLVGEAYRLFLSMEEVYHIEPSEEHY-----SIMVEALGRAGMFEEVLEFIKGIVPGKL-CP----LIWRTLLL  224 (373)
Q Consensus       155 ~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~-----~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~----~~~~~li~  224 (373)
                      ..+...|+.++|...+++......-......+     ...+..+...|+.+.|.+++.......+ ..    ..+..+..
T Consensus       620 ~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~  699 (903)
T PRK04841        620 KISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIAR  699 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHH
Confidence            67788999999999998874421111111111     1123445568999999999877333111 11    12456677


Q ss_pred             HHHHcCCHHHHHHHHHHHhc
Q 047393          225 SSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       225 ~~~~~g~~~~A~~~~~~m~~  244 (373)
                      ++...|+.++|...+++...
T Consensus       700 ~~~~~g~~~~A~~~l~~al~  719 (903)
T PRK04841        700 AQILLGQFDEAEIILEELNE  719 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            78899999999999998876

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

Probab=97.69  E-value=0.0054  Score=55.74  Aligned_cols=202  Identities=11%  Similarity=-0.052  Sum_probs=127.1

Q ss_pred             CCHHHHHHHHHHHcC--CCchHHHHHHHHHHH-HcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCCChhHH---HH
Q 047393           44 IDSYSICDILNSCLN--PILLNVGTQAQAYMT-KRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSW---TF  117 (373)
Q Consensus        44 p~~~~~~~ll~~~~~--~~~~~~a~~~~~~m~-~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~---~~  117 (373)
                      |...+....+.++++  .++...|.+.+-.+. ..-++-|+.....+.+.+...|+.++|+..|++...-|+.+-   ..
T Consensus       192 ~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~  271 (564)
T KOG1174|consen  192 DHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDL  271 (564)
T ss_pred             CCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHH
Confidence            333344444444432  344444444444442 334566788889999999999999999999997765443332   22


Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhc
Q 047393          118 IISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRA  196 (373)
Q Consensus       118 li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~  196 (373)
                      ..-.+.+.|+.++...+...+.... .-...-|..-....-...+++.|+.+-+..++.   .| +...+-.=...+...
T Consensus       272 Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~---~~r~~~alilKG~lL~~~  347 (564)
T KOG1174|consen  272 YAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDS---EPRNHEALILKGRLLIAL  347 (564)
T ss_pred             HHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhcc---CcccchHHHhccHHHHhc
Confidence            2334567888888888777775431 112222222233334567777777777665432   33 223332223566778


Q ss_pred             CCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          197 GMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       197 g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      |+.++|.--|+.+....| +..+|..|+.+|...|+..+|.-.-......-|++
T Consensus       348 ~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~~~~s  401 (564)
T KOG1174|consen  348 ERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRLFQNS  401 (564)
T ss_pred             cchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHHhhcc
Confidence            888888888888666676 67889999999999999888887777766644443

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

Probab=97.67  E-value=0.00091  Score=62.36  Aligned_cols=120  Identities=13%  Similarity=0.054  Sum_probs=99.5

Q ss_pred             CCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHc--CCCCchhHHHHHHHHhHhcCCHHHHHHHHccCC----CCChhH
Q 047393           41 CGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKR--GLISHPAVGNCLININSRCGKIDDADLAFKSTP----EKNSLS  114 (373)
Q Consensus        41 g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~d~~~  114 (373)
                      +.+.+......+++.+....+++++..++-.....  ....-..|..++|..|.+.|..++++++++.=.    =||..|
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            45567778888999999989999999998888665  222334566799999999999999999997644    379999


Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 047393          115 WTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALM  160 (373)
Q Consensus       115 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~  160 (373)
                      +|.||+.+.+.|++..|.++...|...+...+..|+...+.+|.+-
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            9999999999999999999999998888788888888777777665

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

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.64  E-value=0.0089  Score=52.11  Aligned_cols=160  Identities=11%  Similarity=-0.006  Sum_probs=86.3

Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHH-HHHh
Q 047393           14 WNLLLKACIKAKDYEMVHELLERIQLCCGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCL-ININ   91 (373)
Q Consensus        14 ~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l-i~~~   91 (373)
                      |++++..+.+..+++.|++++..-.++  .| +....+.|..+|-...++..|-..++++-..  .|...-|..- ...+
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er--~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSL   88 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELER--SPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSL   88 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhc--CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHH
Confidence            455555566666667776666555443  23 4445555555666666666666666655332  1222211100 1112


Q ss_pred             HhcCCHHHH----------------------------------HHHHccCC-CCChhHHHHHHHHHHhCCChHHHHHHHH
Q 047393           92 SRCGKIDDA----------------------------------DLAFKSTP-EKNSLSWTFIISARVNHGHPSEALDLFK  136 (373)
Q Consensus        92 ~~~g~~~~A----------------------------------~~~~~~m~-~~d~~~~~~li~~~~~~g~~~~A~~l~~  136 (373)
                      .+.+.+.+|                                  ..+.++.+ +.+..+-+.......+.|++++|.+-|+
T Consensus        89 Y~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFq  168 (459)
T KOG4340|consen   89 YKACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQ  168 (459)
T ss_pred             HHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHH
Confidence            223333333                                  33333333 2233333333334457788888888888


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCC
Q 047393          137 DKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHI  179 (373)
Q Consensus       137 ~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~  179 (373)
                      ...+-+--.....|+..+.-| +.|+.+.|.++..++.++ |+
T Consensus       169 aAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieR-G~  209 (459)
T KOG4340|consen  169 AALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIER-GI  209 (459)
T ss_pred             HHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHh-hh
Confidence            876654344556777666554 467788888888887665 44

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.64  E-value=0.0052  Score=54.95  Aligned_cols=205  Identities=15%  Similarity=0.089  Sum_probs=108.4

Q ss_pred             HHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHH---HHcCCCCc--hhHHHHH
Q 047393           13 PWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYM---TKRGLISH--PAVGNCL   87 (373)
Q Consensus        13 ~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m---~~~g~~~~--~~~~~~l   87 (373)
                      .|+.....|-..|++++|.+.|.+...               .+.+.++...|-..+..+   .+.+ .|+  +..|...
T Consensus        37 ~y~~Aa~~fk~~~~~~~A~~ay~kAa~---------------~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A  100 (282)
T PF14938_consen   37 LYEKAANCFKLAKDWEKAAEAYEKAAD---------------CYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKA  100 (282)
T ss_dssp             HHHHHHHHHHHTT-CHHHHHHHHHHHH---------------HHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccchhHHHHHHHHH---------------HHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHH
Confidence            456666666666666666666665543               222222222222222221   0111 111  2334445


Q ss_pred             HHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhC-CChHHHHHHHHHHHHc----CCCCC--HHHHHHHHHHHHcc
Q 047393           88 ININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNH-GHPSEALDLFKDKQWR----YTSMN--PTTFRSALKAYALM  160 (373)
Q Consensus        88 i~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~-g~~~~A~~l~~~m~~~----g~~p~--~~t~~~ll~~~~~~  160 (373)
                      +..|.+.|++..|-+++           ..+...|... |++++|++.|++..+.    | .+.  ..++..+...+.+.
T Consensus       101 ~~~y~~~G~~~~aA~~~-----------~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l  168 (282)
T PF14938_consen  101 IEIYREAGRFSQAAKCL-----------KELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARL  168 (282)
T ss_dssp             HHHHHHCT-HHHHHHHH-----------HHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHhcCcHHHHHHHH-----------HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHh
Confidence            55666666666665533           3455666666 7888888888776432    2 111  24556677778888


Q ss_pred             CCHHHHHHHHHHhHHHcCCC-----CCHh-HHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC------HHHHHHHHHHHHH
Q 047393          161 GLVGEAYRLFLSMEEVYHIE-----PSEE-HYSIMVEALGRAGMFEEVLEFIKGIVPGKLC------PLIWRTLLLSSRV  228 (373)
Q Consensus       161 g~~~~a~~~~~~m~~~~g~~-----p~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~------~~~~~~li~~~~~  228 (373)
                      |++++|.++|++.... ...     .+.. .+-..+-.+...|+...|.+.|++.....|.      ......||.++-.
T Consensus       169 ~~y~~A~~~~e~~~~~-~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~  247 (282)
T PF14938_consen  169 GRYEEAIEIYEEVAKK-CLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEE  247 (282)
T ss_dssp             T-HHHHHHHHHHHHHT-CCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHH-hhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHh
Confidence            8999999999887543 111     1222 2333444556678888888888885544441      2566677777743


Q ss_pred             --cCCHHHHHHHHHHHhccC
Q 047393          229 --HGDMKLAKYALDKLLELD  246 (373)
Q Consensus       229 --~g~~~~A~~~~~~m~~~~  246 (373)
                        ...++.+..-|+.+.+++
T Consensus       248 ~D~e~f~~av~~~d~~~~ld  267 (282)
T PF14938_consen  248 GDVEAFTEAVAEYDSISRLD  267 (282)
T ss_dssp             T-CCCHHHHCHHHTTSS---
T ss_pred             CCHHHHHHHHHHHcccCccH
Confidence              335666666666666655

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=97.63  E-value=0.0032  Score=61.08  Aligned_cols=104  Identities=14%  Similarity=0.156  Sum_probs=57.2

Q ss_pred             hCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHH
Q 047393          124 NHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVL  203 (373)
Q Consensus       124 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  203 (373)
                      ....|.+|+.+++.++..+  .-..-|..+.+-|+..|+++.|+++|.+.    +      .++-.|++|.++|++++|.
T Consensus       744 ~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~----~------~~~dai~my~k~~kw~da~  811 (1636)
T KOG3616|consen  744 GAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA----D------LFKDAIDMYGKAGKWEDAF  811 (1636)
T ss_pred             hhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc----c------hhHHHHHHHhccccHHHHH
Confidence            3445666666666555542  22334555566666667777776666543    1      2344566677777777776


Q ss_pred             HHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047393          204 EFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYAL  239 (373)
Q Consensus       204 ~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  239 (373)
                      ++-++.+.-......|-+-..-+-.+|++.+|+++|
T Consensus       812 kla~e~~~~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  812 KLAEECHGPEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             HHHHHhcCchhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            666663332223345555555555566655555543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.62  E-value=0.0015  Score=49.67  Aligned_cols=102  Identities=16%  Similarity=0.185  Sum_probs=62.0

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHH
Q 047393          114 SWTFIISARVNHGHPSEALDLFKDKQWRYT--SMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMV  190 (373)
Q Consensus       114 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~--~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li  190 (373)
                      ++..+...+.+.|++++|.+.|+.+.+..-  ......+..+...+.+.|+++.|...|+.+...+.-.| ....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            445556666777777777777777765421  11134555566677777777777777777655421111 134556666


Q ss_pred             HHHHhcCCHHHHHHHHHhhCCCCCC
Q 047393          191 EALGRAGMFEEVLEFIKGIVPGKLC  215 (373)
Q Consensus       191 ~~~~~~g~~~~A~~~~~~~~~~~p~  215 (373)
                      .++.+.|+.++|.+.+++++...|+
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~  108 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPG  108 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcC
Confidence            6777777777777777775554443

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.

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

Probab=97.60  E-value=0.00075  Score=62.39  Aligned_cols=101  Identities=13%  Similarity=0.020  Sum_probs=68.0

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcC
Q 047393          119 ISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAG  197 (373)
Q Consensus       119 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g  197 (373)
                      .......|++++|++.|++..+.. +-+...|..+..+|.+.|++++|...+++..+.   .| +...|..+..+|...|
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l---~P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIEL---DPSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcCCHHHHHHHHHHHHHhC
Confidence            344556777888888887777653 335566777777777778888887777777543   33 5566777777777777


Q ss_pred             CHHHHHHHHHhhCCCCCCHHHHHHHH
Q 047393          198 MFEEVLEFIKGIVPGKLCPLIWRTLL  223 (373)
Q Consensus       198 ~~~~A~~~~~~~~~~~p~~~~~~~li  223 (373)
                      ++++|...|++++...|+.......+
T Consensus        85 ~~~eA~~~~~~al~l~P~~~~~~~~l  110 (356)
T PLN03088         85 EYQTAKAALEKGASLAPGDSRFTKLI  110 (356)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            87777777777666666544433333

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.60  E-value=0.00025  Score=47.80  Aligned_cols=61  Identities=23%  Similarity=0.285  Sum_probs=49.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          189 MVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       189 li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +...+.+.|++++|.+.|+++++..| ++..|..+..++...|++++|...|+++++..|++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~   64 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDN   64 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence            34567788999999999998777777 56788888888999999999999999998888864

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

Probab=97.58  E-value=0.034  Score=53.47  Aligned_cols=224  Identities=13%  Similarity=-0.012  Sum_probs=157.3

Q ss_pred             HHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHH
Q 047393           21 CIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDA  100 (373)
Q Consensus        21 ~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  100 (373)
                      +...|+-++|.+..+.-.+.. .-+.+.|.++.-.+....+.++|.+.|....+.+ +-|...+.-|--.=++.|+++..
T Consensus        51 L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~  128 (700)
T KOG1156|consen   51 LNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGY  128 (700)
T ss_pred             hhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhH
Confidence            345678889988777666532 3356778877777778889999999999998876 55677777666666677777776


Q ss_pred             HHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcC-CCCCHHHHHHHH------HHHHccCCHHHHHHHH
Q 047393          101 DLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRY-TSMNPTTFRSAL------KAYALMGLVGEAYRLF  170 (373)
Q Consensus       101 ~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-~~p~~~t~~~ll------~~~~~~g~~~~a~~~~  170 (373)
                      ...-....+   .....|..+..++--.|+...|..++++..+.. -.|+...|.-..      ....++|.+++|.+.+
T Consensus       129 ~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L  208 (700)
T KOG1156|consen  129 LETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHL  208 (700)
T ss_pred             HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHH
Confidence            665554443   356789999999999999999999999987764 356666554332      2345788899998888


Q ss_pred             HHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHH-HHHHHcCCHHHHH-HHHHHHhccCCC
Q 047393          171 LSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLL-LSSRVHGDMKLAK-YALDKLLELDPG  248 (373)
Q Consensus       171 ~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li-~~~~~~g~~~~A~-~~~~~m~~~~P~  248 (373)
                      ..-...  +.-....-..-.+.+.+.+++++|..++...+...||..-|+-.+ .++.+-.+.-++. .+|....+.-|.
T Consensus       209 ~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r  286 (700)
T KOG1156|consen  209 LDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPR  286 (700)
T ss_pred             HhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcc
Confidence            776332  233333444566788899999999999999777788876666555 4554333333444 667766664443

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.58  E-value=0.022  Score=57.42  Aligned_cols=88  Identities=17%  Similarity=0.323  Sum_probs=73.0

Q ss_pred             ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHH
Q 047393          111 NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMV  190 (373)
Q Consensus       111 d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li  190 (373)
                      ....|+.+..+-.+.|...+|++-|-+.      -|...|..+++...+.|.+++-.+++...+++ .-.|.+.  +.||
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk-~~E~~id--~eLi 1173 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKK-VREPYID--SELI 1173 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-hcCccch--HHHH
Confidence            3567999999999999999998877542      37889999999999999999999999988665 5566554  5799


Q ss_pred             HHHHhcCCHHHHHHHHH
Q 047393          191 EALGRAGMFEEVLEFIK  207 (373)
Q Consensus       191 ~~~~~~g~~~~A~~~~~  207 (373)
                      -+|++.+++.+-++++.
T Consensus      1174 ~AyAkt~rl~elE~fi~ 1190 (1666)
T KOG0985|consen 1174 FAYAKTNRLTELEEFIA 1190 (1666)
T ss_pred             HHHHHhchHHHHHHHhc
Confidence            99999999998877664

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

Probab=97.58  E-value=0.0051  Score=58.90  Aligned_cols=174  Identities=7%  Similarity=-0.011  Sum_probs=119.0

Q ss_pred             HHHHHcCCCchHHHHHHHHHHHHc-CCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHH
Q 047393           52 ILNSCLNPILLNVGTQAQAYMTKR-GLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSE  130 (373)
Q Consensus        52 ll~~~~~~~~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~  130 (373)
                      -+..+.+.+++......|+..+.. -+.....+|...+......|-++-+..++++..+-++..-+-.|..+++.+++++
T Consensus       108 Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~e  187 (835)
T KOG2047|consen  108 YLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDE  187 (835)
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHH
Confidence            334445667777777777776543 2233345777777777778888888999988887777777888888899999999


Q ss_pred             HHHHHHHHHHc------CCCCCHHHHHHHHHHHHccCCHHHHH---HHHHHhHHHcCCCCCH--hHHHHHHHHHHhcCCH
Q 047393          131 ALDLFKDKQWR------YTSMNPTTFRSALKAYALMGLVGEAY---RLFLSMEEVYHIEPSE--EHYSIMVEALGRAGMF  199 (373)
Q Consensus       131 A~~l~~~m~~~------g~~p~~~t~~~ll~~~~~~g~~~~a~---~~~~~m~~~~g~~p~~--~~~~~li~~~~~~g~~  199 (373)
                      |-+.+......      .-+.+...|.-+.+..++.-+.-...   .+++.+.   +.-+|.  ..|++|.+-|.+.|.+
T Consensus       188 aa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi---~rftDq~g~Lw~SLAdYYIr~g~~  264 (835)
T KOG2047|consen  188 AAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGI---RRFTDQLGFLWCSLADYYIRSGLF  264 (835)
T ss_pred             HHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhc---ccCcHHHHHHHHHHHHHHHHhhhh
Confidence            98888776532      22456677777777666655443333   3333332   234554  6788999999999999


Q ss_pred             HHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q 047393          200 EEVLEFIKGIVPGKLCPLIWRTLLLSSRV  228 (373)
Q Consensus       200 ~~A~~~~~~~~~~~p~~~~~~~li~~~~~  228 (373)
                      ++|..+|++.|...-.+.-|..+.++|+.
T Consensus       265 ekarDvyeeai~~v~tvrDFt~ifd~Ya~  293 (835)
T KOG2047|consen  265 EKARDVYEEAIQTVMTVRDFTQIFDAYAQ  293 (835)
T ss_pred             HHHHHHHHHHHHhheehhhHHHHHHHHHH
Confidence            99999998877634445555555555543

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.56  E-value=0.00017  Score=49.29  Aligned_cols=66  Identities=23%  Similarity=0.274  Sum_probs=54.1

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcC-CHHHHHHHHHHHhccCC
Q 047393          182 SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHG-DMKLAKYALDKLLELDP  247 (373)
Q Consensus       182 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~~P  247 (373)
                      +..+|..+...+...|++++|+..|++++...| ++..|..+..++...| ++++|.+.+++.++++|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            345677788888888999999999888887667 4678888888888888 68999999988888776

...

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.55  E-value=0.0056  Score=59.32  Aligned_cols=138  Identities=15%  Similarity=0.090  Sum_probs=99.7

Q ss_pred             CChhHHHHHHHHHHhCC-----ChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHcc--------CCHHHHHHHHHHhHH
Q 047393          110 KNSLSWTFIISARVNHG-----HPSEALDLFKDKQWRYTSMNP-TTFRSALKAYALM--------GLVGEAYRLFLSMEE  175 (373)
Q Consensus       110 ~d~~~~~~li~~~~~~g-----~~~~A~~l~~~m~~~g~~p~~-~t~~~ll~~~~~~--------g~~~~a~~~~~~m~~  175 (373)
                      .|...|...+.+.....     ....|.++|++..+.  .|+- ..|..+..++...        +++..+.+..+....
T Consensus       335 ~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~a  412 (517)
T PRK10153        335 HQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVA  412 (517)
T ss_pred             CCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhh
Confidence            47788999888765432     266899999999886  5653 4444433333221        123334444443322


Q ss_pred             HcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          176 VYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       176 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ....+.+...|.++.-.....|++++|...+++++...|+...|..+...+...|+.++|...+++...++|..
T Consensus       413 l~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~  486 (517)
T PRK10153        413 LPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGE  486 (517)
T ss_pred             cccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Confidence            11123455778877777777899999999999998889999999999999999999999999999999999876

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

Probab=97.55  E-value=0.00039  Score=49.70  Aligned_cols=81  Identities=19%  Similarity=0.172  Sum_probs=39.7

Q ss_pred             cCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH-HHHHHHHHHHHHcCCHHHHHHH
Q 047393          160 MGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP-LIWRTLLLSSRVHGDMKLAKYA  238 (373)
Q Consensus       160 ~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~  238 (373)
                      .|+++.|..+++.+.+.....|+...+-.+..+|.+.|++++|.+++++ .+..|.. .....+..++.+.|++++|.++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            3555666666666554421111233333455666666666666666655 4333322 3333444555666666666665


Q ss_pred             HHH
Q 047393          239 LDK  241 (373)
Q Consensus       239 ~~~  241 (373)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            553

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.52  E-value=0.0026  Score=52.33  Aligned_cols=128  Identities=11%  Similarity=-0.026  Sum_probs=62.0

Q ss_pred             HHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCC--HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 047393           13 PWNLLLKACIKAKDYEMVHELLERIQLCCGFID--SYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLINI   90 (373)
Q Consensus        13 ~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~   90 (373)
                      .|..+...+...|++++|.+.|++..+....+.  ...+..+...+.+.|++++|...+....+.. +.+...+..+...
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~  115 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIAVI  115 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            445555555555666666666665554322221  2345555555555566666666555555432 2233344444444


Q ss_pred             hHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 047393           91 NSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGL  162 (373)
Q Consensus        91 ~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~  162 (373)
                      |...|+...+..-++..                 ...+++|.+.+++....  .|+  .|..++..+...|+
T Consensus       116 ~~~~g~~~~a~~~~~~A-----------------~~~~~~A~~~~~~a~~~--~p~--~~~~~~~~~~~~~~  166 (172)
T PRK02603        116 YHKRGEKAEEAGDQDEA-----------------EALFDKAAEYWKQAIRL--APN--NYIEAQNWLKTTGR  166 (172)
T ss_pred             HHHcCChHhHhhCHHHH-----------------HHHHHHHHHHHHHHHhh--Cch--hHHHHHHHHHhcCc
Confidence            55444433332211110                 01145666666666553  233  36666666655554

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.51  E-value=0.0046  Score=50.83  Aligned_cols=86  Identities=14%  Similarity=0.085  Sum_probs=45.8

Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHH
Q 047393          112 SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMN--PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSI  188 (373)
Q Consensus       112 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~  188 (373)
                      ...|..+...+...|++++|...|++..+....++  ...+..+...+.+.|++++|...+++..+.   .| +...+..
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~  111 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL---NPKQPSALNN  111 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcccHHHHHH
Confidence            34455555556666666666666666554332221  245555556666666666666666665432   23 3344444


Q ss_pred             HHHHHHhcCCHH
Q 047393          189 MVEALGRAGMFE  200 (373)
Q Consensus       189 li~~~~~~g~~~  200 (373)
                      +...+...|+..
T Consensus       112 lg~~~~~~g~~~  123 (172)
T PRK02603        112 IAVIYHKRGEKA  123 (172)
T ss_pred             HHHHHHHcCChH
Confidence            555555555533

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.49  E-value=0.037  Score=55.14  Aligned_cols=224  Identities=12%  Similarity=0.020  Sum_probs=151.0

Q ss_pred             HHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHH--cCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHH
Q 047393           21 CIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSC--LNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKID   98 (373)
Q Consensus        21 ~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~--~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~   98 (373)
                      ....+++.+|++...++.+.  .|+.. |..++.++  .|.|..++|..+++.....+.. |..|...+-.+|.+.|+++
T Consensus        19 ~ld~~qfkkal~~~~kllkk--~Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d   94 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKK--HPNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLD   94 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHH--CCCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhh
Confidence            45678899999999888764  35543 44455554  5889999999888887665543 7889999999999999999


Q ss_pred             HHHHHHccCCC--CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC----------CHHHH
Q 047393           99 DADLAFKSTPE--KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMG----------LVGEA  166 (373)
Q Consensus        99 ~A~~~~~~m~~--~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g----------~~~~a  166 (373)
                      +|..++++..+  |+..-...+..+|.+.+.+.+-.+.--+|.+ ..+-+...|-++++...+.-          -+.-|
T Consensus        95 ~~~~~Ye~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA  173 (932)
T KOG2053|consen   95 EAVHLYERANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPILLALA  173 (932)
T ss_pred             HHHHHHHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchhHHHH
Confidence            99999998875  4544555566778887776654333333333 23445666667776655432          13356


Q ss_pred             HHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCC-C--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 047393          167 YRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVP-G--KLCPLIWRTLLLSSRVHGDMKLAKYALDKLL  243 (373)
Q Consensus       167 ~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  243 (373)
                      .+.++.+.++.|---+..-.......+-..|+.++|.+++..-.. .  .-+...-+.-++-+...+++.+-.++..++.
T Consensus       174 ~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll  253 (932)
T KOG2053|consen  174 EKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLL  253 (932)
T ss_pred             HHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            677777766543111222223334455667889999999843122 1  2244555667777888889999888888888


Q ss_pred             ccCCCC
Q 047393          244 ELDPGM  249 (373)
Q Consensus       244 ~~~P~~  249 (373)
                      ..+||+
T Consensus       254 ~k~~Dd  259 (932)
T KOG2053|consen  254 EKGNDD  259 (932)
T ss_pred             HhCCcc
Confidence            888776

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

Probab=97.47  E-value=0.0027  Score=58.72  Aligned_cols=95  Identities=9%  Similarity=-0.033  Sum_probs=73.6

Q ss_pred             HHHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHH
Q 047393           88 ININSRCGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVG  164 (373)
Q Consensus        88 i~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~  164 (373)
                      ...+.+.|++++|++.|++..+   .+...|..+..+|.+.|++++|+..+++..+.. +.+...|..+..+|...|+++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHH
Confidence            3456677899999999987763   356778888888899999999999999888763 345677888888888999999


Q ss_pred             HHHHHHHHhHHHcCCCCCHhHH
Q 047393          165 EAYRLFLSMEEVYHIEPSEEHY  186 (373)
Q Consensus       165 ~a~~~~~~m~~~~g~~p~~~~~  186 (373)
                      +|...|++..+.   .|+....
T Consensus        88 eA~~~~~~al~l---~P~~~~~  106 (356)
T PLN03088         88 TAKAALEKGASL---APGDSRF  106 (356)
T ss_pred             HHHHHHHHHHHh---CCCCHHH
Confidence            999999888653   5554333

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.43  E-value=0.07  Score=46.47  Aligned_cols=168  Identities=10%  Similarity=0.018  Sum_probs=81.9

Q ss_pred             HHHcCCCchHHHHHHHHHHHHcCCCCchhHH---HHHHHHhHhcCCHHHHHHHHccCCC--C--ChhHHHHHHHHHHh--
Q 047393           54 NSCLNPILLNVGTQAQAYMTKRGLISHPAVG---NCLININSRCGKIDDADLAFKSTPE--K--NSLSWTFIISARVN--  124 (373)
Q Consensus        54 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~---~~li~~~~~~g~~~~A~~~~~~m~~--~--d~~~~~~li~~~~~--  124 (373)
                      ..+.+.|++++|.+.|+.+...-.. +....   -.+..+|.+.+++++|...|++..+  |  ..+.|-..+.+.+.  
T Consensus        40 ~~~~~~g~y~~Ai~~f~~l~~~yP~-s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~~  118 (243)
T PRK10866         40 QQKLQDGNWKQAITQLEALDNRYPF-GPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNMA  118 (243)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhhh
Confidence            3345567777887777777664321 12222   2345667777788887777776652  2  12233333333221  


Q ss_pred             CC---------------C---hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHH
Q 047393          125 HG---------------H---PSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHY  186 (373)
Q Consensus       125 ~g---------------~---~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~  186 (373)
                      .+               +   ..+|++.|+++.+.               |=.+.-..+|...+..+....    -. .-
T Consensus       119 ~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~---------------yP~S~ya~~A~~rl~~l~~~l----a~-~e  178 (243)
T PRK10866        119 LDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG---------------YPNSQYTTDATKRLVFLKDRL----AK-YE  178 (243)
T ss_pred             cchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH---------------CcCChhHHHHHHHHHHHHHHH----HH-HH
Confidence            11               1   12344444444433               223333344444333332210    00 11


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhCCCCC----CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047393          187 SIMVEALGRAGMFEEVLEFIKGIVPGKL----CPLIWRTLLLSSRVHGDMKLAKYALDKL  242 (373)
Q Consensus       187 ~~li~~~~~~g~~~~A~~~~~~~~~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m  242 (373)
                      -.+...|.+.|.+..|..=|+.++..-|    .......++.+|...|..++|......+
T Consensus       179 ~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l  238 (243)
T PRK10866        179 LSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII  238 (243)
T ss_pred             HHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            1344556666666666555555443233    2345556666666666666666655443

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.42  E-value=0.0022  Score=55.85  Aligned_cols=94  Identities=19%  Similarity=0.160  Sum_probs=45.8

Q ss_pred             HHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHH
Q 047393          122 RVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFE  200 (373)
Q Consensus       122 ~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~  200 (373)
                      ..+.+++++|+..|.+.++.. +-|.+-|..-..+|++.|..+.|.+=.+....   +.| -..+|..|-.+|...|+++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~---iDp~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALS---IDPHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHh---cChHHHHHHHHHHHHHHccCcHH
Confidence            334455555555555555431 23444444555555555555555544443321   233 2345555555555555555


Q ss_pred             HHHHHHHhhCCCCCCHHHH
Q 047393          201 EVLEFIKGIVPGKLCPLIW  219 (373)
Q Consensus       201 ~A~~~~~~~~~~~p~~~~~  219 (373)
                      +|.+.|.+++.+.|+-.+|
T Consensus       167 ~A~~aykKaLeldP~Ne~~  185 (304)
T KOG0553|consen  167 EAIEAYKKALELDPDNESY  185 (304)
T ss_pred             HHHHHHHhhhccCCCcHHH
Confidence            5555555555555544433

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

Probab=97.39  E-value=0.0036  Score=55.88  Aligned_cols=93  Identities=11%  Similarity=0.107  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHcCCHhHHHHHHHHHHhcC-CCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHh
Q 047393           13 PWNLLLKACIKAKDYEMVHELLERIQLCC-GFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININ   91 (373)
Q Consensus        13 ~~n~li~~~~~~g~~~~A~~l~~~m~~~g-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~   91 (373)
                      +|-.++...-+.+..+.|..+|.+..+.+ +..+.....+++. +.-.++.+.|.++|+...+. ++.+...|..-++.+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E-~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALME-YYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHH-HHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            45555555555555555555555554321 1122222222221 11123444455555554433 233444444444444


Q ss_pred             HhcCCHHHHHHHHccC
Q 047393           92 SRCGKIDDADLAFKST  107 (373)
Q Consensus        92 ~~~g~~~~A~~~~~~m  107 (373)
                      .+.|+.+.|..+|++.
T Consensus        81 ~~~~d~~~aR~lfer~   96 (280)
T PF05843_consen   81 IKLNDINNARALFERA   96 (280)
T ss_dssp             HHTT-HHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHH
Confidence            4445555544444443

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.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.37  E-value=0.0048  Score=50.50  Aligned_cols=89  Identities=10%  Similarity=-0.107  Sum_probs=40.9

Q ss_pred             HHHHHHHHcCCCchHHHHHHHHHHHHcCCCC--chhHHHHHHHHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHHH
Q 047393           49 ICDILNSCLNPILLNVGTQAQAYMTKRGLIS--HPAVGNCLININSRCGKIDDADLAFKSTPE---KNSLSWTFIISARV  123 (373)
Q Consensus        49 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~  123 (373)
                      +..+...+...|++++|...+.........+  ...++..+...|.+.|++++|...+++...   ....++..+...+.
T Consensus        38 ~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~i~~  117 (168)
T CHL00033         38 YYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAVICH  117 (168)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHH
Confidence            4444444444555555555555554332111  123445555555555555555555554331   12233333333333


Q ss_pred             -------hCCChHHHHHHHHH
Q 047393          124 -------NHGHPSEALDLFKD  137 (373)
Q Consensus       124 -------~~g~~~~A~~l~~~  137 (373)
                             ..|++++|...+++
T Consensus       118 ~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        118 YRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HhhHHHHHcccHHHHHHHHHH
Confidence                   55666655444443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.33  E-value=0.028  Score=50.25  Aligned_cols=118  Identities=23%  Similarity=0.297  Sum_probs=76.5

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc-CCHHHHHHHHHHhHHHcCCCCC----HhHHHHH
Q 047393          115 WTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALM-GLVGEAYRLFLSMEEVYHIEPS----EEHYSIM  189 (373)
Q Consensus       115 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~-g~~~~a~~~~~~m~~~~g~~p~----~~~~~~l  189 (373)
                      |.-.+..|...|++..|-.++..+               ...|-.. |+++.|.+.|++..+-+.-...    ..++..+
T Consensus        97 ~~~A~~~y~~~G~~~~aA~~~~~l---------------A~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~  161 (282)
T PF14938_consen   97 YEKAIEIYREAGRFSQAAKCLKEL---------------AEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKA  161 (282)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHH---------------HHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHH---------------HHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHH
Confidence            334556677777777766655554               4456666 8999999999887654322222    3456677


Q ss_pred             HHHHHhcCCHHHHHHHHHhhCCC-------CCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHhccCC
Q 047393          190 VEALGRAGMFEEVLEFIKGIVPG-------KLCPL-IWRTLLLSSRVHGDMKLAKYALDKLLELDP  247 (373)
Q Consensus       190 i~~~~~~g~~~~A~~~~~~~~~~-------~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~P  247 (373)
                      ...+.+.|++++|.++|++....       +.+.. .|-..+-++...|+...|.+.+++..+.+|
T Consensus       162 A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~  227 (282)
T PF14938_consen  162 ADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDP  227 (282)
T ss_dssp             HHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTST
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            88999999999999999985321       11222 333444466778999999999999998776

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

Probab=97.33  E-value=0.00043  Score=49.46  Aligned_cols=80  Identities=15%  Similarity=0.094  Sum_probs=32.6

Q ss_pred             cCCHhHHHHHHHHHHhcCC-CCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHH
Q 047393           24 AKDYEMVHELLERIQLCCG-FIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADL  102 (373)
Q Consensus        24 ~g~~~~A~~l~~~m~~~g~-~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  102 (373)
                      .|+++.|+.+|+++.+... .|+...+..+..++.+.|++++|..+++. .+.+. .+....-.+..+|.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            3455555555555554321 11222233344455555555555555544 11111 112222233444455555555554


Q ss_pred             HHc
Q 047393          103 AFK  105 (373)
Q Consensus       103 ~~~  105 (373)
                      +|+
T Consensus        80 ~l~   82 (84)
T PF12895_consen   80 ALE   82 (84)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            443

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

Probab=97.31  E-value=0.027  Score=53.05  Aligned_cols=121  Identities=15%  Similarity=0.124  Sum_probs=51.7

Q ss_pred             HHHHHHHhHhcCCHHHHHHHHccCCC-----CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHH
Q 047393           84 GNCLININSRCGKIDDADLAFKSTPE-----KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPT-TFRSALKAY  157 (373)
Q Consensus        84 ~~~li~~~~~~g~~~~A~~~~~~m~~-----~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~~~  157 (373)
                      |-.+++.-.|..-+..|..+|.+..+     .++..+++++.-||. ++.+-|..+|+-=.+.  -+|.. --...++.+
T Consensus       369 ~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkk--f~d~p~yv~~YldfL  445 (656)
T KOG1914|consen  369 YCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKK--FGDSPEYVLKYLDFL  445 (656)
T ss_pred             hhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHh--cCCChHHHHHHHHHH
Confidence            33344444444444455555544432     134444444444442 3344444444432222  11222 222334444


Q ss_pred             HccCCHHHHHHHHHHhHHHcCCCCC--HhHHHHHHHHHHhcCCHHHHHHHHHh
Q 047393          158 ALMGLVGEAYRLFLSMEEVYHIEPS--EEHYSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       158 ~~~g~~~~a~~~~~~m~~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                      ...++-..|..+|++.... +++||  ...|..+|+-=..-|++..+.++-++
T Consensus       446 ~~lNdd~N~R~LFEr~l~s-~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR  497 (656)
T KOG1914|consen  446 SHLNDDNNARALFERVLTS-VLSADKSKEIWDRMLEYESNVGDLNSILKLEKR  497 (656)
T ss_pred             HHhCcchhHHHHHHHHHhc-cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            4444445555555554433 33332  24455555544445555555544444

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=97.31  E-value=0.019  Score=56.68  Aligned_cols=211  Identities=10%  Similarity=0.056  Sum_probs=127.1

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhc-C--------CCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCC
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLC-C--------GFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLIS   79 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~-g--------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~   79 (373)
                      .+-+.|..|.+.|++..+++-|.-.+-.|... |        -.|+ .+=..+.-.....|.+++|+.+|.+-++.    
T Consensus       755 kS~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~----  829 (1416)
T KOG3617|consen  755 KSDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKRY----  829 (1416)
T ss_pred             hhhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHHH----
Confidence            35577999999999988888777666666432 1        1232 11111222234668889999888876653    


Q ss_pred             chhHHHHHHHHhHhcCCHHHHHHHHccCCC-CChhHHHHHHHHHHhCCChHHHHHHHHHHH----------HcC------
Q 047393           80 HPAVGNCLININSRCGKIDDADLAFKSTPE-KNSLSWTFIISARVNHGHPSEALDLFKDKQ----------WRY------  142 (373)
Q Consensus        80 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~d~~~~~~li~~~~~~g~~~~A~~l~~~m~----------~~g------  142 (373)
                           ..|=..|-..|.+++|.++-+.=.. .=-.||.--..-+-..++.+.|++.|++-.          ...      
T Consensus       830 -----DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~  904 (1416)
T KOG3617|consen  830 -----DLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQ  904 (1416)
T ss_pred             -----HHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHHHH
Confidence                 3344567778888888887653221 112455555555555666666666665421          110      


Q ss_pred             ---CCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHH
Q 047393          143 ---TSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIW  219 (373)
Q Consensus       143 ---~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  219 (373)
                         -.-|...|.---...-..|+.+.|+.+|... ++         |-+++...|-.|+.++|-++-++    .-|....
T Consensus       905 Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A-~D---------~fs~VrI~C~qGk~~kAa~iA~e----sgd~AAc  970 (1416)
T KOG3617|consen  905 YVRRKRDESLYSWWGQYLESVGEMDAALSFYSSA-KD---------YFSMVRIKCIQGKTDKAARIAEE----SGDKAAC  970 (1416)
T ss_pred             HHHhccchHHHHHHHHHHhcccchHHHHHHHHHh-hh---------hhhheeeEeeccCchHHHHHHHh----cccHHHH
Confidence               0113333333333344578888888888776 32         44566666667777777777766    4466666


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHh
Q 047393          220 RTLLLSSRVHGDMKLAKYALDKLL  243 (373)
Q Consensus       220 ~~li~~~~~~g~~~~A~~~~~~m~  243 (373)
                      ..|.+-|-..|++.+|..+|-+..
T Consensus       971 YhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  971 YHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHH
Confidence            666777777777777777766554

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.30  E-value=0.0054  Score=50.17  Aligned_cols=62  Identities=10%  Similarity=-0.024  Sum_probs=33.1

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHccCCHHHHHHHHHHhH
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWRYTSM--NPTTFRSALKAYALMGLVGEAYRLFLSME  174 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p--~~~t~~~ll~~~~~~g~~~~a~~~~~~m~  174 (373)
                      ..|..+...+...|++++|+..|++.......|  ...++..+-..+.+.|+.++|...++...
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al   99 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQAL   99 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344555555555666666666666654432111  12355555555666666666666665554

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.28  E-value=0.0024  Score=56.82  Aligned_cols=194  Identities=12%  Similarity=0.089  Sum_probs=127.4

Q ss_pred             HHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHH-Hc----CCCchHHHHHHHHHHHHcCCCCchhH-HHHHHHHhH
Q 047393           19 KACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNS-CL----NPILLNVGTQAQAYMTKRGLISHPAV-GNCLININS   92 (373)
Q Consensus        19 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~-~~----~~~~~~~a~~~~~~m~~~g~~~~~~~-~~~li~~~~   92 (373)
                      --|.+.+++.+|..+.+++.-  ..|-.+..-.+..+ ++    ....+.-|.+.|+..-.++...|+.- -.++...+.
T Consensus       293 iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fF  370 (557)
T KOG3785|consen  293 IYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFF  370 (557)
T ss_pred             eeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHH
Confidence            336789999999888666532  23333333333322 22    22345667788877766666655432 234555556


Q ss_pred             hcCCHHHHHHHHccCCC----CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHH-HHHHHHccCCHHHHH
Q 047393           93 RCGKIDDADLAFKSTPE----KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRS-ALKAYALMGLVGEAY  167 (373)
Q Consensus        93 ~~g~~~~A~~~~~~m~~----~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~-ll~~~~~~g~~~~a~  167 (373)
                      -.-++|+.+-.++.+..    .|...|| +..+++..|++.+|+++|-+.....++ |..+|.+ +.++|.+.+.++.|+
T Consensus       371 L~~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW  448 (557)
T KOG3785|consen  371 LSFQFDDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAW  448 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHH
Confidence            66678888887777663    3444444 788999999999999999776544333 5667765 556788999999999


Q ss_pred             HHHHHhHHHcCCCCCHhHHHHHH-HHHHhcCCHHHHHHHHHhhCC-CCCCHHHHHH
Q 047393          168 RLFLSMEEVYHIEPSEEHYSIMV-EALGRAGMFEEVLEFIKGIVP-GKLCPLIWRT  221 (373)
Q Consensus       168 ~~~~~m~~~~g~~p~~~~~~~li-~~~~~~g~~~~A~~~~~~~~~-~~p~~~~~~~  221 (373)
                      +++-.+    .-+.+..+.-.+| .-|-+++.+--|-+-|+. ++ ..|++.-|..
T Consensus       449 ~~~lk~----~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~-lE~lDP~pEnWeG  499 (557)
T KOG3785|consen  449 DMMLKT----NTPSERFSLLQLIANDCYKANEFYYAAKAFDE-LEILDPTPENWEG  499 (557)
T ss_pred             HHHHhc----CCchhHHHHHHHHHHHHHHHHHHHHHHHhhhH-HHccCCCccccCC
Confidence            888665    2234444444444 566688888888888887 54 7888887754

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.28  E-value=0.016  Score=49.63  Aligned_cols=166  Identities=14%  Similarity=0.106  Sum_probs=117.9

Q ss_pred             HHHHHHHhHhcCCHHHHHHHHccCCCC--C--------hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 047393           84 GNCLININSRCGKIDDADLAFKSTPEK--N--------SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSA  153 (373)
Q Consensus        84 ~~~li~~~~~~g~~~~A~~~~~~m~~~--d--------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~l  153 (373)
                      +++|+..+.-...+++-...|+.-..|  .        ....++++..+.-.|.+.-....+++..+...+.++.....+
T Consensus       139 qesLdRl~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~L  218 (366)
T KOG2796|consen  139 QESLDRLHKLKTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGL  218 (366)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHH
Confidence            344444444444444444444433322  2        233456666677778888888999999988767788888899


Q ss_pred             HHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHH-----HHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHH
Q 047393          154 LKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMV-----EALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSR  227 (373)
Q Consensus       154 l~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li-----~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~  227 (373)
                      .+.-.+.|+.+.|..+|+...+..| ..|..+.+.++     ..|.-.+++.+|...|++.+..+| |+..-|.-.-++.
T Consensus       219 gr~~MQ~GD~k~a~~yf~~vek~~~-kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcll  297 (366)
T KOG2796|consen  219 GRISMQIGDIKTAEKYFQDVEKVTQ-KLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLL  297 (366)
T ss_pred             HHHHHhcccHHHHHHHHHHHHHHHh-hhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHH
Confidence            9999999999999999998866533 44444554444     345557889999999998555444 6666676666677


Q ss_pred             HcCCHHHHHHHHHHHhccCCCCc
Q 047393          228 VHGDMKLAKYALDKLLELDPGMY  250 (373)
Q Consensus       228 ~~g~~~~A~~~~~~m~~~~P~~y  250 (373)
                      -.|+...|.+.++.|.+..|..+
T Consensus       298 Ylg~l~DAiK~~e~~~~~~P~~~  320 (366)
T KOG2796|consen  298 YLGKLKDALKQLEAMVQQDPRHY  320 (366)
T ss_pred             HHHHHHHHHHHHHHHhccCCccc
Confidence            79999999999999999988763

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.27  E-value=0.034  Score=52.31  Aligned_cols=224  Identities=16%  Similarity=0.022  Sum_probs=141.5

Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHH-------
Q 047393           14 WNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNC-------   86 (373)
Q Consensus        14 ~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~-------   86 (373)
                      .-.+.++.-+..+++.|++-+....+..  -+..-++..-.++...|...+....-...++.|.. ...-|+.       
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r  303 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALAR  303 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHH
Confidence            4455666667777888888887777643  23333455555667777777766666665555532 1222222       


Q ss_pred             HHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCCHHH
Q 047393           87 LININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPT-TFRSALKAYALMGLVGE  165 (373)
Q Consensus        87 li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~  165 (373)
                      +..+|.+.++++.|...|.+...+-..     =....+....+++....+...-.  .|... -.-.--+.+.+.|++..
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~~--~pe~A~e~r~kGne~Fk~gdy~~  376 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAYI--NPEKAEEEREKGNEAFKKGDYPE  376 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHhh--ChhHHHHHHHHHHHHHhccCHHH
Confidence            223555667777777777664321000     00111222233333333332222  23221 11112455678899999


Q ss_pred             HHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          166 AYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC-PLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       166 a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      |...|.++++..  +-|...|..-.-+|.+.|.+..|+.=.+..++..|+ ...|..=..++.-..++++|.+.|.+..+
T Consensus       377 Av~~YteAIkr~--P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale  454 (539)
T KOG0548|consen  377 AVKHYTEAIKRD--PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALE  454 (539)
T ss_pred             HHHHHHHHHhcC--CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999997762  557899999999999999999999988877776665 35666666777778899999999999999


Q ss_pred             cCCCC
Q 047393          245 LDPGM  249 (373)
Q Consensus       245 ~~P~~  249 (373)
                      .+|++
T Consensus       455 ~dp~~  459 (539)
T KOG0548|consen  455 LDPSN  459 (539)
T ss_pred             cCchh
Confidence            99887

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.25  E-value=0.089  Score=53.37  Aligned_cols=196  Identities=12%  Similarity=0.068  Sum_probs=135.2

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLINI   90 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~   90 (373)
                      ...|+.+..+-.+.|.+.+|.+-|-+.      -|+..|..++..+.+.|.+++-.+.+....+..-+|.+.  +.||-+
T Consensus      1104 p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~A 1175 (1666)
T KOG0985|consen 1104 PAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFA 1175 (1666)
T ss_pred             hHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHH
Confidence            457999999999999999998876443      367789999999999999999999888777776666544  578999


Q ss_pred             hHhcCCHHHHHHHHccCCC-----------------------CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCH
Q 047393           91 NSRCGKIDDADLAFKSTPE-----------------------KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNP  147 (373)
Q Consensus        91 ~~~~g~~~~A~~~~~~m~~-----------------------~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~  147 (373)
                      |++.+++.+-++++..-..                       .++..|.-|...+...|.+..|.+.-++      .-+.
T Consensus      1176 yAkt~rl~elE~fi~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRK------Ans~ 1249 (1666)
T KOG0985|consen 1176 YAKTNRLTELEEFIAGPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARK------ANST 1249 (1666)
T ss_pred             HHHhchHHHHHHHhcCCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhh------ccch
Confidence            9999999987776532110                       1455567777777777888777654433      2367


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCC--CCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHH
Q 047393          148 TTFRSALKAYALMGLVGEAYRLFLSMEEVYHI--EPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLL  224 (373)
Q Consensus       148 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~  224 (373)
                      .||-.+-.+|...+.+.-|     +|   .|+  .....-..-++..|-..|-+++-..+++..+..+. ....|+-|.-
T Consensus      1250 ktWK~VcfaCvd~~EFrlA-----Qi---CGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmfTELai 1321 (1666)
T KOG0985|consen 1250 KTWKEVCFACVDKEEFRLA-----QI---CGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMFTELAI 1321 (1666)
T ss_pred             hHHHHHHHHHhchhhhhHH-----Hh---cCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHHHHHHH
Confidence            7888888888777665544     22   233  23344455677777778888877777776544222 3344444444


Q ss_pred             HHHH
Q 047393          225 SSRV  228 (373)
Q Consensus       225 ~~~~  228 (373)
                      .|.+
T Consensus      1322 LYsk 1325 (1666)
T KOG0985|consen 1322 LYSK 1325 (1666)
T ss_pred             HHHh
Confidence            4443

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.24  E-value=0.034  Score=52.89  Aligned_cols=176  Identities=14%  Similarity=0.036  Sum_probs=116.8

Q ss_pred             HHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHH--HHHHHH--hCCC
Q 047393           52 ILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTF--IISARV--NHGH  127 (373)
Q Consensus        52 ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~--li~~~~--~~g~  127 (373)
                      =++-+...+++++|.+....++..+ +-+...+.+=+-++.+.+++++|+++.+.-...+  +++.  +=.+||  +.++
T Consensus        18 ~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~--~~~~~~fEKAYc~Yrlnk   94 (652)
T KOG2376|consen   18 DLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGALL--VINSFFFEKAYCEYRLNK   94 (652)
T ss_pred             HHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhh--hcchhhHHHHHHHHHccc
Confidence            3455678899999999999998876 5667778888888999999999998776544221  2222  244554  7899


Q ss_pred             hHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCC-CCHhHHHHHHHHHHhcCCHHHHHHH
Q 047393          128 PSEALDLFKDKQWRYTSMNP-TTFRSALKAYALMGLVGEAYRLFLSMEEVYHIE-PSEEHYSIMVEALGRAGMFEEVLEF  205 (373)
Q Consensus       128 ~~~A~~l~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~-p~~~~~~~li~~~~~~g~~~~A~~~  205 (373)
                      .++|+..++     |..++. .+...-...+-+.|++++|.++|+.+.+. +.+ -+...-..++.+-    ....+. +
T Consensus        95 ~Dealk~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn-~~dd~d~~~r~nl~a~~----a~l~~~-~  163 (652)
T KOG2376|consen   95 LDEALKTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKN-NSDDQDEERRANLLAVA----AALQVQ-L  163 (652)
T ss_pred             HHHHHHHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-CCchHHHHHHHHHHHHH----HhhhHH-H
Confidence            999999887     344433 35555567788999999999999999553 221 1223333333221    111222 4


Q ss_pred             HHhhCCCCCCHHHHHHHH---HHHHHcCCHHHHHHHHHHHh
Q 047393          206 IKGIVPGKLCPLIWRTLL---LSSRVHGDMKLAKYALDKLL  243 (373)
Q Consensus       206 ~~~~~~~~p~~~~~~~li---~~~~~~g~~~~A~~~~~~m~  243 (373)
                      .+. .+..| ..+|..+.   -.+...|++.+|+++++...
T Consensus       164 ~q~-v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~  202 (652)
T KOG2376|consen  164 LQS-VPEVP-EDSYELLYNTACILIENGKYNQAIELLEKAL  202 (652)
T ss_pred             HHh-ccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            555 55455 23444443   34567899999999999983

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

Probab=97.24  E-value=0.043  Score=51.78  Aligned_cols=182  Identities=11%  Similarity=0.045  Sum_probs=129.7

Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHh---HhcCCHHHHHHHHccCCC----CChhHHHHHHHHHHhCCChHHHHHHH
Q 047393           63 NVGTQAQAYMTKRGLISHPAVGNCLININ---SRCGKIDDADLAFKSTPE----KNSLSWTFIISARVNHGHPSEALDLF  135 (373)
Q Consensus        63 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~---~~~g~~~~A~~~~~~m~~----~d~~~~~~li~~~~~~g~~~~A~~l~  135 (373)
                      +++.++++..+..-...+..+|.++.+.=   .+..+.+.....+++...    .-..+|-.+++.-.+..-++.|..+|
T Consensus       310 ~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF  389 (656)
T KOG1914|consen  310 DEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIF  389 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHH
Confidence            44555555554433233444444433211   011123334444444432    23467888888888888899999999


Q ss_pred             HHHHHcCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCC--
Q 047393          136 KDKQWRYTSM-NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPG--  212 (373)
Q Consensus       136 ~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--  212 (373)
                      .+..+.+..+ +...+++++..+| +++.+-|.++|+-=.+.+|  -++......++-+...++-..|..+|++.++.  
T Consensus       390 ~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkkf~--d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l  466 (656)
T KOG1914|consen  390 KKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKKFG--DSPEYVLKYLDFLSHLNDDNNARALFERVLTSVL  466 (656)
T ss_pred             HHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHhcC--CChHHHHHHHHHHHHhCcchhHHHHHHHHHhccC
Confidence            9999998888 7788889998888 5788999999998767653  34455668889999999999999999997663  


Q ss_pred             CCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCC
Q 047393          213 KLC--PLIWRTLLLSSRVHGDMKLAKYALDKLLELDP  247 (373)
Q Consensus       213 ~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P  247 (373)
                      .|+  ...|..+|.-=..-|+...+.++-+++...-|
T Consensus       467 ~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~  503 (656)
T KOG1914|consen  467 SADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFP  503 (656)
T ss_pred             ChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcc
Confidence            333  47999999999999999999999998887544

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.23  E-value=0.015  Score=46.24  Aligned_cols=91  Identities=13%  Similarity=0.012  Sum_probs=65.6

Q ss_pred             HHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHc
Q 047393          152 SALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVH  229 (373)
Q Consensus       152 ~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~  229 (373)
                      .+-..+...|++++|..+|+.+..-   .| +..-|-.|--++-..|++++|...|..+....| |+..+-.+..++...
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~~---Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L~l  116 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTIY---DAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYLAC  116 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHc
Confidence            3344456678888888888877532   44 445566677777778888888888887666666 567777778888888


Q ss_pred             CCHHHHHHHHHHHhcc
Q 047393          230 GDMKLAKYALDKLLEL  245 (373)
Q Consensus       230 g~~~~A~~~~~~m~~~  245 (373)
                      |+.+.|.+.|+..+..
T Consensus       117 G~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        117 DNVCYAIKALKAVVRI  132 (157)
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            8888888888877763

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.23  E-value=0.026  Score=49.31  Aligned_cols=84  Identities=11%  Similarity=0.157  Sum_probs=37.4

Q ss_pred             HHHhCCChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCC
Q 047393          121 ARVNHGHPSEALDLFKDKQWR-YTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGM  198 (373)
Q Consensus       121 ~~~~~g~~~~A~~l~~~m~~~-g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~  198 (373)
                      .+.+.|+++.|.+-+-.|--+ ....|++|...+.-. --.+++.+...-++-+...   .| -..||..++-.||++.-
T Consensus       250 Ieyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~---nPfP~ETFANlLllyCKNey  325 (459)
T KOG4340|consen  250 IEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQ---NPFPPETFANLLLLYCKNEY  325 (459)
T ss_pred             hhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhc---CCCChHHHHHHHHHHhhhHH
Confidence            344555555555555555211 123344444433211 1123333333333333222   22 23455555666666666


Q ss_pred             HHHHHHHHHh
Q 047393          199 FEEVLEFIKG  208 (373)
Q Consensus       199 ~~~A~~~~~~  208 (373)
                      ++-|-.++.+
T Consensus       326 f~lAADvLAE  335 (459)
T KOG4340|consen  326 FDLAADVLAE  335 (459)
T ss_pred             HhHHHHHHhh
Confidence            6666665555

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.20  E-value=0.0018  Score=43.96  Aligned_cols=61  Identities=13%  Similarity=0.150  Sum_probs=32.4

Q ss_pred             ccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHH
Q 047393          159 LMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRT  221 (373)
Q Consensus       159 ~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  221 (373)
                      +.|++++|..+|+.+....  +-+...+..+..+|.+.|++++|.++++++....|+...|..
T Consensus         3 ~~~~~~~A~~~~~~~l~~~--p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~   63 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN--PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQQ   63 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT--TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHHH
Confidence            3456666666666654431  224555555666666666666666666664344555444433

...

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.18  E-value=0.019  Score=43.83  Aligned_cols=108  Identities=17%  Similarity=0.096  Sum_probs=75.9

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHH
Q 047393          118 IISARVNHGHPSEALDLFKDKQWRYTSMN--PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALG  194 (373)
Q Consensus       118 li~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~  194 (373)
                      +..++-..|+.++|+.+|++....|....  ...+..+-+.+...|++++|..++++....+.-.+ +......+..++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            45567788999999999999999887655  34667778888999999999999999876531111 2223333445777


Q ss_pred             hcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q 047393          195 RAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSR  227 (373)
Q Consensus       195 ~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~  227 (373)
                      ..|+.++|.+.+-..+.  ++...|..-|..|.
T Consensus        87 ~~gr~~eAl~~~l~~la--~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   87 NLGRPKEALEWLLEALA--ETLPRYRRAIRFYA  117 (120)
T ss_pred             HCCCHHHHHHHHHHHHH--HHHHHHHHHHHHHH
Confidence            88999999998876332  34445555555554

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.17  E-value=0.12  Score=51.57  Aligned_cols=199  Identities=14%  Similarity=0.075  Sum_probs=131.3

Q ss_pred             HHHHHHHHH--HHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 047393           13 PWNLLLKAC--IKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLINI   90 (373)
Q Consensus        13 ~~n~li~~~--~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~   90 (373)
                      .|..++.++  .+.|+.++|..+++.....+.. |..|...+-..|.+.++.++|..+|++..+.  -|+......+..+
T Consensus        43 ~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFma  119 (932)
T KOG2053|consen   43 LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMA  119 (932)
T ss_pred             HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHH
Confidence            455566665  4789999999888877665443 7889999999999999999999999998765  4777777778888


Q ss_pred             hHhcCCHHH----HHHHHccCCCCChhHHHHHHHHHHhC-CCh---------HHHHHHHHHHHHcC-CCCCHHHHHHHHH
Q 047393           91 NSRCGKIDD----ADLAFKSTPEKNSLSWTFIISARVNH-GHP---------SEALDLFKDKQWRY-TSMNPTTFRSALK  155 (373)
Q Consensus        91 ~~~~g~~~~----A~~~~~~m~~~d~~~~~~li~~~~~~-g~~---------~~A~~l~~~m~~~g-~~p~~~t~~~ll~  155 (373)
                      |.|.+.+.+    |.++++..++.--..|++ ++.+.+. ...         --|...++.+.+.+ -.-+..-.-.-+.
T Consensus       120 yvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV-~Slilqs~~~~~~~~~~i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~  198 (932)
T KOG2053|consen  120 YVREKSYKKQQKAALQLYKNFPKRAYYFWSV-ISLILQSIFSENELLDPILLALAEKMVQKLLEKKGKIESEAEIILYLL  198 (932)
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCcccchHHHH-HHHHHHhccCCcccccchhHHHHHHHHHHHhccCCccchHHHHHHHHH
Confidence            999887654    677788766555555543 3333221 111         23455556655543 1112222222233


Q ss_pred             HHHccCCHHHHHHHHH-HhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH
Q 047393          156 AYALMGLVGEAYRLFL-SMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP  216 (373)
Q Consensus       156 ~~~~~g~~~~a~~~~~-~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~  216 (373)
                      .....|.+++|..++. ...+. -..-+...-+--++.+...+++.+..++-.+++...+|.
T Consensus       199 iL~~~~k~~eal~~l~~~la~~-l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~~Dd  259 (932)
T KOG2053|consen  199 ILELQGKYQEALEFLAITLAEK-LTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKGNDD  259 (932)
T ss_pred             HHHhcccHHHHHHHHHHHHHHh-ccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhCCcc
Confidence            4456888999999994 33232 122244455566788888899988888777755545553

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.09  E-value=0.0078  Score=52.54  Aligned_cols=105  Identities=20%  Similarity=0.140  Sum_probs=89.0

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHh
Q 047393          130 EALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       130 ~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                      +...+-++++..|            +-..+.+++++|...|.+.++   +.| |.+.|..=..+|.+.|..+.|.+=.+.
T Consensus        76 e~~~~AE~LK~eG------------N~~m~~~~Y~eAv~kY~~AI~---l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~  140 (304)
T KOG0553|consen   76 EDKALAESLKNEG------------NKLMKNKDYQEAVDKYTEAIE---LDPTNAVYYCNRAAAYSKLGEYEDAVKDCES  140 (304)
T ss_pred             hHHHHHHHHHHHH------------HHHHHhhhHHHHHHHHHHHHh---cCCCcchHHHHHHHHHHHhcchHHHHHHHHH
Confidence            4555566676665            345678999999999999864   455 667777778999999999999999999


Q ss_pred             hCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          209 IVPGKLCP-LIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       209 ~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ++.+.|.. .+|..|-.+|...|++++|.+.|++.++++|++
T Consensus       141 Al~iDp~yskay~RLG~A~~~~gk~~~A~~aykKaLeldP~N  182 (304)
T KOG0553|consen  141 ALSIDPHYSKAYGRLGLAYLALGKYEEAIEAYKKALELDPDN  182 (304)
T ss_pred             HHhcChHHHHHHHHHHHHHHccCcHHHHHHHHHhhhccCCCc
Confidence            88888864 699999999999999999999999999999999

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.07  E-value=0.012  Score=51.78  Aligned_cols=103  Identities=13%  Similarity=0.077  Sum_probs=75.7

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC----HHHHHH
Q 047393          147 PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC----PLIWRT  221 (373)
Q Consensus       147 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~  221 (373)
                      ...|...+....+.|++++|...|+.+.+.+.-.+ ....+-.+...|...|++++|...|+.++...|+    +..+-.
T Consensus       143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            34566666555667899999999998877642111 1245667788888899999999999886654453    456666


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          222 LLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       222 li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +...+...|+.++|...|+.+++..|+.
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~yP~s  250 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKKYPGT  250 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence            6777888999999999999999877765

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=97.07  E-value=0.01  Score=45.83  Aligned_cols=54  Identities=13%  Similarity=0.081  Sum_probs=41.0

Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHh
Q 047393          142 YTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGR  195 (373)
Q Consensus       142 g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~  195 (373)
                      ...|+..+..+++.+|+..|++..|.++.+...+.++++.+..+|..|+.-...
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            356778888888888888888888888888887888877777777777764443

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

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.06  E-value=0.0019  Score=44.58  Aligned_cols=59  Identities=22%  Similarity=0.230  Sum_probs=41.9

Q ss_pred             HHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          191 EALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       191 ~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ..|.+.+++++|.+++++++...| ++..|......+.+.|++++|...++...+..|++
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~   62 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDD   62 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCc
Confidence            456677777777777777666666 45566667777777777777777777777776654

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.05  E-value=0.023  Score=57.20  Aligned_cols=176  Identities=13%  Similarity=0.029  Sum_probs=123.8

Q ss_pred             hHHHHHHHHHHHHcCCCCc-hhHHHHHHHHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHH
Q 047393           62 LNVGTQAQAYMTKRGLISH-PAVGNCLININSRCGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKD  137 (373)
Q Consensus        62 ~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~  137 (373)
                      ...|...|-+..+  +.|+ ...|..|...|+...+...|.+.|+..-+   .|..++......|++..+++.|..+.-.
T Consensus       474 ~~~al~ali~alr--ld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  474 SALALHALIRALR--LDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             HHHHHHHHHHHHh--cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            4444444444433  3344 45788889999988889999999986654   4678889999999999999999988322


Q ss_pred             HHHcCCCCCHHHHHH--HHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC
Q 047393          138 KQWRYTSMNPTTFRS--ALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL  214 (373)
Q Consensus       138 m~~~g~~p~~~t~~~--ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p  214 (373)
                      .-+. -+.-...++.  .--.|.+.++...|..-|+...+   +.| |...|..+.++|.++|++..|.++|.++...+|
T Consensus       552 ~~qk-a~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR---~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP  627 (1238)
T KOG1127|consen  552 AAQK-APAFACKENWVQRGPYYLEAHNLHGAVCEFQSALR---TDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRP  627 (1238)
T ss_pred             Hhhh-chHHHHHhhhhhccccccCccchhhHHHHHHHHhc---CCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCc
Confidence            2211 1111222222  23346778899999999987754   355 788999999999999999999999999555666


Q ss_pred             CHHHHHHHH--HHHHHcCCHHHHHHHHHHHhc
Q 047393          215 CPLIWRTLL--LSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       215 ~~~~~~~li--~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      +.. |...-  ...+..|.+++|...+..++.
T Consensus       628 ~s~-y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  628 LSK-YGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             HhH-HHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            542 22222  234668888999888887765

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.03  E-value=0.19  Score=45.58  Aligned_cols=100  Identities=23%  Similarity=0.139  Sum_probs=46.6

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCC
Q 047393          119 ISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGM  198 (373)
Q Consensus       119 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~  198 (373)
                      |.-+...|+...|.++-.+..    .||..-|-..+.+++..++|++-.++-..       .-.+.-|..+++++.+.|+
T Consensus       184 i~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s-------kKsPIGyepFv~~~~~~~~  252 (319)
T PF04840_consen  184 IRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS-------KKSPIGYEPFVEACLKYGN  252 (319)
T ss_pred             HHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC-------CCCCCChHHHHHHHHHCCC
Confidence            444444555555544443332    34555555555555555555544443211       1122344455555555555


Q ss_pred             HHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047393          199 FEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKY  237 (373)
Q Consensus       199 ~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  237 (373)
                      ..+|..++.+ ++       +..-+..|.+.|++.+|.+
T Consensus       253 ~~eA~~yI~k-~~-------~~~rv~~y~~~~~~~~A~~  283 (319)
T PF04840_consen  253 KKEASKYIPK-IP-------DEERVEMYLKCGDYKEAAQ  283 (319)
T ss_pred             HHHHHHHHHh-CC-------hHHHHHHHHHCCCHHHHHH
Confidence            5555555555 32       1233444445555555444

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

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.02  E-value=0.043  Score=43.73  Aligned_cols=89  Identities=9%  Similarity=-0.086  Sum_probs=39.5

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhc
Q 047393          117 FIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRA  196 (373)
Q Consensus       117 ~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~  196 (373)
                      .+..-+...|++++|..+|+-...-. +-+..-|..|--.+-..|++++|...|.....- . +-|+..+-.+-.++...
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L-~-~ddp~~~~~ag~c~L~l  116 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQI-K-IDAPQAPWAAAECYLAC  116 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc-C-CCCchHHHHHHHHHHHc
Confidence            33334444555555555555444331 112223333333444445555555555544221 1 12344444455555555


Q ss_pred             CCHHHHHHHHHh
Q 047393          197 GMFEEVLEFIKG  208 (373)
Q Consensus       197 g~~~~A~~~~~~  208 (373)
                      |+.+.|.+-|+.
T Consensus       117 G~~~~A~~aF~~  128 (157)
T PRK15363        117 DNVCYAIKALKA  128 (157)
T ss_pred             CCHHHHHHHHHH
Confidence            555555555554

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.00  E-value=0.012  Score=59.02  Aligned_cols=152  Identities=13%  Similarity=0.024  Sum_probs=117.3

Q ss_pred             CHHHHHHHHccCCCCC---hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Q 047393           96 KIDDADLAFKSTPEKN---SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLS  172 (373)
Q Consensus        96 ~~~~A~~~~~~m~~~d---~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~  172 (373)
                      +...|+..|=+-.+.|   ...|..|...|+..-+...|...|++..+.. ..|........+.|+...+++.|..+.-.
T Consensus       473 ~~~~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  473 NSALALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             hHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            3666666664433332   5689999999998888889999999887653 33566777888999999999999998444


Q ss_pred             hHHHcCCCC-CHhH--HHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          173 MEEVYHIEP-SEEH--YSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       173 m~~~~g~~p-~~~~--~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      .-+.   .| -...  |...--.|.+.++...|..-|+.+++..| |...|..+..+|...|++..|.++|.++..++|.
T Consensus       552 ~~qk---a~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~  628 (1238)
T KOG1127|consen  552 AAQK---APAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPL  628 (1238)
T ss_pred             Hhhh---chHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcH
Confidence            3222   22 2222  22344456788999999999999898888 7789999999999999999999999999999999


Q ss_pred             C-cc
Q 047393          249 M-YV  251 (373)
Q Consensus       249 ~-y~  251 (373)
                      + |.
T Consensus       629 s~y~  632 (1238)
T KOG1127|consen  629 SKYG  632 (1238)
T ss_pred             hHHH
Confidence            9 54

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.00  E-value=0.17  Score=42.71  Aligned_cols=182  Identities=15%  Similarity=0.009  Sum_probs=94.0

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCC-CC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCG-FI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~-~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      ...-.....+.+.|++.+|.+.|+++...-. .| -....-.+..++-+.|+.+.|...+++.++.-......-+-..+.
T Consensus         6 ~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~   85 (203)
T PF13525_consen    6 EALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYML   85 (203)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHH
Confidence            3344455567789999999999999887521 11 223455677788888999999999998876532111122222222


Q ss_pred             HhHhcCCHHHHHHHHccCCCCC-------hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 047393           90 INSRCGKIDDADLAFKSTPEKN-------SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGL  162 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~~~d-------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~  162 (373)
                      +.+.........     ...+|       ...+..+|.-|=.+....+|...+..+.+.    =...-..+...|.+.|.
T Consensus        86 g~~~~~~~~~~~-----~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y~~~~~  156 (203)
T PF13525_consen   86 GLSYYKQIPGIL-----RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYIARFYYKRGK  156 (203)
T ss_dssp             HHHHHHHHHHHH------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHHHCTT-
T ss_pred             HHHHHHhCccch-----hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHccc
Confidence            222211111111     11122       234555666666666666665555444322    01111224555777777


Q ss_pred             HHHHHHHHHHhHHHcCCCCC-HhHHHHHHHHHHhcCCHHHH
Q 047393          163 VGEAYRLFLSMEEVYHIEPS-EEHYSIMVEALGRAGMFEEV  202 (373)
Q Consensus       163 ~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~~~~A  202 (373)
                      +..|...++.+.+.+.-.+. ....-.++.+|-+.|..+.|
T Consensus       157 y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  157 YKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            77777777777766422221 13334566666666666643

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.96  E-value=0.057  Score=52.43  Aligned_cols=73  Identities=12%  Similarity=0.005  Sum_probs=50.8

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHH
Q 047393          146 NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRT  221 (373)
Q Consensus       146 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  221 (373)
                      +...|..+.-.....|++++|...+++...-   .|+...|..+...+...|+.++|.+.+++++...|...+|..
T Consensus       419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L---~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt~~~  491 (517)
T PRK10153        419 LPRIYEILAVQALVKGKTDEAYQAINKAIDL---EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENTLYW  491 (517)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCchHHH
Confidence            4456665544455568888888888877543   567777777788888888888888888877777776555443

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=96.93  E-value=0.005  Score=41.69  Aligned_cols=63  Identities=22%  Similarity=0.328  Sum_probs=46.6

Q ss_pred             HhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHH
Q 047393          123 VNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIM  189 (373)
Q Consensus       123 ~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~l  189 (373)
                      .+.|++++|+++|+++.+.. +-+......+..+|.+.|++++|..+++.+...   .|+...|..+
T Consensus         2 l~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~---~~~~~~~~~l   64 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ---DPDNPEYQQL   64 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG---GTTHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH---CcCHHHHHHH
Confidence            46788889999998887763 336777778888889999999999999888655   5664444443

...

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

Probab=96.91  E-value=0.0093  Score=51.61  Aligned_cols=95  Identities=12%  Similarity=0.020  Sum_probs=76.6

Q ss_pred             CCCCC--CCChhHHHHHHHHHHHc-----CCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCC---------------
Q 047393            3 LCSLI--SDVEIPWNLLLKACIKA-----KDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPI---------------   60 (373)
Q Consensus         3 f~~m~--~p~~~~~n~li~~~~~~-----g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~---------------   60 (373)
                      |...+  ++|-.+|-+.+..|...     +.++=....++.|.+.|+.-|..+|+.|++.+-+..               
T Consensus        57 F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP  136 (406)
T KOG3941|consen   57 FEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYP  136 (406)
T ss_pred             hhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCc
Confidence            44444  68888999998888654     556666666788999999999999999999876653               


Q ss_pred             -chHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCH
Q 047393           61 -LLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKI   97 (373)
Q Consensus        61 -~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~   97 (373)
                       +-+-+..++++|..+|+.||..+-..|++++.+.+..
T Consensus       137 ~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  137 QQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             hhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence             3355789999999999999999999999999887753

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.81  E-value=0.033  Score=42.60  Aligned_cols=57  Identities=9%  Similarity=-0.173  Sum_probs=33.3

Q ss_pred             HHHHHcCCHhHHHHHHHHHHhcCCCCC--HHHHHHHHHHHcCCCchHHHHHHHHHHHHc
Q 047393           19 KACIKAKDYEMVHELLERIQLCCGFID--SYSICDILNSCLNPILLNVGTQAQAYMTKR   75 (373)
Q Consensus        19 ~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   75 (373)
                      .++-..|+.++|+.+|++....|+..+  ...+-.+.+++...|++++|..+++.....
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~   67 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEE   67 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            445556666666666666666655433  223445555666666666666666665543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.80  E-value=0.02  Score=50.35  Aligned_cols=103  Identities=10%  Similarity=0.017  Sum_probs=77.5

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHH
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNP----TTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYS  187 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~----~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~  187 (373)
                      ..|..-+..+.+.|++++|...|+.+.+.  -|+.    ..+-.+..+|...|++++|...|+.+.+.+.-.| ....+-
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~  221 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMF  221 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHH
Confidence            44666666667789999999999999887  3443    5677788888999999999999999987643222 234444


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhCCCCCCHH
Q 047393          188 IMVEALGRAGMFEEVLEFIKGIVPGKLCPL  217 (373)
Q Consensus       188 ~li~~~~~~g~~~~A~~~~~~~~~~~p~~~  217 (373)
                      .+...+...|+.++|..+|++.++..|+..
T Consensus       222 klg~~~~~~g~~~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        222 KVGVIMQDKGDTAKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence            556677789999999999998666667543

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.78  E-value=0.17  Score=48.97  Aligned_cols=209  Identities=14%  Similarity=0.083  Sum_probs=125.6

Q ss_pred             HHHHHHHHHHHcCC--HhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 047393           13 PWNLLLKACIKAKD--YEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLINI   90 (373)
Q Consensus        13 ~~n~li~~~~~~g~--~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~   90 (373)
                      -+++.=.+|.+-.+  +-+-..-+++|+++|-.|+....   ...|+-.|.+.+|.++|.+   .|..      |-.+.+
T Consensus       600 ~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iLl---A~~~Ay~gKF~EAAklFk~---~G~e------nRAlEm  667 (1081)
T KOG1538|consen  600 DFETARKAYIRVRDLRYLELISELEERKKRGETPNDLLL---ADVFAYQGKFHEAAKLFKR---SGHE------NRALEM  667 (1081)
T ss_pred             hhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHHH---HHHHHhhhhHHHHHHHHHH---cCch------hhHHHH
Confidence            35555667766555  33344445678888887887643   3445667888888888754   4432      223444


Q ss_pred             hHhcCCHHHHHHHHccCCC-------CChhHH-------HHHHHHHHhCCChHHHHHHHHH------HHHcCC---CCCH
Q 047393           91 NSRCGKIDDADLAFKSTPE-------KNSLSW-------TFIISARVNHGHPSEALDLFKD------KQWRYT---SMNP  147 (373)
Q Consensus        91 ~~~~g~~~~A~~~~~~m~~-------~d~~~~-------~~li~~~~~~g~~~~A~~l~~~------m~~~g~---~p~~  147 (373)
                      |....-+|.|.+++..-..       +.-..|       .+-...+...|+.++|.++.-+      +.+-+.   ..+.
T Consensus       668 yTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~WAr~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~er  747 (1081)
T KOG1538|consen  668 YTDLRMFDYAQEFLGSGDPKEKKMLIRKRADWARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAER  747 (1081)
T ss_pred             HHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHhhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhh
Confidence            4444555555555543220       000111       1222334445555555544311      111111   2244


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCC-CCCCH----------
Q 047393          148 TTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVP-GKLCP----------  216 (373)
Q Consensus       148 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~p~~----------  216 (373)
                      .+...+...+-+...+..|-++|..| .+         ..++++.....+++++|+.+-++ .+ ..||+          
T Consensus       748 e~l~~~a~ylk~l~~~gLAaeIF~k~-gD---------~ksiVqlHve~~~W~eAFalAe~-hPe~~~dVy~pyaqwLAE  816 (1081)
T KOG1538|consen  748 EPLLLCATYLKKLDSPGLAAEIFLKM-GD---------LKSLVQLHVETQRWDEAFALAEK-HPEFKDDVYMPYAQWLAE  816 (1081)
T ss_pred             hHHHHHHHHHhhccccchHHHHHHHh-cc---------HHHHhhheeecccchHhHhhhhh-CccccccccchHHHHhhh
Confidence            56666666667778888888899887 22         23577888889999999999998 54 44554          


Q ss_pred             -HHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          217 -LIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       217 -~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                       .-|.-.-++|.+.|+-.+|.++++++..
T Consensus       817 ~DrFeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  817 NDRFEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             hhhHHHHHHHHHHhcchHHHHHHHHHhhh
Confidence             2344556788899999999999998875

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.73  E-value=0.035  Score=47.67  Aligned_cols=58  Identities=19%  Similarity=0.131  Sum_probs=28.7

Q ss_pred             HHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccC
Q 047393           50 CDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKST  107 (373)
Q Consensus        50 ~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  107 (373)
                      +.++..+.-.+.+.-...++...++..-+.++..-..|...-.+.|+.+.|...|++.
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~v  238 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDV  238 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            3344444444444445555555554444444555555555555555555555555533

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.66  E-value=0.13  Score=41.93  Aligned_cols=128  Identities=10%  Similarity=0.010  Sum_probs=80.1

Q ss_pred             CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHH
Q 047393          110 KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIM  189 (373)
Q Consensus       110 ~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~l  189 (373)
                      |++..--.|..+..+.|+..+|...|++....-..-|......+.++....+++..|...++.+-+...-.-++.+--.+
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll~  166 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLF  166 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHHH
Confidence            34444556677777778888888877777665555567777777777777778877877777764431100122333455


Q ss_pred             HHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 047393          190 VEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKY  237 (373)
Q Consensus       190 i~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  237 (373)
                      ...|...|+.++|+.-|+-++...|++..---...-+.+.|+..+|..
T Consensus       167 aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         167 ARTLAAQGKYADAESAFEVAISYYPGPQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             HHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHHHHHHHHhcchhHHHH
Confidence            667777777777777777766666665433333344455665555543

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.64  E-value=0.35  Score=44.54  Aligned_cols=162  Identities=17%  Similarity=0.030  Sum_probs=106.3

Q ss_pred             HHHHHHhHhcCCHHHHHHHHccCCCC---C----hhHHHHHHHHHHh---CCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 047393           85 NCLININSRCGKIDDADLAFKSTPEK---N----SLSWTFIISARVN---HGHPSEALDLFKDKQWRYTSMNPTTFRSAL  154 (373)
Q Consensus        85 ~~li~~~~~~g~~~~A~~~~~~m~~~---d----~~~~~~li~~~~~---~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll  154 (373)
                      ..++-.|....+++...++.+.+...   +    ...-.-..-++-+   .|+.++|++++..+....-.++..||..+-
T Consensus       145 ~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~G  224 (374)
T PF13281_consen  145 INLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLG  224 (374)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHH
Confidence            34555688999999999999998854   1    1112223445556   899999999999977666678888888777


Q ss_pred             HHHHc---------cCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHH----HHHHHH---HhhC------CC
Q 047393          155 KAYAL---------MGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFE----EVLEFI---KGIV------PG  212 (373)
Q Consensus       155 ~~~~~---------~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~----~A~~~~---~~~~------~~  212 (373)
                      +.|-.         ...+++|...|.+.   +.+.||..+--.+...+.-.|...    +..++-   ...+      ..
T Consensus       225 RIyKD~~~~s~~~d~~~ldkAi~~Y~kg---Fe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~  301 (374)
T PF13281_consen  225 RIYKDLFLESNFTDRESLDKAIEWYRKG---FEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEK  301 (374)
T ss_pred             HHHHHHHHHcCccchHHHHHHHHHHHHH---HcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccc
Confidence            66532         22467788777744   345565543333333344444322    222222   1101      12


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          213 KLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       213 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ..+--.+.+++.++.-.|+.++|.+..+.|....|..
T Consensus       302 ~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~  338 (374)
T PF13281_consen  302 MQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPA  338 (374)
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcc
Confidence            2355677888999999999999999999999977654

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

Probab=96.58  E-value=0.38  Score=47.49  Aligned_cols=199  Identities=10%  Similarity=-0.006  Sum_probs=109.1

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCC-chhHHHHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLIS-HPAVGNCL   87 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~l   87 (373)
                      -|...|..+--++...|+++.+.+.|++.... ..-....|..+-..+...|.-..|..+++.-....-.| +...+-..
T Consensus       321 nd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~-~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lma  399 (799)
T KOG4162|consen  321 NDAAIFDHLTFALSRCGQFEVLAEQFEQALPF-SFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMA  399 (799)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhHh-hhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHHH
Confidence            46666777777777777777777777776542 22244556666666666666666666666543222112 23333222


Q ss_pred             HHHhH-hcCCHHHHHHHHccCC--------CCChhHHHHHHHHHHhC-----------CChHHHHHHHHHHHHcC-CCCC
Q 047393           88 ININS-RCGKIDDADLAFKSTP--------EKNSLSWTFIISARVNH-----------GHPSEALDLFKDKQWRY-TSMN  146 (373)
Q Consensus        88 i~~~~-~~g~~~~A~~~~~~m~--------~~d~~~~~~li~~~~~~-----------g~~~~A~~l~~~m~~~g-~~p~  146 (373)
                      -..|. +.+..++++..-.+..        ......|-.+.-+|...           ....++++.+++..+.+ -.|+
T Consensus       400 sklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~dp~  479 (799)
T KOG4162|consen  400 SKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTDPL  479 (799)
T ss_pred             HHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCCch
Confidence            22232 2244444433322221        11344444444444321           11345666666665543 3455


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCC
Q 047393          147 PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVP  211 (373)
Q Consensus       147 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  211 (373)
                      ...|.++-.  +..++++.|.+..++..+- +-.-+...|.-|.-.+...+++.+|+.+.+.++.
T Consensus       480 ~if~lalq~--A~~R~l~sAl~~~~eaL~l-~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~  541 (799)
T KOG4162|consen  480 VIFYLALQY--AEQRQLTSALDYAREALAL-NRGDSAKAWHLLALVLSAQKRLKEALDVVDAALE  541 (799)
T ss_pred             HHHHHHHHH--HHHHhHHHHHHHHHHHHHh-cCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            555544443  3556777777777777543 3345666777777777777777777777776654

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=96.57  E-value=0.022  Score=45.30  Aligned_cols=72  Identities=26%  Similarity=0.303  Sum_probs=45.0

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhH----HHcCCCCCHhHH
Q 047393          114 SWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSME----EVYHIEPSEEHY  186 (373)
Q Consensus       114 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~----~~~g~~p~~~~~  186 (373)
                      +...++..+...|++++|..+.+.+.... +.|...|..+|.+|...|+...|.++|+.+.    ++.|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            34456666677777888877777777663 4567777788888888888888877777653    345777776543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=96.53  E-value=0.76  Score=43.58  Aligned_cols=81  Identities=9%  Similarity=-0.116  Sum_probs=57.5

Q ss_pred             CCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCH-HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHH
Q 047393            8 SDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDS-YSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNC   86 (373)
Q Consensus         8 ~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~   86 (373)
                      .+|-+.|+.=..+|+..|++++|++=-.+-.+  +.|+- -.|+-.-.++.-.|++++|..-|.+=++.. +.|...++.
T Consensus        33 p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~~eA~~ay~~GL~~d-~~n~~L~~g  109 (539)
T KOG0548|consen   33 PTNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDYEEAILAYSEGLEKD-PSNKQLKTG  109 (539)
T ss_pred             CCccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccHHHHHHHHHHHhhcC-CchHHHHHh
Confidence            45778888888899999999988875444443  66764 368888888888889999988887755543 334455555


Q ss_pred             HHHHh
Q 047393           87 LININ   91 (373)
Q Consensus        87 li~~~   91 (373)
                      |..++
T Consensus       110 l~~a~  114 (539)
T KOG0548|consen  110 LAQAY  114 (539)
T ss_pred             HHHhh
Confidence            55554

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=96.52  E-value=0.0075  Score=40.97  Aligned_cols=62  Identities=19%  Similarity=0.173  Sum_probs=37.1

Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC-CHHHHHHHHHHhH
Q 047393          112 SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMG-LVGEAYRLFLSME  174 (373)
Q Consensus       112 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g-~~~~a~~~~~~m~  174 (373)
                      +.+|..+...+...|++++|+..|++..+.. +-+...|..+-.++.+.| ++++|.+.++...
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al   65 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL   65 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence            4556666666666666666666666666553 224455556666666666 5666666666554

...

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=96.52  E-value=0.016  Score=38.74  Aligned_cols=55  Identities=20%  Similarity=0.161  Sum_probs=26.9

Q ss_pred             HHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHH
Q 047393          120 SARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEE  175 (373)
Q Consensus       120 ~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  175 (373)
                      ..+.+.|++++|.+.|++..+.. +-+...+..+-.++...|++++|..+|+++.+
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34445555555555555555443 11334444445555555555555555555543

>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=96.50  E-value=0.041  Score=42.44  Aligned_cols=80  Identities=9%  Similarity=-0.052  Sum_probs=45.8

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhc---------------CCCCCHHHHHHHHHHHcCCCchHHHHHHHHHH-H
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLC---------------CGFIDSYSICDILNSCLNPILLNVGTQAQAYM-T   73 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~---------------g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m-~   73 (373)
                      |..++.++|-++++.|+.+....+++..-.-               .+.|+..+..+++.+++..+++..|.++.+.. .
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~   80 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR   80 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            4567888999999999998888887654211               12344444555555555555555555555444 2


Q ss_pred             HcCCCCchhHHHHHHH
Q 047393           74 KRGLISHPAVGNCLIN   89 (373)
Q Consensus        74 ~~g~~~~~~~~~~li~   89 (373)
                      ..+++.+..+|..|+.
T Consensus        81 ~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   81 KYPIPIPKEFWRRLLE   96 (126)
T ss_pred             HcCCCCCHHHHHHHHH
Confidence            2344444444444443

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

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=96.47  E-value=0.22  Score=49.61  Aligned_cols=160  Identities=9%  Similarity=0.028  Sum_probs=103.4

Q ss_pred             HHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHH
Q 047393           22 IKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDAD  101 (373)
Q Consensus        22 ~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~  101 (373)
                      ...|.+++|+.+|++-++.         -.|=+.|...|.+++|.++-+.=-+..+   ..||..-..-+-..++.+.|+
T Consensus       811 ieLgMlEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~Al  878 (1416)
T KOG3617|consen  811 IELGMLEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAAL  878 (1416)
T ss_pred             HHHhhHHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHH
Confidence            4678888999998888763         2233456677899999887665322221   234444444455567788888


Q ss_pred             HHHccCCCC-----------------------ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 047393          102 LAFKSTPEK-----------------------NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYA  158 (373)
Q Consensus       102 ~~~~~m~~~-----------------------d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~  158 (373)
                      +.|++-..+                       |...|.=....+-..|+.+.|+.+|...+         -|-++++..|
T Consensus       879 eyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~---------D~fs~VrI~C  949 (1416)
T KOG3617|consen  879 EYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAK---------DYFSMVRIKC  949 (1416)
T ss_pred             HHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhh---------hhhhheeeEe
Confidence            887754322                       33334434444455677777777766543         3556666677


Q ss_pred             ccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhh
Q 047393          159 LMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGI  209 (373)
Q Consensus       159 ~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  209 (373)
                      -.|+.++|-++-++-       -|....-.|...|-..|++.+|..+|.++
T Consensus       950 ~qGk~~kAa~iA~es-------gd~AAcYhlaR~YEn~g~v~~Av~FfTrA  993 (1416)
T KOG3617|consen  950 IQGKTDKAARIAEES-------GDKAACYHLARMYENDGDVVKAVKFFTRA  993 (1416)
T ss_pred             eccCchHHHHHHHhc-------ccHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            788888887776543       35566667788888888888888888764

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

Probab=96.42  E-value=0.032  Score=48.39  Aligned_cols=100  Identities=15%  Similarity=0.156  Sum_probs=78.5

Q ss_pred             HHHHHccCC--CCChhHHHHHHHHHHhC-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC-----------
Q 047393          100 ADLAFKSTP--EKNSLSWTFIISARVNH-----GHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMG-----------  161 (373)
Q Consensus       100 A~~~~~~m~--~~d~~~~~~li~~~~~~-----g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g-----------  161 (373)
                      .++.|....  ++|..+|-+.+..|...     +..+-...-++.|.+-|+.-|..+|+.||+.+=+..           
T Consensus        53 ~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F  132 (406)
T KOG3941|consen   53 VEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVF  132 (406)
T ss_pred             hhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHH
Confidence            355666665  67888888888888654     556666777888999999999999999998865432           


Q ss_pred             -----CHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHH
Q 047393          162 -----LVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFE  200 (373)
Q Consensus       162 -----~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~  200 (373)
                           +-+-+.+++++| +.+|+.||..+-..|+.++++.|-.-
T Consensus       133 ~HYP~QQ~C~I~vLeqM-E~hGVmPdkE~e~~lvn~FGr~~~p~  175 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQM-EWHGVMPDKEIEDILVNAFGRWNFPT  175 (406)
T ss_pred             hhCchhhhHHHHHHHHH-HHcCCCCchHHHHHHHHHhccccccH
Confidence                 334578999999 66799999999999999999987643

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

Probab=96.39  E-value=0.69  Score=41.56  Aligned_cols=192  Identities=13%  Similarity=-0.026  Sum_probs=113.7

Q ss_pred             HHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHH---HHHhHhcCCHHHHHHHHccCCCCChhHHHHH---HHHHHhC
Q 047393           52 ILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCL---ININSRCGKIDDADLAFKSTPEKNSLSWTFI---ISARVNH  125 (373)
Q Consensus        52 ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l---i~~~~~~g~~~~A~~~~~~m~~~d~~~~~~l---i~~~~~~  125 (373)
                      +-+.+...|++..|+.-|...++-    |+..|.++   ...|.-.|+-..|+.=|++..+-.+..+.+-   ...+.+.
T Consensus        44 lGk~lla~~Q~sDALt~yHaAve~----dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vllK~  119 (504)
T KOG0624|consen   44 LGKELLARGQLSDALTHYHAAVEG----DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVLLKQ  119 (504)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHcC----CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhhhhc
Confidence            344444445555555555544432    22222222   2334444444444444444332111111111   1234455


Q ss_pred             CChHHHHHHHHHHHHcCCCC------------CH--HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHH
Q 047393          126 GHPSEALDLFKDKQWRYTSM------------NP--TTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE  191 (373)
Q Consensus       126 g~~~~A~~l~~~m~~~g~~p------------~~--~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  191 (373)
                      |.+++|..=|+..++....-            -.  ......+..+...|+...|+.....+.+.  .+.|...|..=..
T Consensus       120 Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi--~~Wda~l~~~Rak  197 (504)
T KOG0624|consen  120 GELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEI--QPWDASLRQARAK  197 (504)
T ss_pred             ccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhc--CcchhHHHHHHHH
Confidence            66666666666555442110            00  11122334456689999999999988764  2558888888889


Q ss_pred             HHHhcCCHHHHHHHHHhhCCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          192 ALGRAGMFEEVLEFIKGIVPGK-LCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       192 ~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +|...|.+..|..=+..+-+.. -+..+..-+-..+...|+.+.+....++-++++|++
T Consensus       198 c~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpdH  256 (504)
T KOG0624|consen  198 CYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKLDPDH  256 (504)
T ss_pred             HHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcch
Confidence            9999999999988777643433 355677777788889999999999999999999987

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.39  E-value=0.35  Score=42.12  Aligned_cols=145  Identities=10%  Similarity=0.028  Sum_probs=79.9

Q ss_pred             HHHHhHhcCCHHHHHHHHccCCC--CC-hhHH---HHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc-
Q 047393           87 LININSRCGKIDDADLAFKSTPE--KN-SLSW---TFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYAL-  159 (373)
Q Consensus        87 li~~~~~~g~~~~A~~~~~~m~~--~d-~~~~---~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~-  159 (373)
                      ....+.+.|++++|.+.|+++..  |+ ...-   -.+..++.+.+++++|...+++..+....-...-|...+.+.+. 
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~~  117 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTNM  117 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhhh
Confidence            34445668899999999988864  32 2222   34566778899999999999998876322222333333333321 


Q ss_pred             -c---------------CC---HHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHH
Q 047393          160 -M---------------GL---VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWR  220 (373)
Q Consensus       160 -~---------------g~---~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  220 (373)
                       .               .+   ...|...|+.+.+.+   |+.             .-..+|..-+.. ++..--..- -
T Consensus       118 ~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~y---P~S-------------~ya~~A~~rl~~-l~~~la~~e-~  179 (243)
T PRK10866        118 ALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGY---PNS-------------QYTTDATKRLVF-LKDRLAKYE-L  179 (243)
T ss_pred             hcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHC---cCC-------------hhHHHHHHHHHH-HHHHHHHHH-H
Confidence             1               11   234556666665553   332             222333332222 110000011 1


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          221 TLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       221 ~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .+.+-|.+.|.+.-|..-++.+++.-|+.
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t  208 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDYPDT  208 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHCCCC
Confidence            33455777788888888888888766666

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.35  E-value=0.052  Score=42.47  Aligned_cols=93  Identities=14%  Similarity=0.138  Sum_probs=47.4

Q ss_pred             ccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH--HHHHHHHHHHHHcC-----
Q 047393          159 LMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP--LIWRTLLLSSRVHG-----  230 (373)
Q Consensus       159 ~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~--~~~~~li~~~~~~g-----  230 (373)
                      +.|++++|.+.|+.+..++...| ....--.++.+|.+.|++++|...+++.++..|+.  +-|...+.|+..-.     
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~~~~~~  101 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYEQDEGS  101 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHHHhhhH
Confidence            45555555555555544433322 22334445555555556555555555544433321  22222233322111     


Q ss_pred             ------------CHHHHHHHHHHHhccCCCC-cc
Q 047393          231 ------------DMKLAKYALDKLLELDPGM-YV  251 (373)
Q Consensus       231 ------------~~~~A~~~~~~m~~~~P~~-y~  251 (373)
                                  ....|..-|+.+++.-|++ |.
T Consensus       102 ~~~~~~~drD~~~~~~A~~~f~~lv~~yP~S~ya  135 (142)
T PF13512_consen  102 LQSFFRSDRDPTPARQAFRDFEQLVRRYPNSEYA  135 (142)
T ss_pred             HhhhcccccCcHHHHHHHHHHHHHHHHCcCChhH
Confidence                        2557777788888877877 54

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.31  E-value=0.19  Score=45.57  Aligned_cols=125  Identities=16%  Similarity=0.065  Sum_probs=98.1

Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 047393           83 VGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGL  162 (373)
Q Consensus        83 ~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~  162 (373)
                      +.+..|.-+...|+...|.++-.+..-||..-|-..|.+++..++|++-.++-..      +-+++-|-.++.+|.+.|+
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~  252 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGN  252 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCC
Confidence            4445566677889999999999999999999999999999999999987665432      2244889999999999999


Q ss_pred             HHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q 047393          163 VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRV  228 (373)
Q Consensus       163 ~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~  228 (373)
                      ..+|..+...+      +     +..-+..|.++|++.+|.+.--+    ..|......+..-+-.
T Consensus       253 ~~eA~~yI~k~------~-----~~~rv~~y~~~~~~~~A~~~A~~----~kd~~~L~~i~~~~~~  303 (319)
T PF04840_consen  253 KKEASKYIPKI------P-----DEERVEMYLKCGDYKEAAQEAFK----EKDIDLLKQILKRCPG  303 (319)
T ss_pred             HHHHHHHHHhC------C-----hHHHHHHHHHCCCHHHHHHHHHH----cCCHHHHHHHHHHCCC
Confidence            99999999874      1     23467889999999999998766    3366655555554433

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

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

Probab=96.17  E-value=0.082  Score=48.91  Aligned_cols=135  Identities=14%  Similarity=0.075  Sum_probs=109.6

Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHH
Q 047393          112 SLSWTFIISARVNHGHPSEALDLFKDKQWRY-TSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMV  190 (373)
Q Consensus       112 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li  190 (373)
                      ..+|.+.|++-.+..-.+.|..+|-+..+.| +.++...++++|..++ .|+...|..+|+.-...+  +-+....+-.+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f--~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKF--PDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhC--CCchHHHHHHH
Confidence            4568888998888888999999999999998 7889999999999887 578889999998765542  33344445778


Q ss_pred             HHHHhcCCHHHHHHHHHhhCC-CCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          191 EALGRAGMFEEVLEFIKGIVP-GKLC--PLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       191 ~~~~~~g~~~~A~~~~~~~~~-~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .-+.+.++-+.|..+|+..++ +..+  -..|..+|.-=..-|+...+..+-+++.++-|..
T Consensus       474 ~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQe  535 (660)
T COG5107         474 LFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQE  535 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcH
Confidence            888899999999999997554 2223  4689999999899999999999888888877766

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.16  E-value=0.62  Score=38.74  Aligned_cols=222  Identities=18%  Similarity=0.041  Sum_probs=159.3

Q ss_pred             cCCHhHHHHHHHHHHhcCCC-CCHHHHHHHHHHHcCCCchHHHHHHHHHHHHc-CCCCchhHHHHHHHHhHhcCCHHHHH
Q 047393           24 AKDYEMVHELLERIQLCCGF-IDSYSICDILNSCLNPILLNVGTQAQAYMTKR-GLISHPAVGNCLININSRCGKIDDAD  101 (373)
Q Consensus        24 ~g~~~~A~~l~~~m~~~g~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~g~~~~A~  101 (373)
                      .+.+..+...+......... .....+......+...+.+..+...+...... ........+......+...++++.+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            45666666666666654322 13566777778888889999988888887653 33455667777778888888899999


Q ss_pred             HHHccCCC--CC-hhHHHHHHH-HHHhCCChHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHccCCHHHHHHHHHHhHH
Q 047393          102 LAFKSTPE--KN-SLSWTFIIS-ARVNHGHPSEALDLFKDKQWRYT--SMNPTTFRSALKAYALMGLVGEAYRLFLSMEE  175 (373)
Q Consensus       102 ~~~~~m~~--~d-~~~~~~li~-~~~~~g~~~~A~~l~~~m~~~g~--~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  175 (373)
                      +.+.....  ++ ......... .+...|+++.|...+.+......  ......+......+...++.+.+...+.....
T Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  195 (291)
T COG0457         116 ELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALK  195 (291)
T ss_pred             HHHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHh
Confidence            99887764  22 223333333 78899999999999999855221  12344455555557788999999999999865


Q ss_pred             HcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCC
Q 047393          176 VYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC-PLIWRTLLLSSRVHGDMKLAKYALDKLLELDP  247 (373)
Q Consensus       176 ~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P  247 (373)
                      .  ... ....+..+-..+...+..+.|...+.......|+ ...+..+...+...+..+.+...+.+.....|
T Consensus       196 ~--~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  267 (291)
T COG0457         196 L--NPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDP  267 (291)
T ss_pred             h--CcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCc
Confidence            4  233 3677888888999999999999999997776665 45555566666677789999999999888665

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.14  E-value=0.59  Score=38.31  Aligned_cols=125  Identities=14%  Similarity=0.051  Sum_probs=93.2

Q ss_pred             CCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC----CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcC---CCCCHHH
Q 047393           77 LISHPAVGNCLININSRCGKIDDADLAFKSTPE----KNSLSWTFIISARVNHGHPSEALDLFKDKQWRY---TSMNPTT  149 (373)
Q Consensus        77 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g---~~p~~~t  149 (373)
                      ..|++..--.|..++.+.|+..+|...|.+-..    .|....-.+.++....+++..|...++++.+.+   -.||  +
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~  162 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--G  162 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--c
Confidence            357777777788888899999999998887653    477777788888888899999999888887653   2333  4


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHH
Q 047393          150 FRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFI  206 (373)
Q Consensus       150 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  206 (373)
                      ...+.+.+.-.|....|+.-|+....-   -|+.....-.-..+.+.|+.++|..-+
T Consensus       163 ~Ll~aR~laa~g~~a~Aesafe~a~~~---ypg~~ar~~Y~e~La~qgr~~ea~aq~  216 (251)
T COG4700         163 HLLFARTLAAQGKYADAESAFEVAISY---YPGPQARIYYAEMLAKQGRLREANAQY  216 (251)
T ss_pred             hHHHHHHHHhcCCchhHHHHHHHHHHh---CCCHHHHHHHHHHHHHhcchhHHHHHH
Confidence            445667777889999899999888543   577666666667778888777665433

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.11  E-value=0.024  Score=39.53  Aligned_cols=60  Identities=17%  Similarity=0.137  Sum_probs=31.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhhCC----CC---CC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          185 HYSIMVEALGRAGMFEEVLEFIKGIVP----GK---LC-PLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       185 ~~~~li~~~~~~g~~~~A~~~~~~~~~----~~---p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      +++.+...|.+.|++++|+..|++++.    ..   |+ ..+++.+...+...|++++|.+.+++..+
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            444555555555555555555554432    11   11 24555666666666666666666665543

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.07  E-value=0.24  Score=43.57  Aligned_cols=102  Identities=18%  Similarity=0.132  Sum_probs=81.3

Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhc---CCHHHHHHHHHhhCCCCCC-HHHH
Q 047393          144 SMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRA---GMFEEVLEFIKGIVPGKLC-PLIW  219 (373)
Q Consensus       144 ~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~---g~~~~A~~~~~~~~~~~p~-~~~~  219 (373)
                      +-|...|-.|-.+|...|+.+.|..-|....+-.  .++...+..+..++...   ....++.++|++++..+|+ +.+-
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~--g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA--GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHH
Confidence            5578899999999999999999999999886543  34556666666666543   3466899999998888884 5566


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhccCC
Q 047393          220 RTLLLSSRVHGDMKLAKYALDKLLELDP  247 (373)
Q Consensus       220 ~~li~~~~~~g~~~~A~~~~~~m~~~~P  247 (373)
                      .-|..++...|++.+|...|+.|.+..|
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp  258 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLP  258 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCC
Confidence            6666789999999999999999999655

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.96  E-value=1.3  Score=40.63  Aligned_cols=212  Identities=13%  Similarity=0.068  Sum_probs=108.7

Q ss_pred             HcCCHhHHHHHHHHHHhcCCCCCHH--HHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHH
Q 047393           23 KAKDYEMVHELLERIQLCCGFIDSY--SICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDA  100 (373)
Q Consensus        23 ~~g~~~~A~~l~~~m~~~g~~p~~~--~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  100 (373)
                      -.|+++.|.+-|+-|...   |...  -...|.-.-.+.|+-+.|.+.-+..-... +.=...+.+.+...|..|+++.|
T Consensus       132 ~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~A  207 (531)
T COG3898         132 LEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGA  207 (531)
T ss_pred             hcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHH
Confidence            357777888778777752   2221  12233333456677777766666654332 22356788899999999999999


Q ss_pred             HHHHccCC-----CCChhH--HHHH-------------------------------------HHHHHhCCChHHHHHHHH
Q 047393          101 DLAFKSTP-----EKNSLS--WTFI-------------------------------------ISARVNHGHPSEALDLFK  136 (373)
Q Consensus       101 ~~~~~~m~-----~~d~~~--~~~l-------------------------------------i~~~~~~g~~~~A~~l~~  136 (373)
                      +++.+.-.     ++|+.-  -..|                                     ..++.+.|+..++-.+++
T Consensus       208 lkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~ilE  287 (531)
T COG3898         208 LKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKLAPDLVPAAVVAARALFRDGNLRKGSKILE  287 (531)
T ss_pred             HHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCccchHHHHHHHHHHhccchhhhhhHHH
Confidence            99987433     222111  1111                                     223444555555555555


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC
Q 047393          137 DKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS-EEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC  215 (373)
Q Consensus       137 ~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  215 (373)
                      .+-+..  |......  +..+.+.|+.  +..-++...+--.++|| ...--.+..+-...|++..|..--+.+....|.
T Consensus       288 ~aWK~e--PHP~ia~--lY~~ar~gdt--a~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~pr  361 (531)
T COG3898         288 TAWKAE--PHPDIAL--LYVRARSGDT--ALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAPR  361 (531)
T ss_pred             HHHhcC--CChHHHH--HHHHhcCCCc--HHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCch
Confidence            554442  2222111  1112233332  22222222111122332 233344445555556665555544443345666


Q ss_pred             HHHHHHHHHHH-HHcCCHHHHHHHHHHHhc
Q 047393          216 PLIWRTLLLSS-RVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       216 ~~~~~~li~~~-~~~g~~~~A~~~~~~m~~  244 (373)
                      ...|-.|.+.- ...|+-.++...+.+...
T Consensus       362 es~~lLlAdIeeAetGDqg~vR~wlAqav~  391 (531)
T COG3898         362 ESAYLLLADIEEAETGDQGKVRQWLAQAVK  391 (531)
T ss_pred             hhHHHHHHHHHhhccCchHHHHHHHHHHhc
Confidence            66666666554 344777777777666665

>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=95.95  E-value=0.055  Score=42.97  Aligned_cols=71  Identities=17%  Similarity=0.102  Sum_probs=44.5

Q ss_pred             HHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHH-----HcCCCCchhHH
Q 047393           13 PWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMT-----KRGLISHPAVG   84 (373)
Q Consensus        13 ~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~-----~~g~~~~~~~~   84 (373)
                      +...++..+...|++++|.++.+.+.... +-|...|..+|.++...|+..+|.+.|+.+.     +.|+.|+..+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            34455566667888888888888877642 2366678888888888888888888887763     34777776553

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=95.91  E-value=0.041  Score=37.67  Aligned_cols=53  Identities=13%  Similarity=0.078  Sum_probs=24.4

Q ss_pred             HHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhH
Q 047393          121 ARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSME  174 (373)
Q Consensus       121 ~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~  174 (373)
                      .|.+.+++++|.++++.+...+ +.+...+...-..+.+.|++++|...++...
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l   56 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERAL   56 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHH
Confidence            3444455555555555544442 2233344444444444555555555555443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=95.87  E-value=0.61  Score=45.73  Aligned_cols=26  Identities=19%  Similarity=0.341  Sum_probs=12.9

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHHh
Q 047393          183 EEHYSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       183 ~~~~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                      ....-.+.+++.+.|.-++|.+-|-+
T Consensus       852 s~llp~~a~mf~svGMC~qAV~a~Lr  877 (1189)
T KOG2041|consen  852 SELLPVMADMFTSVGMCDQAVEAYLR  877 (1189)
T ss_pred             cchHHHHHHHHHhhchHHHHHHHHHh
Confidence            33444445555555555555554444

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.83  E-value=0.5  Score=37.12  Aligned_cols=85  Identities=14%  Similarity=0.106  Sum_probs=50.0

Q ss_pred             HHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCCh
Q 047393           49 ICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHP  128 (373)
Q Consensus        49 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~  128 (373)
                      ...++..+.+.+.......+++.+.+.+ ..+...+|.++..|++.+ .++..+.++.  ..+.......+..|.+.+.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~--~~~~yd~~~~~~~c~~~~l~   85 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN--KSNHYDIEKVGKLCEKAKLY   85 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh--ccccCCHHHHHHHHHHcCcH
Confidence            3456677777778888888888887776 367778888888887753 2333344432  12223333344455555555


Q ss_pred             HHHHHHHHH
Q 047393          129 SEALDLFKD  137 (373)
Q Consensus       129 ~~A~~l~~~  137 (373)
                      +++.-++.+
T Consensus        86 ~~~~~l~~k   94 (140)
T smart00299       86 EEAVELYKK   94 (140)
T ss_pred             HHHHHHHHh
Confidence            555444443

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.72  E-value=0.048  Score=50.90  Aligned_cols=96  Identities=11%  Similarity=-0.010  Sum_probs=68.5

Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCH----hHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHH
Q 047393          144 SMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSE----EHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIW  219 (373)
Q Consensus       144 ~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  219 (373)
                      +.+...++.+-.+|.+.|++++|...|++..+.   .|+.    .+|..+..+|...|+.++|.+.++++++..+  ..|
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL---~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALelsn--~~f  146 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL---NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDYN--LKF  146 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcc--hhH
Confidence            345678999999999999999999999987654   6764    3588999999999999999999999887421  122


Q ss_pred             HHHHH--HHHHcCCHHHHHHHHHHHhc
Q 047393          220 RTLLL--SSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       220 ~~li~--~~~~~g~~~~A~~~~~~m~~  244 (373)
                      ..+..  .+....+.++..++++...+
T Consensus       147 ~~i~~DpdL~plR~~pef~eLlee~rk  173 (453)
T PLN03098        147 STILNDPDLAPFRASPEFKELQEEARK  173 (453)
T ss_pred             HHHHhCcchhhhcccHHHHHHHHHHHH
Confidence            22211  11223334466677776665

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.51  E-value=0.24  Score=46.35  Aligned_cols=65  Identities=3%  Similarity=-0.257  Sum_probs=57.1

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCH----HHHHHHHHHHcCCCchHHHHHHHHHHHHc
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDS----YSICDILNSCLNPILLNVGTQAQAYMTKR   75 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   75 (373)
                      .+...|+.+-.+|.+.|++++|+..|++..+  +.|+.    .+|..+..+|...|+.++|...+++.++.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALe--L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALE--LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3567899999999999999999999999887  45764    35899999999999999999999998875

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.50  E-value=0.92  Score=35.58  Aligned_cols=45  Identities=9%  Similarity=-0.096  Sum_probs=23.9

Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCC
Q 047393           14 WNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNP   59 (373)
Q Consensus        14 ~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~   59 (373)
                      -..+|..+...+........++.+...+ ..+....+.++..+++.
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~   54 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHH
Confidence            3445555555555666666655555544 23444555555555543

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.45  E-value=0.053  Score=37.75  Aligned_cols=62  Identities=8%  Similarity=-0.073  Sum_probs=42.4

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcC--CC---CC-HHHHHHHHHHHcCCCchHHHHHHHHHHH
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCC--GF---ID-SYSICDILNSCLNPILLNVGTQAQAYMT   73 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g--~~---p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~   73 (373)
                      .+|+.+-..|...|++++|++.|++..+..  ..   |+ ..++..+..++...|++++|.+.+++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            567888888888899999988888876421  11   22 3456666677777777777777776654

...

>PRK15331 chaperone protein SicA; Provisional

Probab=95.45  E-value=1  Score=36.24  Aligned_cols=86  Identities=8%  Similarity=-0.126  Sum_probs=61.4

Q ss_pred             HHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCC-CCHHHHHHHHHHHHHcCCHHHH
Q 047393          157 YALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGK-LCPLIWRTLLLSSRVHGDMKLA  235 (373)
Q Consensus       157 ~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~li~~~~~~g~~~~A  235 (373)
                      +-..|++++|..+|+-+..- + .-+..-+..|..++-..+++++|...|..+.... -|+..+--+..++...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~~-d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCIY-D-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHHh-C-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHHH
Confidence            34678999999999887542 1 2255556677777777889999999887643322 2444455567788888999999


Q ss_pred             HHHHHHHhc
Q 047393          236 KYALDKLLE  244 (373)
Q Consensus       236 ~~~~~~m~~  244 (373)
                      ...|+..++
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            998888776

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

Probab=95.25  E-value=0.54  Score=43.75  Aligned_cols=141  Identities=15%  Similarity=0.084  Sum_probs=74.3

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHccCC-----CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHH-HHHH
Q 047393           81 PAVGNCLININSRCGKIDDADLAFKSTP-----EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTF-RSAL  154 (373)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~A~~~~~~m~-----~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~-~~ll  154 (373)
                      ..+|-..++.-.|..-++.|..+|-+..     .+++..++++|.-++ .|+..-|..+|+-=...  -||...| +-.+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            3455555555555555666666665443     235556666665554 34455566666543222  2343333 3445


Q ss_pred             HHHHccCCHHHHHHHHHHhHHHcCCCCC--HhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Q 047393          155 KAYALMGLVGEAYRLFLSMEEVYHIEPS--EEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSS  226 (373)
Q Consensus       155 ~~~~~~g~~~~a~~~~~~m~~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~  226 (373)
                      ..+...++-+.|..+|+....+  +.-+  ...|..+|+-=..-|++..|..+=+++....|...+-.....-|
T Consensus       474 ~fLi~inde~naraLFetsv~r--~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQen~~evF~Sry  545 (660)
T COG5107         474 LFLIRINDEENARALFETSVER--LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQENLIEVFTSRY  545 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHH--HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcHhHHHHHHHHH
Confidence            5555666666666666644332  1222  35666666666666777666666555333455544444444433

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.13  E-value=0.043  Score=33.54  Aligned_cols=32  Identities=31%  Similarity=0.401  Sum_probs=22.7

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          218 IWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       218 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +|..+..+|...|++++|.++++++++.+|++
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~   34 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALDPDD   34 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCC
Confidence            45666677777777777777777777777665

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=95.02  E-value=0.27  Score=45.03  Aligned_cols=67  Identities=13%  Similarity=0.064  Sum_probs=53.8

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          183 EEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       183 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ..+++.+.-+|.+.+++.+|.+.-++.+..+| |+-..-.=..+|...|+++.|...|+++++++|++
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~N  324 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSN  324 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCc
Confidence            45667777888888999999998888777665 55555566888888899999999999999988876

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=94.72  E-value=0.69  Score=40.78  Aligned_cols=111  Identities=16%  Similarity=0.148  Sum_probs=83.8

Q ss_pred             ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH---ccCCHHHHHHHHHHhHHHcCCCC-CHhHH
Q 047393          111 NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYA---LMGLVGEAYRLFLSMEEVYHIEP-SEEHY  186 (373)
Q Consensus       111 d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~---~~g~~~~a~~~~~~m~~~~g~~p-~~~~~  186 (373)
                      |...|-.|...|...|+++.|..-|....+.- .+|...+..+..++.   ...+-.++..+++++.+.   .| |+..-
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~---D~~~iral  230 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALAL---DPANIRAL  230 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc---CCccHHHH
Confidence            78899999999999999999999999987752 345555554444433   334567899999998654   45 56666


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 047393          187 SIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLS  225 (373)
Q Consensus       187 ~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~  225 (373)
                      .-|-..+...|++.+|...++.|+..-|....+..+|..
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~~ie~  269 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRSLIER  269 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCCCCchHHHHHH
Confidence            677788899999999999999988866666666666643

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=94.66  E-value=1  Score=40.47  Aligned_cols=125  Identities=8%  Similarity=0.043  Sum_probs=62.7

Q ss_pred             hHHHHHHHHHHHHcCCCCchhHHHHHHHHhHh--cC----CHHHHHHHHccCCC-------CChhHHHHHHHHHHhCCC-
Q 047393           62 LNVGTQAQAYMTKRGLISHPAVGNCLININSR--CG----KIDDADLAFKSTPE-------KNSLSWTFIISARVNHGH-  127 (373)
Q Consensus        62 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~--~g----~~~~A~~~~~~m~~-------~d~~~~~~li~~~~~~g~-  127 (373)
                      +++...+++.|.+.|+..+..+|-+.......  ..    ....|.++|+.|++       ++-.++.+|+..  ..++ 
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            34455666666666666665555442222222  11    24456666666653       244555555544  2222 


Q ss_pred             ---hHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHccCC--HHHHHHHHHHhHHHcCCCCCHhHHHHH
Q 047393          128 ---PSEALDLFKDKQWRYTSMNP--TTFRSALKAYALMGL--VGEAYRLFLSMEEVYHIEPSEEHYSIM  189 (373)
Q Consensus       128 ---~~~A~~l~~~m~~~g~~p~~--~t~~~ll~~~~~~g~--~~~a~~~~~~m~~~~g~~p~~~~~~~l  189 (373)
                         .+.+..+|+.+.+.|+..+.  .....++..+.....  +..+..+++.+.+. |+++....|..+
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~-~~kik~~~yp~l  223 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKN-GVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHc-CCccccccccHH
Confidence               24455666666666665432  233333333222222  33566777777444 777766665544

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=94.48  E-value=1  Score=43.90  Aligned_cols=94  Identities=14%  Similarity=0.130  Sum_probs=57.4

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHH---------HHHHHhcCCCCCHHHHHHHHHHHcCCCch--HHHHHHHHHHHHcCC
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHEL---------LERIQLCCGFIDSYSICDILNSCLNPILL--NVGTQAQAYMTKRGL   77 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l---------~~~m~~~g~~p~~~~~~~ll~~~~~~~~~--~~a~~~~~~m~~~g~   77 (373)
                      |..+.+.+=+..|...|.+++|.++         |+.+...  ..+.-.+++.=++|.+..+.  -+...-+++++++|-
T Consensus       554 ~~evp~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~--ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge  631 (1081)
T KOG1538|consen  554 AVEVPQSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAME--ALEALDFETARKAYIRVRDLRYLELISELEERKKRGE  631 (1081)
T ss_pred             cccccccccchhhhhccchhhhhcccccceecchHHHHHHH--HHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCC
Confidence            3445566666778888998888764         2222221  12344455666677666553  344455667788887


Q ss_pred             CCchhHHHHHHHHhHhcCCHHHHHHHHccC
Q 047393           78 ISHPAVGNCLININSRCGKIDDADLAFKST  107 (373)
Q Consensus        78 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  107 (373)
                      .|+....   ...++=.|++.+|-++|.+-
T Consensus       632 ~P~~iLl---A~~~Ay~gKF~EAAklFk~~  658 (1081)
T KOG1538|consen  632 TPNDLLL---ADVFAYQGKFHEAAKLFKRS  658 (1081)
T ss_pred             CchHHHH---HHHHHhhhhHHHHHHHHHHc
Confidence            7775532   33455567888888888654

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.45  E-value=3.9  Score=42.86  Aligned_cols=103  Identities=17%  Similarity=0.040  Sum_probs=58.4

Q ss_pred             HHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCH--hHHHHHHHHHHhcCCH
Q 047393          122 RVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSE--EHYSIMVEALGRAGMF  199 (373)
Q Consensus       122 ~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~--~~~~~li~~~~~~g~~  199 (373)
                      +.....+++|.-.|+..-+         .--.+.+|...|+|.+|..+..++..    .-|.  .+-..|+.-+...++.
T Consensus       949 L~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~----~~de~~~~a~~L~s~L~e~~kh 1015 (1265)
T KOG1920|consen  949 LREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSE----GKDELVILAEELVSRLVEQRKH 1015 (1265)
T ss_pred             HHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcC----CHHHHHHHHHHHHHHHHHcccc
Confidence            3445566666555544311         11245666677777777777766621    1122  2225666777777888


Q ss_pred             HHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 047393          200 EEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLL  243 (373)
Q Consensus       200 ~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  243 (373)
                      -+|-++..+... .|     .-.+..|++...+++|.++.....
T Consensus      1016 ~eAa~il~e~~s-d~-----~~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1016 YEAAKILLEYLS-DP-----EEAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             hhHHHHHHHHhc-CH-----HHHHHHHhhHhHHHHHHHHHHhcc
Confidence            888887777332 22     233445566667888877665544

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.35  E-value=0.12  Score=29.09  Aligned_cols=33  Identities=30%  Similarity=0.306  Sum_probs=27.0

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          217 LIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       217 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ..|..+...+...|++++|.+.+++..+++|++
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            457778888899999999999999999988864

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.34  E-value=0.55  Score=40.87  Aligned_cols=99  Identities=22%  Similarity=0.252  Sum_probs=44.8

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC----CHHHHHHHH
Q 047393          149 TFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL----CPLIWRTLL  223 (373)
Q Consensus       149 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p----~~~~~~~li  223 (373)
                      .|+..+..+ +.|++..|..-|....+.+.-.+ ....+--|...+...|+.++|..+|..+.+..|    -+...-.|.
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            444444332 34445555555555544321000 111222345555555555555555554333222    224444445


Q ss_pred             HHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          224 LSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       224 ~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      .+..+.|+.++|...|+++.+.-|+
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~YP~  247 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKRYPG  247 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHCCC
Confidence            5555555555555555555554443

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=94.21  E-value=2  Score=33.18  Aligned_cols=139  Identities=15%  Similarity=0.178  Sum_probs=72.2

Q ss_pred             HHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHH
Q 047393           22 IKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDAD  101 (373)
Q Consensus        22 ~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~  101 (373)
                      .-.|.+++..++..+....   .+..-+|-++.-....-+.+-..+.++..   |--.|..          .+|++....
T Consensus        13 ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsI---GkiFDis----------~C~NlKrVi   76 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSI---GKIFDIS----------KCGNLKRVI   76 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHH---GGGS-GG----------G-S-THHHH
T ss_pred             HHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHH---hhhcCch----------hhcchHHHH
Confidence            4457777777777776653   23334555444433333333333333333   2222322          223333333


Q ss_pred             HHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCC
Q 047393          102 LAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHI  179 (373)
Q Consensus       102 ~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~  179 (373)
                      ..+-.+. .+....+.-+....+.|+-+.-.+++.++.+. -.|++.....+..||.+.|+..++.+++.+..+. |+
T Consensus        77 ~C~~~~n-~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek-G~  151 (161)
T PF09205_consen   77 ECYAKRN-KLSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEK-GL  151 (161)
T ss_dssp             HHHHHTT----HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT-T-
T ss_pred             HHHHHhc-chHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh-ch
Confidence            3332221 12223455667778888888888888887653 3677888888888999999998888888888665 54

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=94.20  E-value=5  Score=37.71  Aligned_cols=222  Identities=15%  Similarity=0.050  Sum_probs=118.5

Q ss_pred             HHcCCHhHHHHHHHHHHhcCCCCCH------HHHHHHHHHHcCCCchHHHHHHHHHHHHc-CCCCchhHHHHHHHHhHhc
Q 047393           22 IKAKDYEMVHELLERIQLCCGFIDS------YSICDILNSCLNPILLNVGTQAQAYMTKR-GLISHPAVGNCLININSRC   94 (373)
Q Consensus        22 ~~~g~~~~A~~l~~~m~~~g~~p~~------~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-g~~~~~~~~~~li~~~~~~   94 (373)
                      -+.+++.+|.++|.+..+. ...+.      ..-+.+++|+-. .+++.....+....+. |-.+-...+.+|.  ..+.
T Consensus        17 qkq~~~~esEkifskI~~e-~~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~~~s~~l~LF~~L~--~Y~~   92 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDE-KESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQFGKSAYLPLFKALV--AYKQ   92 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHH-hhcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhcCCchHHHHHHHHH--HHHh
Confidence            3667888888888887654 22222      223456666654 3455555555555332 3222222222222  3466


Q ss_pred             CCHHHHHHHHccCCC-------C-----------ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcC----CCCCHHHHHH
Q 047393           95 GKIDDADLAFKSTPE-------K-----------NSLSWTFIISARVNHGHPSEALDLFKDKQWRY----TSMNPTTFRS  152 (373)
Q Consensus        95 g~~~~A~~~~~~m~~-------~-----------d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g----~~p~~~t~~~  152 (373)
                      +++++|.+.|..-.+       +           |..-=+..+.++...|++.++..++++|...=    +.-+..+|+.
T Consensus        93 k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~  172 (549)
T PF07079_consen   93 KEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDR  172 (549)
T ss_pred             hhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHH
Confidence            778887777643221       1           11222455667778888888888887776543    3367777776


Q ss_pred             HHHHHHccCC--------HHHHHHHHH----------------------------HhH---------------------H
Q 047393          153 ALKAYALMGL--------VGEAYRLFL----------------------------SME---------------------E  175 (373)
Q Consensus       153 ll~~~~~~g~--------~~~a~~~~~----------------------------~m~---------------------~  175 (373)
                      ++-.++++=-        .+-+..+|+                            .+.                     +
T Consensus       173 ~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We  252 (549)
T PF07079_consen  173 AVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWE  252 (549)
T ss_pred             HHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHH
Confidence            4444333211        111111111                            110                     1


Q ss_pred             HcCCCCCH-hHHHHHHHHHHhcCCHHHHHHHHHhhCC--C----CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          176 VYHIEPSE-EHYSIMVEALGRAGMFEEVLEFIKGIVP--G----KLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       176 ~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~--~----~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      .+-+.|+- -+...|+..+.+  +.+++..+-+....  +    +.-..++..++....+.++..+|.+.+..+.-++|+
T Consensus       253 ~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ldp~  330 (549)
T PF07079_consen  253 NFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKILDPR  330 (549)
T ss_pred             hhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCc
Confidence            11122321 112223333332  44444444443111  1    113468899999999999999999999999989998


Q ss_pred             C
Q 047393          249 M  249 (373)
Q Consensus       249 ~  249 (373)
                      .
T Consensus       331 ~  331 (549)
T PF07079_consen  331 I  331 (549)
T ss_pred             c
Confidence            7

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.19  E-value=1.2  Score=38.86  Aligned_cols=103  Identities=16%  Similarity=0.179  Sum_probs=81.3

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCH-hHHHHHH
Q 047393          114 SWTFIISARVNHGHPSEALDLFKDKQWRYT--SMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSE-EHYSIMV  190 (373)
Q Consensus       114 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~--~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~-~~~~~li  190 (373)
                      .|+.-+..+ +.|++.+|..-|....+...  .-....+-.|-.++...|+++.|..+|..+.+.++-.|.. ...--|.
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            477777655 56779999999999988731  1123456668889999999999999999998887655543 6777788


Q ss_pred             HHHHhcCCHHHHHHHHHhhCCCCCCHH
Q 047393          191 EALGRAGMFEEVLEFIKGIVPGKLCPL  217 (373)
Q Consensus       191 ~~~~~~g~~~~A~~~~~~~~~~~p~~~  217 (373)
                      ....+.|+.++|..+|+...+..|+..
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~YP~t~  249 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKRYPGTD  249 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHCCCCH
Confidence            889999999999999999666677654

>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=94.13  E-value=2.8  Score=39.96  Aligned_cols=155  Identities=15%  Similarity=0.092  Sum_probs=94.8

Q ss_pred             HHHcCCHhHHHHHHH--HHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHH
Q 047393           21 CIKAKDYEMVHELLE--RIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKID   98 (373)
Q Consensus        21 ~~~~g~~~~A~~l~~--~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~   98 (373)
                      ..-.++++++.++.+  ++.. .+  +..-.+.++.-+-+.|..+.|+++-.+-.            .-.+...++|+++
T Consensus       271 av~~~d~~~v~~~i~~~~ll~-~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~L~  335 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLLP-NI--PKDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGNLD  335 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-HH
T ss_pred             HHHcCChhhhhhhhhhhhhcc-cC--ChhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCCHH
Confidence            445788888777664  1211 12  23446777777888888888877654321            1234456788899


Q ss_pred             HHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcC
Q 047393           99 DADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYH  178 (373)
Q Consensus        99 ~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g  178 (373)
                      .|.++-++..  +...|..|.....+.|+++-|.+.|++...         |..++-.|.-.|+.+.-.++-+....+ |
T Consensus       336 ~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~-~  403 (443)
T PF04053_consen  336 IALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEER-G  403 (443)
T ss_dssp             HHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT-T
T ss_pred             HHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHc-c
Confidence            9988877765  666888898888889999988888876542         445555666678877766666665332 2


Q ss_pred             CCCCHhHHHHHHHHHHhcCCHHHHHHHHHh
Q 047393          179 IEPSEEHYSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       179 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                            -+|....++.-.|+.++..+++.+
T Consensus       404 ------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  404 ------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             -------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             ------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence                  245555556666777777777776

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.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.08  E-value=0.14  Score=28.92  Aligned_cols=32  Identities=28%  Similarity=0.207  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          217 LIWRTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       217 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      .+|..+...+...|++++|...|++.++++|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            46788888888899999999999998888875

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=94.08  E-value=0.22  Score=45.65  Aligned_cols=129  Identities=9%  Similarity=-0.066  Sum_probs=84.6

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHH----HHcCCC-CCHHHHHHHHHHHHccCCHHHHHHHHHHhHH---HcC-CCCCHhHH
Q 047393          116 TFIISARVNHGHPSEALDLFKDK----QWRYTS-MNPTTFRSALKAYALMGLVGEAYRLFLSMEE---VYH-IEPSEEHY  186 (373)
Q Consensus       116 ~~li~~~~~~g~~~~A~~l~~~m----~~~g~~-p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~---~~g-~~p~~~~~  186 (373)
                      ..|-+.|.-.|+++.|+..-+.-    ++-|-+ .....+..+-+++.-.|+++.|.+.|+....   +.| -......+
T Consensus       199 GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQsc  278 (639)
T KOG1130|consen  199 GNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSC  278 (639)
T ss_pred             cccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHH
Confidence            33444444456677776543321    222321 2345677777888888888888888876421   111 12344566


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhCCCC-------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          187 SIMVEALGRAGMFEEVLEFIKGIVPGK-------LCPLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       187 ~~li~~~~~~g~~~~A~~~~~~~~~~~-------p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      -+|...|--...+++|..++.+=+.+.       -....+.+|..++...|..++|..+.+.-.+
T Consensus       279 YSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  279 YSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            677777877788888888888855521       2347899999999999999999998888886

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=93.90  E-value=3.4  Score=34.78  Aligned_cols=169  Identities=11%  Similarity=0.040  Sum_probs=93.3

Q ss_pred             HHHcCCCchHHHHHHHHHHHHcCCC--CchhHHHHHHHHhHhcCCHHHHHHHHccCCC--C--ChhHHHHHHHHHHhCCC
Q 047393           54 NSCLNPILLNVGTQAQAYMTKRGLI--SHPAVGNCLININSRCGKIDDADLAFKSTPE--K--NSLSWTFIISARVNHGH  127 (373)
Q Consensus        54 ~~~~~~~~~~~a~~~~~~m~~~g~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~--d~~~~~~li~~~~~~g~  127 (373)
                      ..+.+.|++.+|.+.|+.+......  --....-.++.++.+.|++++|...|++..+  |  ....+-..+.+.+....
T Consensus        13 ~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~~   92 (203)
T PF13525_consen   13 LEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYKQ   92 (203)
T ss_dssp             HHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHh
Confidence            3445678889999999888765311  1233445567788888888888888877652  2  12222222222221111


Q ss_pred             hHHHHHHHHHHHHcCCCCC-------HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHH
Q 047393          128 PSEALDLFKDKQWRYTSMN-------PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFE  200 (373)
Q Consensus       128 ~~~A~~l~~~m~~~g~~p~-------~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~  200 (373)
                      .....         ....|       ..+|..++.-|=.+.-..+|...+..+.+..    - ..--.+...|.+.|.+.
T Consensus        93 ~~~~~---------~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~l----a-~~e~~ia~~Y~~~~~y~  158 (203)
T PF13525_consen   93 IPGIL---------RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRL----A-EHELYIARFYYKRGKYK  158 (203)
T ss_dssp             HHHHH----------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHH----H-HHHHHHHHHHHCTT-HH
T ss_pred             Cccch---------hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHH----H-HHHHHHHHHHHHcccHH
Confidence            10000         00011       1234445555555666666666655553321    1 11123567888999999


Q ss_pred             HHHHHHHhhCCCCCCH----HHHHHHHHHHHHcCCHHHHH
Q 047393          201 EVLEFIKGIVPGKLCP----LIWRTLLLSSRVHGDMKLAK  236 (373)
Q Consensus       201 ~A~~~~~~~~~~~p~~----~~~~~li~~~~~~g~~~~A~  236 (373)
                      .|..-++.+++.-|+.    ...-.++.++.+.|..+.|.
T Consensus       159 aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  159 AAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            9999888877655654    56688889999999887554

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=93.77  E-value=6.9  Score=37.78  Aligned_cols=174  Identities=13%  Similarity=0.021  Sum_probs=105.0

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcC-CCCc-----hhHHHHHHHHhHh----cCCHH
Q 047393           29 MVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRG-LISH-----PAVGNCLININSR----CGKID   98 (373)
Q Consensus        29 ~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g-~~~~-----~~~~~~li~~~~~----~g~~~   98 (373)
                      -..-+|+-+.+- ++|   .+..++...+=.|+-+.+.+.+.+..+.+ +.-.     ..+|+..+..++-    ....+
T Consensus       175 ~G~G~f~L~lSl-LPp---~~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~  250 (468)
T PF10300_consen  175 FGFGLFNLVLSL-LPP---KVLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLE  250 (468)
T ss_pred             HHHHHHHHHHHh-CCH---HHHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHH
Confidence            344556666653 333   34566677777788888888887765432 2111     2234444444333    45678


Q ss_pred             HHHHHHccCCC--CChhHHHHHH-HHHHhCCChHHHHHHHHHHHHcC--C-CCCHHHHHHHHHHHHccCCHHHHHHHHHH
Q 047393           99 DADLAFKSTPE--KNSLSWTFII-SARVNHGHPSEALDLFKDKQWRY--T-SMNPTTFRSALKAYALMGLVGEAYRLFLS  172 (373)
Q Consensus        99 ~A~~~~~~m~~--~d~~~~~~li-~~~~~~g~~~~A~~l~~~m~~~g--~-~p~~~t~~~ll~~~~~~g~~~~a~~~~~~  172 (373)
                      .|.++++.+.+  |+..-|...- ..+...|++++|++.|++.....  . ......+--+.-.+.-.+++++|.+.|..
T Consensus       251 ~a~~lL~~~~~~yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~  330 (468)
T PF10300_consen  251 EAEELLEEMLKRYPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLR  330 (468)
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHH
Confidence            88888888875  6766665443 34566788888888888754321  1 11233444455556778888888888888


Q ss_pred             hHHHcCCCCCHhHHHHHH-HHHHhcCCH-------HHHHHHHHh
Q 047393          173 MEEVYHIEPSEEHYSIMV-EALGRAGMF-------EEVLEFIKG  208 (373)
Q Consensus       173 m~~~~g~~p~~~~~~~li-~~~~~~g~~-------~~A~~~~~~  208 (373)
                      +.+....  +..+|.-+. .++...|+.       ++|.++|.+
T Consensus       331 L~~~s~W--Ska~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~  372 (468)
T PF10300_consen  331 LLKESKW--SKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRK  372 (468)
T ss_pred             HHhcccc--HHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHH
Confidence            8765433  333443332 233446666       888888887

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.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=93.75  E-value=0.15  Score=31.11  Aligned_cols=29  Identities=14%  Similarity=0.195  Sum_probs=14.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhCCCCC
Q 047393          186 YSIMVEALGRAGMFEEVLEFIKGIVPGKL  214 (373)
Q Consensus       186 ~~~li~~~~~~g~~~~A~~~~~~~~~~~p  214 (373)
                      +..+...|.+.|++++|.++|+++++..|
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~P   32 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALALDP   32 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            34444555555555555555555444444

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.63  E-value=1.9  Score=38.66  Aligned_cols=48  Identities=13%  Similarity=0.063  Sum_probs=22.1

Q ss_pred             hHHHHHHHHHHhcCCCCCHHHHHHHHHHHcC--CC----chHHHHHHHHHHHHc
Q 047393           28 EMVHELLERIQLCCGFIDSYSICDILNSCLN--PI----LLNVGTQAQAYMTKR   75 (373)
Q Consensus        28 ~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~--~~----~~~~a~~~~~~m~~~   75 (373)
                      ++.+++++.|.+.|++-+.++|.+..-....  ..    ....|..+|+.|++.
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~  132 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKK  132 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHh
Confidence            3444455555555555555554443222222  11    234455555555444

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=93.56  E-value=2.9  Score=38.66  Aligned_cols=24  Identities=17%  Similarity=-0.122  Sum_probs=16.7

Q ss_pred             HHHHHHHcCCHhHHHHHHHHHHhc
Q 047393           17 LLKACIKAKDYEMVHELLERIQLC   40 (373)
Q Consensus        17 li~~~~~~g~~~~A~~l~~~m~~~   40 (373)
                      .-..+.+..++..|+..+....+.
T Consensus        55 ~gn~~yk~k~Y~nal~~yt~Ai~~   78 (486)
T KOG0550|consen   55 EGNAFYKQKTYGNALKNYTFAIDM   78 (486)
T ss_pred             hcchHHHHhhHHHHHHHHHHHHHh
Confidence            344566667778888888877774

>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=93.55  E-value=2.1  Score=40.87  Aligned_cols=132  Identities=16%  Similarity=0.118  Sum_probs=96.4

Q ss_pred             HHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhH
Q 047393           13 PWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININS   92 (373)
Q Consensus        13 ~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~   92 (373)
                      -.+.+++-+-+.|..+.|+++-+.-         .+   -.....+.|+++.|.++-.+      ..+...|..|.+...
T Consensus       297 ~~~~i~~fL~~~G~~e~AL~~~~D~---------~~---rFeLAl~lg~L~~A~~~a~~------~~~~~~W~~Lg~~AL  358 (443)
T PF04053_consen  297 QGQSIARFLEKKGYPELALQFVTDP---------DH---RFELALQLGNLDIALEIAKE------LDDPEKWKQLGDEAL  358 (443)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHSS-H---------HH---HHHHHHHCT-HHHHHHHCCC------CSTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHhhcCCh---------HH---HhHHHHhcCCHHHHHHHHHh------cCcHHHHHHHHHHHH
Confidence            3788899999999999999874332         21   22334577899999876543      357889999999999


Q ss_pred             hcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Q 047393           93 RCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLS  172 (373)
Q Consensus        93 ~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~  172 (373)
                      +.|+++-|++.|.+..     -|..|+-.|.-.|+.+.-.++.+.....|      -++....++...|+.++..+++.+
T Consensus       359 ~~g~~~lAe~c~~k~~-----d~~~L~lLy~~~g~~~~L~kl~~~a~~~~------~~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  359 RQGNIELAEECYQKAK-----DFSGLLLLYSSTGDREKLSKLAKIAEERG------DINIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HTTBHHHHHHHHHHCT------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHhhc-----CccccHHHHHHhCCHHHHHHHHHHHHHcc------CHHHHHHHHHHcCCHHHHHHHHHH
Confidence            9999999999999875     56777778888999888777777666665      256666666777888888877765


Q ss_pred             h
Q 047393          173 M  173 (373)
Q Consensus       173 m  173 (373)
                      .
T Consensus       428 ~  428 (443)
T PF04053_consen  428 T  428 (443)
T ss_dssp             T
T ss_pred             c
Confidence            4

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.

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=93.48  E-value=5.6  Score=39.40  Aligned_cols=175  Identities=15%  Similarity=0.092  Sum_probs=105.5

Q ss_pred             CCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHc-CCC--------CchhHHHHHHHHhHhcCCHHHHHHHHccCCCCChh
Q 047393           43 FIDSYSICDILNSCLNPILLNVGTQAQAYMTKR-GLI--------SHPAVGNCLININSRCGKIDDADLAFKSTPEKNSL  113 (373)
Q Consensus        43 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-g~~--------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~  113 (373)
                      .|-+..|..+.......-.++.|+..|-+.... |++        .+...-.+=|.+|  -|++++|++++-+|..+|..
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feeaek~yld~drrDLA  766 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDADRRDLA  766 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhccchhhhh
Confidence            466777777776655555666666655443221 221        1111222223333  38899999999888877743


Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCC----CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHH
Q 047393          114 SWTFIISARVNHGHPSEALDLFKDKQWRYTSM----NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIM  189 (373)
Q Consensus       114 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p----~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~l  189 (373)
                           |..+.+.|+|-...++++.   .|-..    -...|+.+-..+.....|++|.++|..-..          -...
T Consensus       767 -----ielr~klgDwfrV~qL~r~---g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~----------~e~~  828 (1189)
T KOG2041|consen  767 -----IELRKKLGDWFRVYQLIRN---GGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD----------TENQ  828 (1189)
T ss_pred             -----HHHHHhhhhHHHHHHHHHc---cCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc----------hHhH
Confidence                 5666777888777766543   11111    135788888888888888888888865411          1235


Q ss_pred             HHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 047393          190 VEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALD  240 (373)
Q Consensus       190 i~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  240 (373)
                      +++|.+...+++-+.+-.. ++  -+....-.|...+.+.|.-++|.+.+-
T Consensus       829 ~ecly~le~f~~LE~la~~-Lp--e~s~llp~~a~mf~svGMC~qAV~a~L  876 (1189)
T KOG2041|consen  829 IECLYRLELFGELEVLART-LP--EDSELLPVMADMFTSVGMCDQAVEAYL  876 (1189)
T ss_pred             HHHHHHHHhhhhHHHHHHh-cC--cccchHHHHHHHHHhhchHHHHHHHHH
Confidence            6677776777766666665 43  133344556666667777777666553

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=93.47  E-value=1.3  Score=40.76  Aligned_cols=124  Identities=10%  Similarity=-0.045  Sum_probs=84.4

Q ss_pred             HHHHhCCChHHHHHHHHHHHHc-----CCCC---------CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhH
Q 047393          120 SARVNHGHPSEALDLFKDKQWR-----YTSM---------NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEH  185 (373)
Q Consensus       120 ~~~~~~g~~~~A~~l~~~m~~~-----g~~p---------~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~  185 (373)
                      +.|.+.|++..|...|++....     +..+         -..+++.+.-+|.+.+++..|.+.-......  -++|+..
T Consensus       216 n~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~--~~~N~KA  293 (397)
T KOG0543|consen  216 NVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLEL--DPNNVKA  293 (397)
T ss_pred             hHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhc--CCCchhH
Confidence            4566777777777776664321     1111         2346777888889999999999888887543  1446655


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHH-HHcCCH-HHHHHHHHHHhcc
Q 047393          186 YSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSS-RVHGDM-KLAKYALDKLLEL  245 (373)
Q Consensus       186 ~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~-~~~g~~-~~A~~~~~~m~~~  245 (373)
                      .-.=-.++...|+++.|...|+++++..|+...-+.=+..| -+.... +...++|..|...
T Consensus       294 LyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  294 LYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            55556788889999999999999888889665444444444 444443 4447789988873

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=92.92  E-value=4.7  Score=38.91  Aligned_cols=156  Identities=17%  Similarity=0.089  Sum_probs=100.8

Q ss_pred             HHHHhHhcCCHHHHHHHHccCCCC-C---------hhHHHHHHHHHHh----CCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 047393           87 LININSRCGKIDDADLAFKSTPEK-N---------SLSWTFIISARVN----HGHPSEALDLFKDKQWRYTSMNPTTFRS  152 (373)
Q Consensus        87 li~~~~~~g~~~~A~~~~~~m~~~-d---------~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~t~~~  152 (373)
                      ++...+=.|+-+.+++.+.+-.+. +         ...|+..+..++-    ....+.|.++++.+.+.  -|+...|..
T Consensus       194 ll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl~  271 (468)
T PF10300_consen  194 LLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFLF  271 (468)
T ss_pred             HHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHHH
Confidence            334444557888888887655432 1         2456666666554    35677899999999887  688777765


Q ss_pred             HH-HHHHccCCHHHHHHHHHHhHHHcCCCC--CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCC-CCCHHHHHHHHHHH-H
Q 047393          153 AL-KAYALMGLVGEAYRLFLSMEEVYHIEP--SEEHYSIMVEALGRAGMFEEVLEFIKGIVPG-KLCPLIWRTLLLSS-R  227 (373)
Q Consensus       153 ll-~~~~~~g~~~~a~~~~~~m~~~~g~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~li~~~-~  227 (373)
                      .- +.+...|++++|.+.|+.......--|  ....+--+.-.+.-.+++++|.+.|.++.+. .....+|.-+..+| .
T Consensus       272 ~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~a~c~~  351 (468)
T PF10300_consen  272 FEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLAAACLL  351 (468)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            43 456678999999999997542101111  2223334445567789999999999995552 33455555555444 4


Q ss_pred             HcCCH-------HHHHHHHHHHhc
Q 047393          228 VHGDM-------KLAKYALDKLLE  244 (373)
Q Consensus       228 ~~g~~-------~~A~~~~~~m~~  244 (373)
                      ..|+.       ++|.++|+++..
T Consensus       352 ~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  352 MLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             hhccchhhhhhHHHHHHHHHHHHH
Confidence            57777       778888887765

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.

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=92.67  E-value=1.5  Score=38.76  Aligned_cols=79  Identities=15%  Similarity=0.222  Sum_probs=52.6

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHH----HcCCCCCHhHHHH
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEE----VYHIEPSEEHYSI  188 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~----~~g~~p~~~~~~~  188 (373)
                      .++..++..+...|+.+.+.+.++++.... +-+...|..++.+|.+.|+...|+..|+.+.+    ..|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            345566667777777777777777776663 45777777777777777777777777776643    3466666665555


Q ss_pred             HHHH
Q 047393          189 MVEA  192 (373)
Q Consensus       189 li~~  192 (373)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            4444

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=92.62  E-value=8.5  Score=35.64  Aligned_cols=166  Identities=10%  Similarity=-0.057  Sum_probs=81.2

Q ss_pred             HHHHHHHHHcCCCchHHHHHHHHHHHHcC---CCCchhHHHHHHHHhHh---cCCHHHHHHHHccCC----CCChhHHHH
Q 047393           48 SICDILNSCLNPILLNVGTQAQAYMTKRG---LISHPAVGNCLININSR---CGKIDDADLAFKSTP----EKNSLSWTF  117 (373)
Q Consensus        48 ~~~~ll~~~~~~~~~~~a~~~~~~m~~~g---~~~~~~~~~~li~~~~~---~g~~~~A~~~~~~m~----~~d~~~~~~  117 (373)
                      +...++-+|....+++...++.+.+...-   +.-...+-....-++-|   .|+.++|.+++..+.    .++..+|..
T Consensus       143 iv~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL  222 (374)
T PF13281_consen  143 IVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGL  222 (374)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHH
Confidence            33345555666666666666666665431   11112222223334444   566666666655522    234455555


Q ss_pred             HHHHHHh---------CCChHHHHHHHHHHHHcCCCCCHH---HHHHHHHHHHccC-CHHHHHHHH---HHhHHHcCC-C
Q 047393          118 IISARVN---------HGHPSEALDLFKDKQWRYTSMNPT---TFRSALKAYALMG-LVGEAYRLF---LSMEEVYHI-E  180 (373)
Q Consensus       118 li~~~~~---------~g~~~~A~~l~~~m~~~g~~p~~~---t~~~ll~~~~~~g-~~~~a~~~~---~~m~~~~g~-~  180 (373)
                      +...|-.         ....++|++.|.+--+.  .||..   -+.+++....... .-.+..++-   ..+..+.|. .
T Consensus       223 ~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~  300 (374)
T PF13281_consen  223 LGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLE  300 (374)
T ss_pred             HHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccc
Confidence            4444321         11256666666655443  24432   2233333322211 111222222   111111132 2


Q ss_pred             --CCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC
Q 047393          181 --PSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC  215 (373)
Q Consensus       181 --p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  215 (373)
                        .|-..+.++..+..-.|+.++|.+..++|.+..|.
T Consensus       301 ~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~  337 (374)
T PF13281_consen  301 KMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPP  337 (374)
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCc
Confidence              24455567888888899999999999997765543

>PRK15331 chaperone protein SicA; Provisional

Probab=92.62  E-value=1.3  Score=35.66  Aligned_cols=82  Identities=10%  Similarity=-0.017  Sum_probs=38.3

Q ss_pred             CCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHcc---CCCCChhHHHHHHHHHHhCCChHHHHHH
Q 047393           58 NPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKS---TPEKNSLSWTFIISARVNHGHPSEALDL  134 (373)
Q Consensus        58 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~---m~~~d~~~~~~li~~~~~~g~~~~A~~l  134 (373)
                      ..|++++|..+|..+...+ .-|..-|..|..++-..+++++|...|..   +...|...+--...+|...|+.+.|...
T Consensus        49 ~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~A~~~  127 (165)
T PRK15331         49 NQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKARQC  127 (165)
T ss_pred             HCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHHHHHH
Confidence            4455555555555554333 22333444455555555555555555532   1122333333344445555555555555


Q ss_pred             HHHHHH
Q 047393          135 FKDKQW  140 (373)
Q Consensus       135 ~~~m~~  140 (373)
                      |+...+
T Consensus       128 f~~a~~  133 (165)
T PRK15331        128 FELVNE  133 (165)
T ss_pred             HHHHHh
Confidence            544443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=92.60  E-value=9.8  Score=36.31  Aligned_cols=58  Identities=14%  Similarity=0.159  Sum_probs=39.0

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHHccCCHHHHHHHHHHh
Q 047393          116 TFIISARVNHGHPSEALDLFKDKQWRYTS-MNPTTFRSALKAYALMGLVGEAYRLFLSM  173 (373)
Q Consensus       116 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~-p~~~t~~~ll~~~~~~g~~~~a~~~~~~m  173 (373)
                      ..+..+..+.|+.++|.+.|++|.+..-. -+......|+.++...+...++..++.+.
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kY  321 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKY  321 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            34555666778888888888887654311 12345667777777788888887777765

The molecular function of this protein is uncertain.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=92.53  E-value=5.2  Score=32.93  Aligned_cols=185  Identities=18%  Similarity=0.047  Sum_probs=135.9

Q ss_pred             CchHHHHHHHHHHHHcCCC-CchhHHHHHHHHhHhcCCHHHHHHHHccCC-----CCChhHHHHHHHHHHhCCChHHHHH
Q 047393           60 ILLNVGTQAQAYMTKRGLI-SHPAVGNCLININSRCGKIDDADLAFKSTP-----EKNSLSWTFIISARVNHGHPSEALD  133 (373)
Q Consensus        60 ~~~~~a~~~~~~m~~~g~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~-----~~d~~~~~~li~~~~~~g~~~~A~~  133 (373)
                      +....+...+......... .....+......+...+.+..+...+....     ......+..+...+...+...++.+
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            4555566666665544322 135777888888999999999988887654     3356677777788888888999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHH-HHHccCCHHHHHHHHHHhHHHcCCCC----CHhHHHHHHHHHHhcCCHHHHHHHHHh
Q 047393          134 LFKDKQWRYTSMNPTTFRSALK-AYALMGLVGEAYRLFLSMEEVYHIEP----SEEHYSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       134 l~~~m~~~g~~p~~~t~~~ll~-~~~~~g~~~~a~~~~~~m~~~~g~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                      .+.........+. ........ .+...|+.+.|...++....   ..|    ....+......+...++.++|...+.+
T Consensus       117 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  192 (291)
T COG0457         117 LLEKALALDPDPD-LAEALLALGALYELGDYEEALELYEKALE---LDPELNELAEALLALGALLEALGRYEEALELLEK  192 (291)
T ss_pred             HHHHHHcCCCCcc-hHHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHH
Confidence            9998887544431 22222222 78899999999999999844   233    334444555557788999999999999


Q ss_pred             hCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          209 IVPGKLC--PLIWRTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       209 ~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      ++...++  ...+..+...+...++.+.|...+.......|.
T Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~  234 (291)
T COG0457         193 ALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPD  234 (291)
T ss_pred             HHhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcc
Confidence            7775555  678888889999999999999999999997764

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=92.17  E-value=9.6  Score=35.21  Aligned_cols=183  Identities=17%  Similarity=0.054  Sum_probs=94.5

Q ss_pred             CCchHHHHHHHHHHHHcCCCCchhH--HHHHHHHhHhcCCHHHHHHHHccCCC--C-ChhHHHHHHHHHHhCCChHHHHH
Q 047393           59 PILLNVGTQAQAYMTKRGLISHPAV--GNCLININSRCGKIDDADLAFKSTPE--K-NSLSWTFIISARVNHGHPSEALD  133 (373)
Q Consensus        59 ~~~~~~a~~~~~~m~~~g~~~~~~~--~~~li~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~  133 (373)
                      .|+.+.|.+-|+.|..   .|....  ...|.-.--+.|..+.|...-++.-.  | -.-.+.+.+...|..|+|+.|++
T Consensus       133 eG~~~~Ar~kfeAMl~---dPEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~Alk  209 (531)
T COG3898         133 EGDYEDARKKFEAMLD---DPETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALK  209 (531)
T ss_pred             cCchHHHHHHHHHHhc---ChHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHH
Confidence            4666666666666653   122211  11222222344555555554443321  1 23456667777777788888877


Q ss_pred             HHHHHHHcC-CCCCHH--HHHHHHHHHHcc---CCHHHHHHHHHHhHHHcCCCCCHhHHH-HHHHHHHhcCCHHHHHHHH
Q 047393          134 LFKDKQWRY-TSMNPT--TFRSALKAYALM---GLVGEAYRLFLSMEEVYHIEPSEEHYS-IMVEALGRAGMFEEVLEFI  206 (373)
Q Consensus       134 l~~~m~~~g-~~p~~~--t~~~ll~~~~~~---g~~~~a~~~~~~m~~~~g~~p~~~~~~-~li~~~~~~g~~~~A~~~~  206 (373)
                      +++.-++.. +.++..  .-..|+.+-...   -+...|...-.+.   ..+.||..--. .-..++.+.|++.++-.++
T Consensus       210 Lvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a---~KL~pdlvPaav~AAralf~d~~~rKg~~il  286 (531)
T COG3898         210 LVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEA---NKLAPDLVPAAVVAARALFRDGNLRKGSKIL  286 (531)
T ss_pred             HHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHH---hhcCCccchHHHHHHHHHHhccchhhhhhHH
Confidence            777665443 344443  223344432221   2333444433333   24566653322 2346777788888888888


Q ss_pred             HhhCCCCCCHHHHHHHHHHHHHcCCHHHH-HHHHHHHhccCCCC
Q 047393          207 KGIVPGKLCPLIWRTLLLSSRVHGDMKLA-KYALDKLLELDPGM  249 (373)
Q Consensus       207 ~~~~~~~p~~~~~~~li~~~~~~g~~~~A-~~~~~~m~~~~P~~  249 (373)
                      +.+.+..|.+..+...+.  .+.|+.... .+-.+.+.++.|++
T Consensus       287 E~aWK~ePHP~ia~lY~~--ar~gdta~dRlkRa~~L~slk~nn  328 (531)
T COG3898         287 ETAWKAEPHPDIALLYVR--ARSGDTALDRLKRAKKLESLKPNN  328 (531)
T ss_pred             HHHHhcCCChHHHHHHHH--hcCCCcHHHHHHHHHHHHhcCccc
Confidence            887777777776654433  345543222 12233444567776

>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=92.14  E-value=8.2  Score=34.34  Aligned_cols=134  Identities=12%  Similarity=-0.027  Sum_probs=62.2

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhc--------CCCCCH-----HHHHHHHHHHcCCCch---HHHHHHHHHHHHc
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLC--------CGFIDS-----YSICDILNSCLNPILL---NVGTQAQAYMTKR   75 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~--------g~~p~~-----~~~~~ll~~~~~~~~~---~~a~~~~~~m~~~   75 (373)
                      +.||.-...+.+..+++.|...+++..+.        ...|+.     .++..++.++...+..   ++|..+++.+...
T Consensus        37 ~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e  116 (278)
T PF08631_consen   37 VCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRLSILRLLANAYLEWDTYESVEKALNALRLLESE  116 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHh
Confidence            34565555554443666666655554332        122332     2344455555555443   3344455555332


Q ss_pred             CCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCC---ChhHHHHHHHHH---HhCCChHHHHHHHHHHHHcCCCCCH
Q 047393           76 GLISHPAVGNCLININSRCGKIDDADLAFKSTPEK---NSLSWTFIISAR---VNHGHPSEALDLFKDKQWRYTSMNP  147 (373)
Q Consensus        76 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---d~~~~~~li~~~---~~~g~~~~A~~l~~~m~~~g~~p~~  147 (373)
                      . +-...++-.=+..+.+.++.+++.+++.+|...   ....+..++..+   .. .....|...++.+....+.|..
T Consensus       117 ~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~l~~i~~l~~-~~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  117 Y-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSILHHIKQLAE-KSPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             C-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcccccchHHHHHHHHHHHHh-hCcHHHHHHHHHHHHHHhCCCh
Confidence            2 222334434445555566666666666666532   233444444433   22 2233455555555444444433

It is also involved in sporulation [].

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=91.91  E-value=8.6  Score=34.10  Aligned_cols=139  Identities=11%  Similarity=0.025  Sum_probs=77.9

Q ss_pred             HHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCCC----hhHHHHHHHHHHhCCChHH
Q 047393           55 SCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKN----SLSWTFIISARVNHGHPSE  130 (373)
Q Consensus        55 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d----~~~~~~li~~~~~~g~~~~  130 (373)
                      .....++..+|..+|....... +-+...--.+..+|...|+.+.|..++..++...    ......-|..+.+.....+
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            4456678888888887776653 2334555667778888888888888888877421    1111222333444443333


Q ss_pred             HHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcC
Q 047393          131 ALDLFKDKQWRYTSM-NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAG  197 (373)
Q Consensus       131 A~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g  197 (373)
                      ..++-.+.-.   .| |...-..+...+...|+.+.|.+.+-.+.++..-.-|...-..|++.+.-.|
T Consensus       222 ~~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g  286 (304)
T COG3118         222 IQDLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFG  286 (304)
T ss_pred             HHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcC
Confidence            3333333332   24 5555556666677777777777666555444222223344445555444444

>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=91.87  E-value=4.9  Score=31.15  Aligned_cols=119  Identities=10%  Similarity=0.113  Sum_probs=71.3

Q ss_pred             hCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCC----------------CCHhHHH
Q 047393          124 NHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIE----------------PSEEHYS  187 (373)
Q Consensus       124 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~----------------p~~~~~~  187 (373)
                      -.|..++..++..+.....   +..-||.+|.-...+-+-+-..++++.+-+-+.+.                .+.....
T Consensus        14 ldG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C~NlKrVi~C~~~~n~~se~vD   90 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKCGNLKRVIECYAKRNKLSEYVD   90 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-S-THHHHHHHHHTT---HHHH
T ss_pred             HhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhhhcCchhhcchHHHHHHHHHhcchHHHHH
Confidence            3566666666666665542   44455555554444444455555554442222111                2334456


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          188 IMVEALGRAGMFEEVLEFIKGIVP-GKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       188 ~li~~~~~~g~~~~A~~~~~~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      ..++.+...|+-+.-.++....++ -++++...-.+..||.+.|+..++.+++.++-+.
T Consensus        91 ~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek  149 (161)
T PF09205_consen   91 LALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEK  149 (161)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence            667788888988888888888663 5788999999999999999999999999988763

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.66  E-value=4.3  Score=40.38  Aligned_cols=105  Identities=16%  Similarity=0.136  Sum_probs=58.1

Q ss_pred             HHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHH
Q 047393           87 LININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEA  166 (373)
Q Consensus        87 li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a  166 (373)
                      -+.-+...|+..+|.++-.+.+-||...|-.-+.+++..++|++-+++-+.+.      .+.-|.-+..+|.+.|+.++|
T Consensus       690 Tv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~EA  763 (829)
T KOG2280|consen  690 TVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDEA  763 (829)
T ss_pred             HHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhcccHHHH
Confidence            33344555666666666666666666666666666666666665444333222      134455556666666666666


Q ss_pred             HHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHH
Q 047393          167 YRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIK  207 (373)
Q Consensus       167 ~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  207 (373)
                      .+++-+. .  |.+       -...+|.+.|++.+|.++--
T Consensus       764 ~KYiprv-~--~l~-------ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  764 KKYIPRV-G--GLQ-------EKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             hhhhhcc-C--ChH-------HHHHHHHHhccHHHHHHHHH
Confidence            6666544 1  111       24455666666666655443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=91.50  E-value=2.8  Score=32.37  Aligned_cols=85  Identities=9%  Similarity=-0.139  Sum_probs=38.2

Q ss_pred             cCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC----CChh---HHHHHHHHHHhCCChH
Q 047393           57 LNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE----KNSL---SWTFIISARVNHGHPS  129 (373)
Q Consensus        57 ~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~d~~---~~~~li~~~~~~g~~~  129 (373)
                      +..|+++.|.+.|.+.+..- +.+...||.-..++.-.|+.++|++=+++..+    ....   +|---...|...|+.+
T Consensus        54 aE~g~Ld~AlE~F~qal~l~-P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~dd  132 (175)
T KOG4555|consen   54 AEAGDLDGALELFGQALCLA-PERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGNDD  132 (175)
T ss_pred             HhccchHHHHHHHHHHHHhc-ccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCchH
Confidence            34455555555555444321 23344555555555555555555444433321    0111   1111122345556666


Q ss_pred             HHHHHHHHHHHcC
Q 047393          130 EALDLFKDKQWRY  142 (373)
Q Consensus       130 ~A~~l~~~m~~~g  142 (373)
                      .|..=|+...+.|
T Consensus       133 ~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  133 AARADFEAAAQLG  145 (175)
T ss_pred             HHHHhHHHHHHhC
Confidence            6666666655554

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=91.40  E-value=0.34  Score=27.98  Aligned_cols=27  Identities=22%  Similarity=0.126  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          218 IWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       218 ~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      +|+.|...|.+.|++++|.+++++.+.
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            466777788888888888888887543

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=91.37  E-value=0.39  Score=27.01  Aligned_cols=31  Identities=29%  Similarity=0.280  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          218 IWRTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       218 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      +|..+...|...|+.++|...|++..+++|+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            5677778888888888888888888887764

...

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=91.37  E-value=0.15  Score=29.19  Aligned_cols=27  Identities=15%  Similarity=-0.011  Sum_probs=15.6

Q ss_pred             CCCCC-CHHHHHHHHHHHHHcCCHHHHH
Q 047393          210 VPGKL-CPLIWRTLLLSSRVHGDMKLAK  236 (373)
Q Consensus       210 ~~~~p-~~~~~~~li~~~~~~g~~~~A~  236 (373)
                      ++..| ++..|+.+...|...|++++|.
T Consensus         6 ie~~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    6 IELNPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHCCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            34444 4556666666666666666654

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=91.32  E-value=0.54  Score=27.12  Aligned_cols=26  Identities=27%  Similarity=0.234  Sum_probs=18.9

Q ss_pred             HHHHHHHHHHHcCCHhHHHHHHHHHH
Q 047393           13 PWNLLLKACIKAKDYEMVHELLERIQ   38 (373)
Q Consensus        13 ~~n~li~~~~~~g~~~~A~~l~~~m~   38 (373)
                      +|+.|-..|.+.|++++|+++|++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46777788888888888888887744

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.31  E-value=2.1  Score=38.15  Aligned_cols=98  Identities=16%  Similarity=0.125  Sum_probs=74.0

Q ss_pred             cCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC-C--------ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCC
Q 047393           75 RGLISHPAVGNCLININSRCGKIDDADLAFKSTPE-K--------NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSM  145 (373)
Q Consensus        75 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~--------d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p  145 (373)
                      .|.+....+-..++..-....++++++..+-++.. |        ..++|   +..+ -.-++++++.++..=.+-|+-|
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~---irll-lky~pq~~i~~l~npIqYGiF~  133 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTW---IRLL-LKYDPQKAIYTLVNPIQYGIFP  133 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHH---HHHH-HccChHHHHHHHhCcchhcccc
Confidence            45566667777777777777889999888766652 2        22333   2222 3346788998888888999999


Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHhHHH
Q 047393          146 NPTTFRSALKAYALMGLVGEAYRLFLSMEEV  176 (373)
Q Consensus       146 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  176 (373)
                      |.++++.+|+.+.+.+++.+|.++...|..+
T Consensus       134 dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  134 DQFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             chhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            9999999999999999999998888777654

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=91.30  E-value=9.1  Score=33.21  Aligned_cols=61  Identities=11%  Similarity=-0.018  Sum_probs=44.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHhhCCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          189 MVEALGRAGMFEEVLEFIKGIVPGKLC----PLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       189 li~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +..-|.+.|.+-.|..-+++|++.-|+    ....-.|..+|...|..++|.+.-+-+..-.|++
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N~p~s  237 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGANYPDS  237 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCC
Confidence            446777888888888888886663333    2466677788888999999888877777666665

>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=91.04  E-value=7.3  Score=31.62  Aligned_cols=100  Identities=10%  Similarity=-0.022  Sum_probs=53.6

Q ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcC--CHHHHHHHHccCC
Q 047393           31 HELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCG--KIDDADLAFKSTP  108 (373)
Q Consensus        31 ~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m~  108 (373)
                      .+.++.+.+.|++|+...+..++..+.+.|+...-.    .++..++-+|.......+-.+....  -..-|.+++.++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~----qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLH----QLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH----HHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            344555556677777777777777777777654433    3335555555443333332222211  1233444444442


Q ss_pred             CCChhHHHHHHHHHHhCCChHHHHHHHHHH
Q 047393          109 EKNSLSWTFIISARVNHGHPSEALDLFKDK  138 (373)
Q Consensus       109 ~~d~~~~~~li~~~~~~g~~~~A~~l~~~m  138 (373)
                          ..+..++..+...|++-+|++..+..
T Consensus        90 ----~~~~~iievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   90 ----TAYEEIIEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             ----hhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence                24455566666777777777666553

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.00  E-value=8.8  Score=38.85  Aligned_cols=109  Identities=14%  Similarity=0.050  Sum_probs=60.5

Q ss_pred             HcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCCChh-HHHHHHHHHHhCCChHHHHHH
Q 047393           56 CLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSL-SWTFIISARVNHGHPSEALDL  134 (373)
Q Consensus        56 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~-~~~~li~~~~~~g~~~~A~~l  134 (373)
                      +.....+.+-..+++.+.+.|+ .+...-+.|+.+|.+.++.++-.++.+...+.... -....+..+.+.+-.++|..+
T Consensus       407 fLdaq~IknLt~YLe~L~~~gl-a~~dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl~~a~~L  485 (933)
T KOG2114|consen  407 FLDAQRIKNLTSYLEALHKKGL-ANSDHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILRKSNYLDEAELL  485 (933)
T ss_pred             hcCHHHHHHHHHHHHHHHHccc-ccchhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHHHhChHHHHHHH
Confidence            3333344444455555556664 44555566777888887777777766665522111 133455566666666666554


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHh
Q 047393          135 FKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSM  173 (373)
Q Consensus       135 ~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m  173 (373)
                      -....     -.......++.   ..|++++|.++++.+
T Consensus       486 A~k~~-----~he~vl~ille---~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  486 ATKFK-----KHEWVLDILLE---DLHNYEEALRYISSL  516 (933)
T ss_pred             HHHhc-----cCHHHHHHHHH---HhcCHHHHHHHHhcC
Confidence            43322     13333444433   467788888777665

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=90.93  E-value=7.9  Score=31.83  Aligned_cols=59  Identities=12%  Similarity=0.057  Sum_probs=25.8

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHccCCHHHHHHHHHHh
Q 047393          115 WTFIISARVNHGHPSEALDLFKDKQWRYTSMNP--TTFRSALKAYALMGLVGEAYRLFLSM  173 (373)
Q Consensus       115 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~--~t~~~ll~~~~~~g~~~~a~~~~~~m  173 (373)
                      +..+..-|++.|+.++|.+.|.++.+.-..|..  ..+-.+|......+++..+.....+.
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka   99 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKA   99 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            334444444444444444444444443222222  23334444444455555555444444

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.

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=90.81  E-value=0.14  Score=40.44  Aligned_cols=83  Identities=11%  Similarity=0.098  Sum_probs=56.4

Q ss_pred             HHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHH
Q 047393           52 ILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEA  131 (373)
Q Consensus        52 ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A  131 (373)
                      ++..+.+.+.+.....+++.+.+.+...+....+.++..|++.++.++..++++....   .-...++..|.+.|.+++|
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~a   89 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEEA   89 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHHH
Confidence            4566777788888888888888776666788888888888888877777777774332   3334556666666666666


Q ss_pred             HHHHHH
Q 047393          132 LDLFKD  137 (373)
Q Consensus       132 ~~l~~~  137 (373)
                      .-++.+
T Consensus        90 ~~Ly~~   95 (143)
T PF00637_consen   90 VYLYSK   95 (143)
T ss_dssp             HHHHHC
T ss_pred             HHHHHH
Confidence            655543

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=90.75  E-value=5  Score=38.20  Aligned_cols=97  Identities=18%  Similarity=0.201  Sum_probs=68.6

Q ss_pred             HHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCC-C-CCC--HHHHHHHHHHHH
Q 047393          152 SALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVP-G-KLC--PLIWRTLLLSSR  227 (373)
Q Consensus       152 ~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~-~p~--~~~~~~li~~~~  227 (373)
                      .+..++-+.|+.++|.+.+++|.+.+.......+...|++++...+..+++..++.+ -. + -|.  ..+|+..+--..
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~k-YdDi~lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAK-YDDISLPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHH-hccccCCchHHHHHHHHHHHHH
Confidence            345556678999999999999987643223456778999999999999999999988 54 1 232  357777664444


Q ss_pred             HcCC---------------HHHHHHHHHHHhccCCCC
Q 047393          228 VHGD---------------MKLAKYALDKLLELDPGM  249 (373)
Q Consensus       228 ~~g~---------------~~~A~~~~~~m~~~~P~~  249 (373)
                      ..++               -..|.+.+.+..+.+|-.
T Consensus       343 av~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHV  379 (539)
T PF04184_consen  343 AVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHV  379 (539)
T ss_pred             hhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCC
Confidence            3333               123556777777877766

The molecular function of this protein is uncertain.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.70  E-value=20  Score=36.01  Aligned_cols=92  Identities=17%  Similarity=0.235  Sum_probs=62.0

Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHH
Q 047393          144 SMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLL  223 (373)
Q Consensus       144 ~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li  223 (373)
                      ....-|.+--+.-+...|+..+|.++-++. +    -||...|--=+.+++..+++++-+++-.. .+   .|.-|.-.+
T Consensus       681 ~f~dlSl~dTv~~li~~g~~k~a~ql~~~F-k----ipdKr~~wLk~~aLa~~~kweeLekfAks-kk---sPIGy~PFV  751 (829)
T KOG2280|consen  681 SFVDLSLHDTVTTLILIGQNKRAEQLKSDF-K----IPDKRLWWLKLTALADIKKWEELEKFAKS-KK---SPIGYLPFV  751 (829)
T ss_pred             ccccCcHHHHHHHHHHccchHHHHHHHHhc-C----CcchhhHHHHHHHHHhhhhHHHHHHHHhc-cC---CCCCchhHH
Confidence            344445555555666677777777776655 2    46777777777778888888777776666 32   356677777


Q ss_pred             HHHHHcCCHHHHHHHHHHHhc
Q 047393          224 LSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       224 ~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      .+|.+.|+.++|.+.+-+.-.
T Consensus       752 e~c~~~~n~~EA~KYiprv~~  772 (829)
T KOG2280|consen  752 EACLKQGNKDEAKKYIPRVGG  772 (829)
T ss_pred             HHHHhcccHHHHhhhhhccCC
Confidence            788888888888777655543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=90.58  E-value=1.2  Score=39.32  Aligned_cols=61  Identities=20%  Similarity=0.194  Sum_probs=54.5

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          184 EHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       184 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      .++..++..+..+|+.+.+.+.+++.+...| +...|..++.+|.+.|+...|+..|+.+.+
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            4677788999999999999999999777777 789999999999999999999999998876

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=90.35  E-value=12  Score=33.10  Aligned_cols=145  Identities=16%  Similarity=0.064  Sum_probs=95.1

Q ss_pred             HHHHHHHccCCCC--ChhHHHHHHHHHHhCCChHHHHHHHHHH-------HH-------------------cCCCCCHHH
Q 047393           98 DDADLAFKSTPEK--NSLSWTFIISARVNHGHPSEALDLFKDK-------QW-------------------RYTSMNPTT  149 (373)
Q Consensus        98 ~~A~~~~~~m~~~--d~~~~~~li~~~~~~g~~~~A~~l~~~m-------~~-------------------~g~~p~~~t  149 (373)
                      .+|+++|.-+.+.  ..++-+.+|..+....+..+|...+...       +.                   .++.-|..-
T Consensus       150 ~KA~ELFayLv~hkgk~v~~~~~ie~lwpe~D~kka~s~lhTtvyqlRKaLs~L~~ne~vts~d~~Ykld~~~~k~Dv~e  229 (361)
T COG3947         150 RKALELFAYLVEHKGKEVTSWEAIEALWPEKDEKKASSLLHTTVYQLRKALSRLNANEAVTSQDRKYKLDAGLPKYDVQE  229 (361)
T ss_pred             hHHHHHHHHHHHhcCCcccHhHHHHHHccccchhhHHHHHHHHHHHHHHHhchhccCceEEEcCCceEEecCCccccHHH
Confidence            4677777665532  3555666777777777777776655443       11                   134446666


Q ss_pred             HHHHHHHHHc-cCCHHHHHHHHHHhHHHcCCCCC-------------HhHH----HHHHHHHHhcCCHHHHHHHHHhhCC
Q 047393          150 FRSALKAYAL-MGLVGEAYRLFLSMEEVYHIEPS-------------EEHY----SIMVEALGRAGMFEEVLEFIKGIVP  211 (373)
Q Consensus       150 ~~~ll~~~~~-~g~~~~a~~~~~~m~~~~g~~p~-------------~~~~----~~li~~~~~~g~~~~A~~~~~~~~~  211 (373)
                      |-..+..... ...++++.++......  +.-|+             ..+|    +..-..|..+|.+.+|.++.++.+.
T Consensus       230 ~es~~rqi~~inltide~kelv~~ykg--dyl~e~~y~Waedererle~ly~kllgkva~~yle~g~~neAi~l~qr~lt  307 (361)
T COG3947         230 YESLARQIEAINLTIDELKELVGQYKG--DYLPEADYPWAEDERERLEQLYMKLLGKVARAYLEAGKPNEAIQLHQRALT  307 (361)
T ss_pred             HHHHhhhhhccccCHHHHHHHHHHhcC--CcCCccccccccchHHHHHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHhh
Confidence            6666655433 3456777777766632  33332             1233    4445678889999999999999777


Q ss_pred             CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          212 GKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       212 ~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      ..| +...|-.+++.+...|+--.|.+-++++.+
T Consensus       308 ldpL~e~~nk~lm~~la~~gD~is~~khyerya~  341 (361)
T COG3947         308 LDPLSEQDNKGLMASLATLGDEISAIKHYERYAE  341 (361)
T ss_pred             cChhhhHHHHHHHHHHHHhccchhhhhHHHHHHH
Confidence            666 677888889999999997777777777654

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=90.26  E-value=7.1  Score=30.20  Aligned_cols=51  Identities=20%  Similarity=0.145  Sum_probs=27.7

Q ss_pred             HhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047393           90 INSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQW  140 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~  140 (373)
                      +++..|+++.|++.|.+..   ......||.-..++.-.|+.++|++=+++..+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~Ale  105 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALE  105 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHH
Confidence            3455566666666655433   23455556555566556666666555555443

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=90.06  E-value=4  Score=33.56  Aligned_cols=58  Identities=10%  Similarity=-0.069  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCH--HHHHHHHHHHcCCCchHHHHHHHHH
Q 047393           14 WNLLLKACIKAKDYEMVHELLERIQLCCGFIDS--YSICDILNSCLNPILLNVGTQAQAY   71 (373)
Q Consensus        14 ~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~   71 (373)
                      +..+..-|.+.|+.++|++.|.++.+....|..  ..+..++..+.-.+++..+.....+
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~k   98 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEK   98 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            444445555555555555555555443333322  2233444444444454444444443

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.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.90  E-value=8.1  Score=34.94  Aligned_cols=110  Identities=10%  Similarity=-0.065  Sum_probs=45.3

Q ss_pred             CCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHc---CCCCchhHHHHHHHHhHhcCCHHHHH
Q 047393           25 KDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKR---GLISHPAVGNCLININSRCGKIDDAD  101 (373)
Q Consensus        25 g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~---g~~~~~~~~~~li~~~~~~g~~~~A~  101 (373)
                      |++.+|-..++++.+. .+-|...+.-.=.+|.-.|+...-...++.++-.   +++....+.....-++..+|-+++|+
T Consensus       117 g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~dAE  195 (491)
T KOG2610|consen  117 GKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDDAE  195 (491)
T ss_pred             ccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchhHH
Confidence            3344444444444432 2233334444444444444444444444444321   22222222222333344455555555


Q ss_pred             HHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHH
Q 047393          102 LAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLF  135 (373)
Q Consensus       102 ~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~  135 (373)
                      +.-++..+   .|.-+-.+....+-.+|+..++.+..
T Consensus       196 k~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM  232 (491)
T KOG2610|consen  196 KQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFM  232 (491)
T ss_pred             HHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHH
Confidence            55544332   23333344444444455555554443

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=89.81  E-value=15  Score=38.88  Aligned_cols=78  Identities=21%  Similarity=0.149  Sum_probs=48.5

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHcCCCCCHHH--HHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhc
Q 047393          119 ISARVNHGHPSEALDLFKDKQWRYTSMNPTT--FRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRA  196 (373)
Q Consensus       119 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t--~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~  196 (373)
                      +.+|..+|+|.+|+.+-.++..   .-|...  --.|..-+...++.-+|-++..+...    .|.     -.+..||+.
T Consensus       972 l~a~~~~~dWr~~l~~a~ql~~---~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~s----d~~-----~av~ll~ka 1039 (1265)
T KOG1920|consen  972 LKAYKECGDWREALSLAAQLSE---GKDELVILAEELVSRLVEQRKHYEAAKILLEYLS----DPE-----EAVALLCKA 1039 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHhhcC---CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhc----CHH-----HHHHHHhhH
Confidence            4455555666666555554431   112222  24567777788888888887776633    222     346678888


Q ss_pred             CCHHHHHHHHHh
Q 047393          197 GMFEEVLEFIKG  208 (373)
Q Consensus       197 g~~~~A~~~~~~  208 (373)
                      ..+++|.++-..
T Consensus      1040 ~~~~eAlrva~~ 1051 (1265)
T KOG1920|consen 1040 KEWEEALRVASK 1051 (1265)
T ss_pred             hHHHHHHHHHHh
Confidence            889999888776

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=89.36  E-value=0.4  Score=27.00  Aligned_cols=30  Identities=23%  Similarity=0.257  Sum_probs=14.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhhCCCCC
Q 047393          185 HYSIMVEALGRAGMFEEVLEFIKGIVPGKL  214 (373)
Q Consensus       185 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~p  214 (373)
                      +|..+...|...|++++|+..|++++++.|
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p   32 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALELDP   32 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHCc
Confidence            344455555555555555555555444333

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=89.15  E-value=4.1  Score=38.27  Aligned_cols=141  Identities=11%  Similarity=0.023  Sum_probs=90.1

Q ss_pred             HcCCCchHHHHHHHHHHHHcCCCCc------hhHHHHHHHHhHhcCCHHHHHHHHccCCCC-ChhHHHHHHHHH--HhCC
Q 047393           56 CLNPILLNVGTQAQAYMTKRGLISH------PAVGNCLININSRCGKIDDADLAFKSTPEK-NSLSWTFIISAR--VNHG  126 (373)
Q Consensus        56 ~~~~~~~~~a~~~~~~m~~~g~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-d~~~~~~li~~~--~~~g  126 (373)
                      +.+.+++.+|.++|.+..+.. ..+      ....+-++++|... +++.....+.+..+. ....|-.+..+.  -+.+
T Consensus        16 Lqkq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~~~~s~~l~LF~~L~~Y~~k   93 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQFGKSAYLPLFKALVAYKQK   93 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhh
Confidence            356788999999999885542 122      23446677887654 455555555444421 234455555443  4678


Q ss_pred             ChHHHHHHHHHHHHc--CCCC------------CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHc---CCCCCHhHHHHH
Q 047393          127 HPSEALDLFKDKQWR--YTSM------------NPTTFRSALKAYALMGLVGEAYRLFLSMEEVY---HIEPSEEHYSIM  189 (373)
Q Consensus       127 ~~~~A~~l~~~m~~~--g~~p------------~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~---g~~p~~~~~~~l  189 (373)
                      .+.+|.+.+..-.+.  +-.|            |-.-=+..++.+...|++.++..++.++..+.   .+..+..+|+.+
T Consensus        94 ~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~  173 (549)
T PF07079_consen   94 EYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRA  173 (549)
T ss_pred             hHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHH
Confidence            888888888766554  3222            11222456677888999999999999886542   123688899988


Q ss_pred             HHHHHhcCC
Q 047393          190 VEALGRAGM  198 (373)
Q Consensus       190 i~~~~~~g~  198 (373)
                      +-++++.--
T Consensus       174 vlmlsrSYf  182 (549)
T PF07079_consen  174 VLMLSRSYF  182 (549)
T ss_pred             HHHHhHHHH
Confidence            888877533

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=88.88  E-value=16  Score=32.41  Aligned_cols=119  Identities=13%  Similarity=0.129  Sum_probs=68.7

Q ss_pred             HHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH
Q 047393           89 NINSRCGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGE  165 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  165 (373)
                      ......|++.+|..+|+....   .+...--.++.+|...|+.+.|..++..+-..--.........-|..+.+.....+
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAAPENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhCcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            345667777788777766542   23445556777788888888888888776443211122222222333444444444


Q ss_pred             HHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCC
Q 047393          166 AYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVP  211 (373)
Q Consensus       166 a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  211 (373)
                      ...+-++...    .| |...-..+...+...|+.++|.+.+-.+++
T Consensus       222 ~~~l~~~~aa----dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~  264 (304)
T COG3118         222 IQDLQRRLAA----DPDDVEAALALADQLHLVGRNEAALEHLLALLR  264 (304)
T ss_pred             HHHHHHHHHh----CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4444444422    34 566666677777777888877776665454

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=88.75  E-value=9.5  Score=34.50  Aligned_cols=146  Identities=12%  Similarity=0.037  Sum_probs=93.3

Q ss_pred             cCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCH--HHH--HHHHHHHHccCCHHHH
Q 047393           94 CGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNP--TTF--RSALKAYALMGLVGEA  166 (373)
Q Consensus        94 ~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~--~t~--~~ll~~~~~~g~~~~a  166 (373)
                      .|++.+|-..++++.+   .|..+++--=.+|.-.|+.+.-...+++..-. ..||.  .+|  .....++...|-+++|
T Consensus       116 ~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~dA  194 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDDA  194 (491)
T ss_pred             cccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchhH
Confidence            4666666666666653   37777877778888888888888888887644 12232  233  3334445568888888


Q ss_pred             HHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC------HHHHHHHHHHHHHcCCHHHHHHHHH
Q 047393          167 YRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC------PLIWRTLLLSSRVHGDMKLAKYALD  240 (373)
Q Consensus       167 ~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~------~~~~~~li~~~~~~g~~~~A~~~~~  240 (373)
                      ++.-++..+-.  +-|.-.-.++...+--.|++.++.+++.+ -+-..+      ...|--..-.+...+.++.|.++|+
T Consensus       195 Ek~A~ralqiN--~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~-ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  195 EKQADRALQIN--RFDCWASHAKAHVLEMNGRHKEGKEFMYK-TEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             HHHHHhhccCC--CcchHHHHHHHHHHHhcchhhhHHHHHHh-cccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            88777654321  23555556666777778899999998887 441111      1223333334455678999999998


Q ss_pred             HHh
Q 047393          241 KLL  243 (373)
Q Consensus       241 ~m~  243 (373)
                      .-+
T Consensus       272 ~ei  274 (491)
T KOG2610|consen  272 REI  274 (491)
T ss_pred             HHH
Confidence            744

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=88.33  E-value=12  Score=30.11  Aligned_cols=47  Identities=23%  Similarity=0.246  Sum_probs=24.0

Q ss_pred             hCCChHHHHHHHHHHHHcCCCCCHH---HHHHHHHHHHccCCHHHHHHHHHHhH
Q 047393          124 NHGHPSEALDLFKDKQWRYTSMNPT---TFRSALKAYALMGLVGEAYRLFLSME  174 (373)
Q Consensus       124 ~~g~~~~A~~l~~~m~~~g~~p~~~---t~~~ll~~~~~~g~~~~a~~~~~~m~  174 (373)
                      +.++.+++..++..+.-.  +|...   ++-..+  +.+.|++++|.++|+++.
T Consensus        22 ~~~~~~D~e~lL~ALrvL--RP~~~e~~~~~~~l--~i~r~~w~dA~rlLr~l~   71 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVL--RPEFPELDLFDGWL--HIVRGDWDDALRLLRELE   71 (160)
T ss_pred             ccCChHHHHHHHHHHHHh--CCCchHHHHHHHHH--HHHhCCHHHHHHHHHHHh
Confidence            445566666666655443  33332   222222  345566666666666663

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=88.22  E-value=0.41  Score=37.73  Aligned_cols=86  Identities=10%  Similarity=-0.057  Sum_probs=60.7

Q ss_pred             HHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcC
Q 047393           16 LLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCG   95 (373)
Q Consensus        16 ~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g   95 (373)
                      .+|+.+.+.+.+....+.++.+...+..-+....+.++..|++.+..+...++++.       .+..-...++..+.+.|
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~-------~~~yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKT-------SNNYDLDKALRLCEKHG   84 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTS-------SSSS-CTHHHHHHHTTT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccc-------ccccCHHHHHHHHHhcc
Confidence            35677788889999999999998776666788889999999999877777777651       12233345666667777


Q ss_pred             CHHHHHHHHccCC
Q 047393           96 KIDDADLAFKSTP  108 (373)
Q Consensus        96 ~~~~A~~~~~~m~  108 (373)
                      .+++|.-++.++.
T Consensus        85 l~~~a~~Ly~~~~   97 (143)
T PF00637_consen   85 LYEEAVYLYSKLG   97 (143)
T ss_dssp             SHHHHHHHHHCCT
T ss_pred             hHHHHHHHHHHcc
Confidence            7777777666654

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.20  E-value=7.6  Score=31.66  Aligned_cols=120  Identities=18%  Similarity=0.143  Sum_probs=56.1

Q ss_pred             HhCCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHh-HHHHHH--HHHHhcCC
Q 047393          123 VNHGHPSEALDLFKDKQWRYTSMNPT-TFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEE-HYSIMV--EALGRAGM  198 (373)
Q Consensus       123 ~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~-~~~~li--~~~~~~g~  198 (373)
                      .+.|..++|+.-|..+.+.|..-=.+ .-.-+.......|+...|...|+++-... -.|-.. -...|=  -.+...|.
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt-~~P~~~rd~ARlraa~lLvD~gs  147 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADT-SIPQIGRDLARLRAAYLLVDNGS  147 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccC-CCcchhhHHHHHHHHHHHhcccc
Confidence            34455555655565555554321111 11111223345566666666666664331 112111 111111  22345666


Q ss_pred             HHHHHHHHHhhCCCCCCH---HHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          199 FEEVLEFIKGIVPGKLCP---LIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       199 ~~~A~~~~~~~~~~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      +++...-.+- +....++   ..-..|--+-.+.|++..|.+.|..+..
T Consensus       148 y~dV~srvep-La~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         148 YDDVSSRVEP-LAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHHhhh-ccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            6666666655 4322222   2233444455567777777777777665

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=88.01  E-value=26  Score=33.61  Aligned_cols=227  Identities=11%  Similarity=0.059  Sum_probs=131.1

Q ss_pred             CChhHHHHHHHHHHHcC------CHhHHHHHHHHHHhc-CCCCCH-HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCc
Q 047393            9 DVEIPWNLLLKACIKAK------DYEMVHELLERIQLC-CGFIDS-YSICDILNSCLNPILLNVGTQAQAYMTKRGLISH   80 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g------~~~~A~~l~~~m~~~-g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~   80 (373)
                      |+...|+..|..|...-      .+.....+|+..... +..|+. .-|..+...++..+...++.   ..+...++.-+
T Consensus       313 ~t~sm~e~YI~~~lE~~~~~r~~~I~h~~~~~~~~~~~~~l~~~~~~~ys~~~l~~~t~~~~r~~a---~~l~~e~f~~s  389 (568)
T KOG2396|consen  313 PTESMWECYITFCLERFTFLRGKRILHTMCVFRKAHELKLLSECLYKQYSVLLLCLNTLNEAREVA---VKLTTELFRDS  389 (568)
T ss_pred             hHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHhccchHhHHH---HHhhHHHhcch
Confidence            55667777777765432      455666677766654 355543 45777777676665543332   22223344556


Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHc----cC----CCCChhHHHHHHHHHHhCCC-hHH-HHHHHHHHHHcCCCCCHHHH
Q 047393           81 PAVGNCLININSRCGKIDDADLAFK----ST----PEKNSLSWTFIISARVNHGH-PSE-ALDLFKDKQWRYTSMNPTTF  150 (373)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~A~~~~~----~m----~~~d~~~~~~li~~~~~~g~-~~~-A~~l~~~m~~~g~~p~~~t~  150 (373)
                      ...|-.=+....++..  ++.-+|.    ..    ..+-...|++..     .|+ +.. .+.++-.....-..|+..|+
T Consensus       390 ~k~~~~kl~~~~~s~s--D~q~~f~~l~n~~r~~~~s~~~~~w~s~~-----~~dsl~~~~~~~Ii~a~~s~~~~~~~tl  462 (568)
T KOG2396|consen  390 GKMWQLKLQVLIESKS--DFQMLFEELFNHLRKQVCSELLISWASAS-----EGDSLQEDTLDLIISALLSVIGADSVTL  462 (568)
T ss_pred             HHHHHHHHHHHHhhcc--hhHHHHHHHHHHHHHHhcchhHHHHHHHh-----hccchhHHHHHHHHHHHHHhcCCceeeh
Confidence            6666554444443211  2222222    22    223445555554     122 221 22233333333346677666


Q ss_pred             H-HHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHH---HhcCCHHHHHHHHHhhCC-CCCCHHHHHHHHHH
Q 047393          151 R-SALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEAL---GRAGMFEEVLEFIKGIVP-GKLCPLIWRTLLLS  225 (373)
Q Consensus       151 ~-~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~---~~~g~~~~A~~~~~~~~~-~~p~~~~~~~li~~  225 (373)
                      . .++..+-+.|-..+|...+..+..  --+|+...|--+|..=   ..+| +.-+.++++.|.. ...|+..|--.+.-
T Consensus       463 ~s~~l~~~~e~~~~~~ark~y~~l~~--lpp~sl~l~r~miq~e~~~~sc~-l~~~r~~yd~a~~~fg~d~~lw~~y~~~  539 (568)
T KOG2396|consen  463 KSKYLDWAYESGGYKKARKVYKSLQE--LPPFSLDLFRKMIQFEKEQESCN-LANIREYYDRALREFGADSDLWMDYMKE  539 (568)
T ss_pred             hHHHHHHHHHhcchHHHHHHHHHHHh--CCCccHHHHHHHHHHHhhHhhcC-chHHHHHHHHHHHHhCCChHHHHHHHHh
Confidence            4 667777788888888888888843  2355777777777532   3344 7778888888655 55678888887777


Q ss_pred             HHHcCCHHHHHHHHHHHhc-cCCC
Q 047393          226 SRVHGDMKLAKYALDKLLE-LDPG  248 (373)
Q Consensus       226 ~~~~g~~~~A~~~~~~m~~-~~P~  248 (373)
                      =..+|..+.+-.++-++.+ ++|.
T Consensus       540 e~~~g~~en~~~~~~ra~ktl~~~  563 (568)
T KOG2396|consen  540 ELPLGRPENCGQIYWRAMKTLQGE  563 (568)
T ss_pred             hccCCCcccccHHHHHHHHhhChh
Confidence            7788888888887776655 5553

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=88.01  E-value=8.6  Score=28.15  Aligned_cols=88  Identities=11%  Similarity=-0.026  Sum_probs=59.8

Q ss_pred             chHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047393           61 LLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQW  140 (373)
Q Consensus        61 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~  140 (373)
                      ..++|..+-+.+...+-. ...+--+-+..+...|++++|..+.+.+.-||...|-+|-.  .+.|..+++..-+.+|..
T Consensus        20 cHqEA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla~   96 (115)
T TIGR02508        20 CHQEANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLAA   96 (115)
T ss_pred             HHHHHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHHh
Confidence            356777777776554422 22233333456778899999999999998899999877754  456777777777777877


Q ss_pred             cCCCCCHHHHHH
Q 047393          141 RYTSMNPTTFRS  152 (373)
Q Consensus       141 ~g~~p~~~t~~~  152 (373)
                      +| .|...+|..
T Consensus        97 sg-~p~lq~Faa  107 (115)
T TIGR02508        97 SG-DPRLQTFVA  107 (115)
T ss_pred             CC-CHHHHHHHH
Confidence            76 555555543

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=87.57  E-value=14  Score=34.39  Aligned_cols=52  Identities=12%  Similarity=0.088  Sum_probs=29.2

Q ss_pred             HHhCCChHHHHHHHHHHHHc---CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHh
Q 047393          122 RVNHGHPSEALDLFKDKQWR---YTSMNPTTFRSALKAYALMGLVGEAYRLFLSM  173 (373)
Q Consensus       122 ~~~~g~~~~A~~l~~~m~~~---g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m  173 (373)
                      ..+.|++.+|.+.+.+.+..   +..|+...|........+.|++++|+.--++.
T Consensus       259 ~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~A  313 (486)
T KOG0550|consen  259 AFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEA  313 (486)
T ss_pred             HhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhh
Confidence            34556666666666665542   33445555555555556666666665555444

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=87.39  E-value=4.4  Score=29.40  Aligned_cols=60  Identities=15%  Similarity=0.148  Sum_probs=40.6

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHH
Q 047393          130 EALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE  191 (373)
Q Consensus       130 ~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  191 (373)
                      ++.+-++.+....+.|+.....+.++||.+.+++..|.++++..+.+.  ..+...|..+++
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~--~~~~~~y~~~lq   84 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKC--GAHKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc--cCchhhHHHHHH
Confidence            444455555556678888888888888888888888888888775442  334456665554

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=87.36  E-value=19  Score=31.34  Aligned_cols=57  Identities=21%  Similarity=0.134  Sum_probs=38.7

Q ss_pred             HHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHh
Q 047393          152 SALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       152 ~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                      .+.+.|.+.|.+..|..-+++|.+.+.-.+ .....-.+..+|-..|..++|...-.-
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~v  229 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKV  229 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHH
Confidence            344568888999999999998877642222 123444566788888888887776554

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=87.23  E-value=16  Score=32.41  Aligned_cols=83  Identities=8%  Similarity=0.029  Sum_probs=39.0

Q ss_pred             ChhHHHHHHHHHHhCCChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHh----HHHcCCCCCHhH
Q 047393          111 NSLSWTFIISARVNHGHPSEALDLFKDKQWR-YTSMNPTTFRSALKAYALMGLVGEAYRLFLSM----EEVYHIEPSEEH  185 (373)
Q Consensus       111 d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m----~~~~g~~p~~~~  185 (373)
                      +..+--.+|..+++.++|.+-.++++..... +..-|..-|..+|..-...|+..-..++..+=    .+++++..+...
T Consensus       201 ~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~GhLLwikR~~V~v~~~L  280 (292)
T PF13929_consen  201 TRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDDGHLLWIKRNNVDVTDEL  280 (292)
T ss_pred             ChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhCCCeEEeeecCCcCCHHH
Confidence            3344444555555555555555554443332 33334455555555555555555544444431    133455545444


Q ss_pred             HHHHHHHH
Q 047393          186 YSIMVEAL  193 (373)
Q Consensus       186 ~~~li~~~  193 (373)
                      -..+-..+
T Consensus       281 ~~~L~~LF  288 (292)
T PF13929_consen  281 RSQLSELF  288 (292)
T ss_pred             HHHHHHHH
Confidence            44444433

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=87.05  E-value=4.5  Score=29.32  Aligned_cols=60  Identities=12%  Similarity=0.060  Sum_probs=42.2

Q ss_pred             hHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHH-HcCCCCchhHHHHHHH
Q 047393           28 EMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMT-KRGLISHPAVGNCLIN   89 (373)
Q Consensus        28 ~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~-~~g~~~~~~~~~~li~   89 (373)
                      -++.+-++.+....+.|++....+.++||.|.+++..|.++++-.+ +.|  .+...|..++.
T Consensus        24 we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~--~~~~~y~~~lq   84 (103)
T cd00923          24 WELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCG--AHKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--CchhhHHHHHH
Confidence            3455556666666778888888888888888888888888888775 333  24446665553

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=86.75  E-value=10  Score=29.98  Aligned_cols=76  Identities=16%  Similarity=0.182  Sum_probs=45.5

Q ss_pred             HHHHHHhHhcCCHHHHHHHHccCC---------CCChhHHHHHHHHHHhCCC-hHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 047393           85 NCLININSRCGKIDDADLAFKSTP---------EKNSLSWTFIISARVNHGH-PSEALDLFKDKQWRYTSMNPTTFRSAL  154 (373)
Q Consensus        85 ~~li~~~~~~g~~~~A~~~~~~m~---------~~d~~~~~~li~~~~~~g~-~~~A~~l~~~m~~~g~~p~~~t~~~ll  154 (373)
                      |+++.-....+.+.....+++.+.         ..|..+|.+++.+..+..- ---+..+|.-|++.+.+++..-|..+|
T Consensus        43 N~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li  122 (145)
T PF13762_consen   43 NCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLI  122 (145)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            455554444455555554444442         1255667777777755544 223566777777767777777777777


Q ss_pred             HHHHcc
Q 047393          155 KAYALM  160 (373)
Q Consensus       155 ~~~~~~  160 (373)
                      .++.+.
T Consensus       123 ~~~l~g  128 (145)
T PF13762_consen  123 KAALRG  128 (145)
T ss_pred             HHHHcC
Confidence            776554

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=86.63  E-value=1.8  Score=25.37  Aligned_cols=29  Identities=31%  Similarity=0.205  Sum_probs=21.5

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHh
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQL   39 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~   39 (373)
                      ..+++.|...|...|++++|++++++...
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            35677888888888888888888877654

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=86.55  E-value=6.1  Score=29.00  Aligned_cols=60  Identities=15%  Similarity=0.133  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHH
Q 047393          130 EALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE  191 (373)
Q Consensus       130 ~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  191 (373)
                      +...-++.+....+.|+.....+.+.||.+.+++..|.++++.++.+.|  +....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~--~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCG--NKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTT--T-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--ChHHHHHHHHH
Confidence            3444455555566788888888888888888888888888888865533  33336766664

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=86.38  E-value=0.96  Score=25.73  Aligned_cols=24  Identities=21%  Similarity=0.176  Sum_probs=14.5

Q ss_pred             CCchhHHHHHHHHhHhcCCHHHHH
Q 047393           78 ISHPAVGNCLININSRCGKIDDAD  101 (373)
Q Consensus        78 ~~~~~~~~~li~~~~~~g~~~~A~  101 (373)
                      |-|..+|+.+...|...|++++|+
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            334556666666666666666654

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=86.34  E-value=1.3  Score=24.45  Aligned_cols=29  Identities=21%  Similarity=0.143  Sum_probs=22.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          221 TLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       221 ~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .+..++.+.|+.++|.+.|+++++..|++
T Consensus         5 ~~a~~~~~~g~~~~A~~~~~~~~~~~P~s   33 (33)
T PF13174_consen    5 RLARCYYKLGDYDEAIEYFQRLIKRYPDS   33 (33)
T ss_dssp             HHHHHHHHHCHHHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCcCC
Confidence            45566777888888888888888877753

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=85.95  E-value=12  Score=33.09  Aligned_cols=114  Identities=14%  Similarity=0.216  Sum_probs=81.4

Q ss_pred             ChHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHc-c-CCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHH
Q 047393          127 HPSEALDLFKDKQW-RYTSMNPTTFRSALKAYAL-M-GLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVL  203 (373)
Q Consensus       127 ~~~~A~~l~~~m~~-~g~~p~~~t~~~ll~~~~~-~-g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~  203 (373)
                      ...+|+.+|+...- ..+--|..+...+++.... . .....-.++.+-+...+|-.++..+...+|+.+++.+++.+-.
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~  222 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLF  222 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHH
Confidence            35677777763322 2345577777777776554 2 2334444555555566667888889999999999999999999


Q ss_pred             HHHHhhCCC-CC--CHHHHHHHHHHHHHcCCHHHHHHHHH
Q 047393          204 EFIKGIVPG-KL--CPLIWRTLLLSSRVHGDMKLAKYALD  240 (373)
Q Consensus       204 ~~~~~~~~~-~p--~~~~~~~li~~~~~~g~~~~A~~~~~  240 (373)
                      ++++.-.+. .|  |...|..+|+.-...|+..-..++.+
T Consensus       223 ~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~  262 (292)
T PF13929_consen  223 QFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIID  262 (292)
T ss_pred             HHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhh
Confidence            999885542 23  78999999999999999877666554

>PRK11906 transcriptional regulator; Provisional

Probab=85.72  E-value=33  Score=32.62  Aligned_cols=134  Identities=13%  Similarity=0.049  Sum_probs=83.0

Q ss_pred             hHH--HHHHHHHHhCC-----ChHHHHHHHHHHHH-cCCCCCH-HHHHHHHHHHHc---------cCCHHHHHHHHHHhH
Q 047393          113 LSW--TFIISARVNHG-----HPSEALDLFKDKQW-RYTSMNP-TTFRSALKAYAL---------MGLVGEAYRLFLSME  174 (373)
Q Consensus       113 ~~~--~~li~~~~~~g-----~~~~A~~l~~~m~~-~g~~p~~-~t~~~ll~~~~~---------~g~~~~a~~~~~~m~  174 (373)
                      ..|  ...+.+....-     ..+.|+.+|.+... ..+.|+- ..|..+..++..         ..+..+|.++-+...
T Consensus       252 ~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv  331 (458)
T PRK11906        252 NHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS  331 (458)
T ss_pred             cchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH
Confidence            556  55565554421     23567778888762 2345543 333333222211         223445555555554


Q ss_pred             HHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          175 EVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP-LIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       175 ~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +   +.| |...-..+..++.-.|+.+.|..+|+++....||. .+|....-.+.-.|+.++|.+.+++..+++|..
T Consensus       332 e---ld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~  405 (458)
T PRK11906        332 D---ITTVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRR  405 (458)
T ss_pred             h---cCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchh
Confidence            3   333 66666666666677788999999999977788864 455555555666899999999999988888744

>PRK11906 transcriptional regulator; Provisional

Probab=85.55  E-value=34  Score=32.56  Aligned_cols=141  Identities=11%  Similarity=-0.028  Sum_probs=86.1

Q ss_pred             CHHHHHHHHccCC---CCC---hhHHHHHHHHHHh---------CCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 047393           96 KIDDADLAFKSTP---EKN---SLSWTFIISARVN---------HGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALM  160 (373)
Q Consensus        96 ~~~~A~~~~~~m~---~~d---~~~~~~li~~~~~---------~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~  160 (373)
                      ..+.|..+|.+..   +-|   ...|..+..++..         .....+|.++-++..+.+ +-|......+-.+....
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhh
Confidence            3566777787665   333   4444444333321         223345666666666654 45677777777777777


Q ss_pred             CCHHHHHHHHHHhHHHcCCCCCH-hHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHH---HHHHHHHHHHHcCCHHHHH
Q 047393          161 GLVGEAYRLFLSMEEVYHIEPSE-EHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPL---IWRTLLLSSRVHGDMKLAK  236 (373)
Q Consensus       161 g~~~~a~~~~~~m~~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~li~~~~~~g~~~~A~  236 (373)
                      |+.+.|..+|++..   .+.||. .+|...-....-+|+.++|.+.++++++..|...   .....++.|+. ...+.|.
T Consensus       352 ~~~~~a~~~f~rA~---~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~-~~~~~~~  427 (458)
T PRK11906        352 GQAKVSHILFEQAK---IHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVP-NPLKNNI  427 (458)
T ss_pred             cchhhHHHHHHHHh---hcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcC-CchhhhH
Confidence            88999999999874   346654 4444444445568999999999998888777442   22222334443 3556677


Q ss_pred             HHHHH
Q 047393          237 YALDK  241 (373)
Q Consensus       237 ~~~~~  241 (373)
                      ++|-+
T Consensus       428 ~~~~~  432 (458)
T PRK11906        428 KLYYK  432 (458)
T ss_pred             HHHhh
Confidence            66643

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=85.50  E-value=30  Score=31.84  Aligned_cols=223  Identities=11%  Similarity=-0.024  Sum_probs=115.7

Q ss_pred             HHcCCHhHHHHHHHHHHhcC--CCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHc--CCCCc---hhHHHHHHHHhHhc
Q 047393           22 IKAKDYEMVHELLERIQLCC--GFIDSYSICDILNSCLNPILLNVGTQAQAYMTKR--GLISH---PAVGNCLININSRC   94 (373)
Q Consensus        22 ~~~g~~~~A~~l~~~m~~~g--~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--g~~~~---~~~~~~li~~~~~~   94 (373)
                      .+..+.++|+..|.+-...-  ..---.+|..+..+.++.|..++++..--.-++.  .....   ...|-.|-.++-+-
T Consensus        17 y~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l   96 (518)
T KOG1941|consen   17 YQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKL   96 (518)
T ss_pred             hcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            45667777777776655420  0111134555666667766666554322111110  00111   22333444444444


Q ss_pred             CCHHHHHHHHccC---C---CC-C-hhHHHHHHHHHHhCCChHHHHHHHHHHHHcC-----CCCCHHHHHHHHHHHHccC
Q 047393           95 GKIDDADLAFKST---P---EK-N-SLSWTFIISARVNHGHPSEALDLFKDKQWRY-----TSMNPTTFRSALKAYALMG  161 (373)
Q Consensus        95 g~~~~A~~~~~~m---~---~~-d-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-----~~p~~~t~~~ll~~~~~~g  161 (373)
                      .++.+++.+=..-   +   .. + -...-++-.++.-.+.++++++.|+...+--     -......|..+-..|.+..
T Consensus        97 ~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~  176 (518)
T KOG1941|consen   97 CEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLK  176 (518)
T ss_pred             HHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHH
Confidence            4444444332211   1   10 1 1222335556666677888888887764421     1123457777777788888


Q ss_pred             CHHHHHHHHHHhH---HHcCCCCCHhHHH-----HHHHHHHhcCCHHHHHHHHHhhCC---CCCC----HHHHHHHHHHH
Q 047393          162 LVGEAYRLFLSME---EVYHIEPSEEHYS-----IMVEALGRAGMFEEVLEFIKGIVP---GKLC----PLIWRTLLLSS  226 (373)
Q Consensus       162 ~~~~a~~~~~~m~---~~~g~~p~~~~~~-----~li~~~~~~g~~~~A~~~~~~~~~---~~p~----~~~~~~li~~~  226 (373)
                      +.++|.-+.....   +.+++.-=..-|.     .|.-++...|++.+|.+.-+++++   ..-|    ....-.+.+.|
T Consensus       177 D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIy  256 (518)
T KOG1941|consen  177 DYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIY  256 (518)
T ss_pred             hhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHH
Confidence            8887765544332   2223221111222     233456667888888888777665   1123    24555667778


Q ss_pred             HHcCCHHHHHHHHHHHhc
Q 047393          227 RVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       227 ~~~g~~~~A~~~~~~m~~  244 (373)
                      ...|+.|.|..-|+....
T Consensus       257 R~~gd~e~af~rYe~Am~  274 (518)
T KOG1941|consen  257 RSRGDLERAFRRYEQAMG  274 (518)
T ss_pred             HhcccHhHHHHHHHHHHH
Confidence            888888888777776544

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=85.25  E-value=12  Score=29.65  Aligned_cols=19  Identities=16%  Similarity=0.284  Sum_probs=8.6

Q ss_pred             HhCCChHHHHHHHHHHHHc
Q 047393          123 VNHGHPSEALDLFKDKQWR  141 (373)
Q Consensus       123 ~~~g~~~~A~~l~~~m~~~  141 (373)
                      ...|+|++|..+|++..+.
T Consensus        55 i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        55 IARGNYDEAARILRELLSS   73 (153)
T ss_pred             HHcCCHHHHHHHHHhhhcc
Confidence            3344444444444444433

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>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=85.20  E-value=19  Score=29.28  Aligned_cols=124  Identities=16%  Similarity=0.057  Sum_probs=85.0

Q ss_pred             CCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHH
Q 047393            8 SDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCL   87 (373)
Q Consensus         8 ~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l   87 (373)
                      .|+...|..+|..+.+.|++...    .++...++-||.......+-.+..  ....+.++=-+|.++=    ...+..+
T Consensus        26 ~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkRL----~~~~~~i   95 (167)
T PF07035_consen   26 PVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKRL----GTAYEEI   95 (167)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHHh----hhhHHHH
Confidence            36667999999999999987665    456667777777766655544443  3344555555554430    1256678


Q ss_pred             HHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHc
Q 047393           88 ININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWR  141 (373)
Q Consensus        88 i~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~  141 (373)
                      +..+...|++-+|.+..+....-+...-..++.+-.+.++..-=..+|+-..++
T Consensus        96 ievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   96 IEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             HHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            888999999999999998876555556666777777777766555555555443

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=85.16  E-value=9.9  Score=31.78  Aligned_cols=75  Identities=5%  Similarity=-0.129  Sum_probs=51.6

Q ss_pred             HcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCC-------CCChhHHHHHHHHHHhCCCh
Q 047393           56 CLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTP-------EKNSLSWTFIISARVNHGHP  128 (373)
Q Consensus        56 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~-------~~d~~~~~~li~~~~~~g~~  128 (373)
                      ..+.|+ ++|.+.|-.+...+.--++...-+|...|.+ .+.++|..++-+..       +.|+..+.+|++.|.+.|++
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~k-rD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQYALATYYTK-RDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHc-cCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            455555 5677777777777766666677777766664 45677766665432       34778888888888888888


Q ss_pred             HHHH
Q 047393          129 SEAL  132 (373)
Q Consensus       129 ~~A~  132 (373)
                      +.|.
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            8774

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.97  E-value=24  Score=30.35  Aligned_cols=156  Identities=13%  Similarity=0.119  Sum_probs=74.4

Q ss_pred             HcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHH
Q 047393           56 CLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLF  135 (373)
Q Consensus        56 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~  135 (373)
                      ++-.+.+++|-+++.+.-.. + .=...|+.-..+|++.     |.-..+.-.+.|..+-..-..-+.+.+++++|.+.+
T Consensus        24 fgg~~k~eeAadl~~~Aan~-y-klaK~w~~AG~aflka-----A~~h~k~~skhDaat~YveA~~cykk~~~~eAv~cL   96 (288)
T KOG1586|consen   24 FGGSNKYEEAAELYERAANM-Y-KLAKNWSAAGDAFLKA-----ADLHLKAGSKHDAATTYVEAANCYKKVDPEEAVNCL   96 (288)
T ss_pred             cCCCcchHHHHHHHHHHHHH-H-HHHHhHHHHHHHHHHH-----HHHHHhcCCchhHHHHHHHHHHHhhccChHHHHHHH
Confidence            34445778888777664210 0 0011233333333321     111111112334433333333344555777777766


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC
Q 047393          136 KDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC  215 (373)
Q Consensus       136 ~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  215 (373)
                      +..               |..|...|++..|-+...++-+-+  ..+..-+..-|..|-      .|-++|.. -+  .+
T Consensus        97 ~~a---------------ieIyt~~Grf~~aAk~~~~iaEiy--Esdl~d~ekaI~~YE------~Aae~yk~-ee--s~  150 (288)
T KOG1586|consen   97 EKA---------------IEIYTDMGRFTMAAKHHIEIAEIY--ESDLQDFEKAIAHYE------QAAEYYKG-EE--SV  150 (288)
T ss_pred             HHH---------------HHHHHhhhHHHHHHhhhhhHHHHH--hhhHHHHHHHHHHHH------HHHHHHcc-hh--hh
Confidence            543               456677777777776666654432  334344444444433      34444433 11  11


Q ss_pred             HHHHHHHHH---HHHHcCCHHHHHHHHHHHhc
Q 047393          216 PLIWRTLLL---SSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       216 ~~~~~~li~---~~~~~g~~~~A~~~~~~m~~  244 (373)
                      ...--++++   --+..+++.+|+++|+++..
T Consensus       151 ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~  182 (288)
T KOG1586|consen  151 SSANKCLLKVAQYAAQLEQYSKAIDIYEQVAR  182 (288)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            111112222   22456788888888888876

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=84.77  E-value=1.1  Score=25.06  Aligned_cols=26  Identities=19%  Similarity=0.402  Sum_probs=12.3

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhCC
Q 047393          186 YSIMVEALGRAGMFEEVLEFIKGIVP  211 (373)
Q Consensus       186 ~~~li~~~~~~g~~~~A~~~~~~~~~  211 (373)
                      +..+-..+.+.|++++|.+.|++++.
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            33444455555555555555555433

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.73  E-value=3.4  Score=36.88  Aligned_cols=98  Identities=8%  Similarity=-0.030  Sum_probs=58.0

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcC---CCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCC---GFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGN   85 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g---~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~   85 (373)
                      ..+++-..++..-.+..+++.+...+-+++...   ..|+.. -.++++.|.+ -+++++..++..=+..|+-||..+++
T Consensus        62 ~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~-~~~~irlllk-y~pq~~i~~l~npIqYGiF~dqf~~c  139 (418)
T KOG4570|consen   62 VSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWT-IHTWIRLLLK-YDPQKAIYTLVNPIQYGIFPDQFTFC  139 (418)
T ss_pred             cceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhcccc-HHHHHHHHHc-cChHHHHHHHhCcchhccccchhhHH
Confidence            344444555554455666777777666665421   122222 1223333332 25567777777777778888888888


Q ss_pred             HHHHHhHhcCCHHHHHHHHccCC
Q 047393           86 CLININSRCGKIDDADLAFKSTP  108 (373)
Q Consensus        86 ~li~~~~~~g~~~~A~~~~~~m~  108 (373)
                      .+|+.+.+.+++.+|.++.-.|.
T Consensus       140 ~l~D~flk~~n~~~aa~vvt~~~  162 (418)
T KOG4570|consen  140 LLMDSFLKKENYKDAASVVTEVM  162 (418)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHH
Confidence            88888888888777776665544

>KOG2297 consensus Predicted translation factor, contains W2 domain [Translation, ribosomal structure and biogenesis]

Probab=84.68  E-value=29  Score=31.06  Aligned_cols=69  Identities=14%  Similarity=0.089  Sum_probs=36.3

Q ss_pred             cCCHHHHHHHHHHhHHHcCCCCCH----hHHHHHHHHHHhcCCHHHHHHHHHh-hCCCCCCHHHHHHHHHHHHHcCCHHH
Q 047393          160 MGLVGEAYRLFLSMEEVYHIEPSE----EHYSIMVEALGRAGMFEEVLEFIKG-IVPGKLCPLIWRTLLLSSRVHGDMKL  234 (373)
Q Consensus       160 ~g~~~~a~~~~~~m~~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~-~~~~~p~~~~~~~li~~~~~~g~~~~  234 (373)
                      ...+++.....++-.++.++ |+.    ..|.+++++---    .+-.++... ++   ....+|.-|+.+++..|+.+.
T Consensus       268 e~p~~evi~~VKee~k~~nl-Pe~eVi~ivWs~iMsaveW----nKkeelva~qal---rhlK~yaPLL~af~s~g~sEL  339 (412)
T KOG2297|consen  268 EDPVKEVILYVKEEMKRNNL-PETEVIGIVWSGIMSAVEW----NKKEELVAEQAL---RHLKQYAPLLAAFCSQGQSEL  339 (412)
T ss_pred             CCCHHHHHHHHHHHHHhcCC-CCceEEeeeHhhhhHHHhh----chHHHHHHHHHH---HHHHhhhHHHHHHhcCChHHH
Confidence            33444444444433344343 444    355565554433    332222221 11   134578999999999999875


Q ss_pred             HH
Q 047393          235 AK  236 (373)
Q Consensus       235 A~  236 (373)
                      ..
T Consensus       340 ~L  341 (412)
T KOG2297|consen  340 EL  341 (412)
T ss_pred             HH
Confidence            44

>smart00028 TPR Tetratricopeptide repeats

Probab=84.39  E-value=2.1  Score=22.49  Aligned_cols=31  Identities=32%  Similarity=0.221  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          218 IWRTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       218 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      .|..+...+...|+++.|...++..+++.|+
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~   33 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKALELDPN   33 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHccCCC
Confidence            4556666677777777777777777666553

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>PF14669 Asp_Glu_race_2: Putative aspartate racemase

Probab=84.33  E-value=22  Score=29.46  Aligned_cols=93  Identities=12%  Similarity=0.106  Sum_probs=52.6

Q ss_pred             ccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCC-----
Q 047393          105 KSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHI-----  179 (373)
Q Consensus       105 ~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~-----  179 (373)
                      ++-+++-.+.|.....+-++.-+.+++-+.+          =...=.+++..|-+.-++.++.++++.|.+ ..+     
T Consensus       100 kd~Kdk~~vPFceFAetV~k~~q~~e~dK~~----------LGRiGiS~m~~Yhk~~qW~KGrkvLd~l~e-l~i~ft~L  168 (233)
T PF14669_consen  100 KDSKDKPGVPFCEFAETVCKDPQNDEVDKTL----------LGRIGISLMYSYHKTLQWSKGRKVLDKLHE-LQIHFTSL  168 (233)
T ss_pred             hcccccCCCCHHHHHHHHhcCCccchhhhhh----------hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-Hhhhhhhc
Confidence            3333444555665665555554444433322          112334566677788888888888887733 222     


Q ss_pred             ---------CCCHhHHHHHHHHHHhcCCHHHHHHHHHh
Q 047393          180 ---------EPSEEHYSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       180 ---------~p~~~~~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                               .+--...|.....+.+.|.+|.|..++++
T Consensus       169 KGL~g~e~~asrCqivn~AaEiFL~sgsidGA~~vLre  206 (233)
T PF14669_consen  169 KGLTGPEKLASRCQIVNIAAEIFLKSGSIDGALWVLRE  206 (233)
T ss_pred             cCccCccccCchhhhHHHHHHHHHHcCCchHHHHHHhc
Confidence                     23334556666666666666666666665

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=84.12  E-value=2.6  Score=24.61  Aligned_cols=27  Identities=22%  Similarity=0.286  Sum_probs=14.5

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHH
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQ  139 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~  139 (373)
                      .+++.|...|...|++++|..++++..
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            345555555555666666655555543

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=83.71  E-value=6.6  Score=28.79  Aligned_cols=60  Identities=7%  Similarity=-0.019  Sum_probs=38.7

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           29 MVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        29 ~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      +..+-++.+....+.|++....+.+++|.|.+++..|.++++-.+.. +.+....|..++.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHH
Confidence            44555566666678888888888889999999999998888887443 2233336766654

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>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=83.44  E-value=32  Score=30.55  Aligned_cols=218  Identities=11%  Similarity=-0.012  Sum_probs=121.2

Q ss_pred             HHcCCHhHHHHHHHHHHhcC--CCCCHH------HHHHHHHHHcCCCchHHHHHHHHHHHHc--------CCCCc-----
Q 047393           22 IKAKDYEMVHELLERIQLCC--GFIDSY------SICDILNSCLNPILLNVGTQAQAYMTKR--------GLISH-----   80 (373)
Q Consensus        22 ~~~g~~~~A~~l~~~m~~~g--~~p~~~------~~~~ll~~~~~~~~~~~a~~~~~~m~~~--------g~~~~-----   80 (373)
                      .+.|+++.|..++.+....-  ..|+..      .|+.-...+.+..+++.|..++++..+.        ...|+     
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            46899999999999987642  334432      2333333333333888887777765433        22233     


Q ss_pred             hhHHHHHHHHhHhcCCHH---HHHHHHccCCC--CC-hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 047393           81 PAVGNCLININSRCGKID---DADLAFKSTPE--KN-SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSAL  154 (373)
Q Consensus        81 ~~~~~~li~~~~~~g~~~---~A~~~~~~m~~--~d-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll  154 (373)
                      ..+...++.+|...+..+   +|.++++.+..  |+ +..+-.-+..+.+.++.+++.+.+.+|...- .-....+..++
T Consensus        84 ~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~~~l  162 (278)
T PF08631_consen   84 LSILRLLANAYLEWDTYESVEKALNALRLLESEYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFDSIL  162 (278)
T ss_pred             HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHHHHH
Confidence            346677888888877755   45555555532  33 5566566777777899999999999998762 21333444444


Q ss_pred             H---HHHccCCHHHHHHHHHHhHHHcCCCCCHh-HHH-HHHHH-HH--hc------CCHHHHHHHHHhh---CCCCCCHH
Q 047393          155 K---AYALMGLVGEAYRLFLSMEEVYHIEPSEE-HYS-IMVEA-LG--RA------GMFEEVLEFIKGI---VPGKLCPL  217 (373)
Q Consensus       155 ~---~~~~~g~~~~a~~~~~~m~~~~g~~p~~~-~~~-~li~~-~~--~~------g~~~~A~~~~~~~---~~~~p~~~  217 (373)
                      .   -+..... ..|...+..+... .+.|... ... .++.. +.  +.      ++++...++++..   .....+..
T Consensus       163 ~~i~~l~~~~~-~~a~~~ld~~l~~-r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~  240 (278)
T PF08631_consen  163 HHIKQLAEKSP-ELAAFCLDYLLLN-RFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAE  240 (278)
T ss_pred             HHHHHHHhhCc-HHHHHHHHHHHHH-HhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHH
Confidence            4   3344444 3444555444333 3344332 111 12211 11  11      1244555555531   11122332


Q ss_pred             --------HHHHHHHHHHHcCCHHHHHHHHHHHh
Q 047393          218 --------IWRTLLLSSRVHGDMKLAKYALDKLL  243 (373)
Q Consensus       218 --------~~~~li~~~~~~g~~~~A~~~~~~m~  243 (373)
                              .|+. ...+.+.++++.|.+.|+-..
T Consensus       241 ~~~a~~~LLW~~-~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  241 AASAIHTLLWNK-GKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHH-HHHHHhhcCHHHHHHHHHHHH
Confidence                    3443 345667889999999988543

It is also involved in sporulation [].

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.58  E-value=33  Score=33.71  Aligned_cols=149  Identities=15%  Similarity=0.091  Sum_probs=79.6

Q ss_pred             HcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHH
Q 047393           23 KAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADL  102 (373)
Q Consensus        23 ~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  102 (373)
                      -.|+++.|..++-...       ...-+.+..-+.+.|-.++|+++-       ..||. -|    ....+.|+++.|.+
T Consensus       598 mrrd~~~a~~vLp~I~-------k~~rt~va~Fle~~g~~e~AL~~s-------~D~d~-rF----elal~lgrl~iA~~  658 (794)
T KOG0276|consen  598 LRRDLEVADGVLPTIP-------KEIRTKVAHFLESQGMKEQALELS-------TDPDQ-RF----ELALKLGRLDIAFD  658 (794)
T ss_pred             hhccccccccccccCc-------hhhhhhHHhHhhhccchHhhhhcC-------CChhh-hh----hhhhhcCcHHHHHH
Confidence            3566666655433222       223344445555555555554332       12221 11    22345677777776


Q ss_pred             HHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC
Q 047393          103 AFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS  182 (373)
Q Consensus       103 ~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~  182 (373)
                      +..+.  .+..-|..|..+..+.|++..|.+.|.+...         |..|+-.+.-.|+-+....+=+...++ |. -|
T Consensus       659 la~e~--~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~-g~-~N  725 (794)
T KOG0276|consen  659 LAVEA--NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQ-GK-NN  725 (794)
T ss_pred             HHHhh--cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhh-cc-cc
Confidence            65443  3556677777777777777777777765432         344555555666655444444444333 32 22


Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHHh
Q 047393          183 EEHYSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       183 ~~~~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                           .-.-+|...|+++++.+++.+
T Consensus       726 -----~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  726 -----LAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             -----hHHHHHHHcCCHHHHHHHHHh
Confidence                 223345566777777777766

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=82.48  E-value=4  Score=36.89  Aligned_cols=86  Identities=16%  Similarity=0.037  Sum_probs=54.9

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhc-
Q 047393          119 ISARVNHGHPSEALDLFKDKQWRYTSM-NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRA-  196 (373)
Q Consensus       119 i~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~-  196 (373)
                      .+.|.+.|.+++|++.|.+-...  .| |.+++..-..+|.+...+..|+.=......         .-...+.+|.|. 
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Aia---------Ld~~Y~KAYSRR~  172 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIA---------LDKLYVKAYSRRM  172 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHH---------hhHHHHHHHHHHH
Confidence            45678888888888888765543  56 788888888888888887766544443321         112334455543 


Q ss_pred             ------CCHHHHHHHHHhhCCCCCC
Q 047393          197 ------GMFEEVLEFIKGIVPGKLC  215 (373)
Q Consensus       197 ------g~~~~A~~~~~~~~~~~p~  215 (373)
                            |+..+|.+=++.+++++|+
T Consensus       173 ~AR~~Lg~~~EAKkD~E~vL~LEP~  197 (536)
T KOG4648|consen  173 QARESLGNNMEAKKDCETVLALEPK  197 (536)
T ss_pred             HHHHHHhhHHHHHHhHHHHHhhCcc
Confidence                  5555565555555556676

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=81.81  E-value=25  Score=33.68  Aligned_cols=92  Identities=14%  Similarity=0.100  Sum_probs=65.6

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhh
Q 047393          130 EALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGI  209 (373)
Q Consensus       130 ~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  209 (373)
                      ....+|+....+ ..-|...|..-+..|-+.+.+.+...+|.+|...++-.||..+|.+.-. |-..-+++.|..+|.+.
T Consensus        89 rIv~lyr~at~r-f~~D~~lW~~yi~f~kk~~~~~~v~ki~~~~l~~Hp~~~dLWI~aA~we-fe~n~ni~saRalflrg  166 (568)
T KOG2396|consen   89 RIVFLYRRATNR-FNGDVKLWLSYIAFCKKKKTYGEVKKIFAAMLAKHPNNPDLWIYAAKWE-FEINLNIESARALFLRG  166 (568)
T ss_pred             HHHHHHHHHHHh-cCCCHHHHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCchhHHhhhhhH-HhhccchHHHHHHHHHH
Confidence            344555555443 3448888999998888888899999999999988888888777765443 33344489999999887


Q ss_pred             CCCCCC-HHHHHHHH
Q 047393          210 VPGKLC-PLIWRTLL  223 (373)
Q Consensus       210 ~~~~p~-~~~~~~li  223 (373)
                      ++..|+ +..|-...
T Consensus       167 LR~npdsp~Lw~eyf  181 (568)
T KOG2396|consen  167 LRFNPDSPKLWKEYF  181 (568)
T ss_pred             hhcCCCChHHHHHHH
Confidence            887775 44444433

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=81.73  E-value=52  Score=31.79  Aligned_cols=202  Identities=10%  Similarity=0.060  Sum_probs=115.5

Q ss_pred             CCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC---CChhHHHHHHH
Q 047393           44 IDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE---KNSLSWTFIIS  120 (373)
Q Consensus        44 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~  120 (373)
                      .|.....+++..+++...+.-++.+-.+|...|  -+...|-.++..|..+ .-+.-..+++++.+   .|++--..|..
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfnDvv~~ReLa~  140 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFNDVVIGRELAD  140 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcchhHHHHHHHHH
Confidence            355566677777777777777777777777665  4566677777777776 44555666665443   23444444444


Q ss_pred             HHHhCCChHHHHHHHHHHHHcCCC-----CCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHh
Q 047393          121 ARVNHGHPSEALDLFKDKQWRYTS-----MNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGR  195 (373)
Q Consensus       121 ~~~~~g~~~~A~~l~~~m~~~g~~-----p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~  195 (373)
                      -|-+ ++.+.+...|.+...+=++     .-...|.-+...  -..+.+....+...+....|...-...+.-+-.-|..
T Consensus       141 ~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~  217 (711)
T COG1747         141 KYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSE  217 (711)
T ss_pred             HHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhcc
Confidence            4444 6666666667666544211     011234444332  1345666666666666665555555666666666777


Q ss_pred             cCCHHHHHHHHHhhCC-CCCCHHHHHHHHHHHHH--------------------cCCHHHHHHHHHHHhccCCCCcc
Q 047393          196 AGMFEEVLEFIKGIVP-GKLCPLIWRTLLLSSRV--------------------HGDMKLAKYALDKLLELDPGMYV  251 (373)
Q Consensus       196 ~g~~~~A~~~~~~~~~-~~p~~~~~~~li~~~~~--------------------~g~~~~A~~~~~~m~~~~P~~y~  251 (373)
                      ..++++|.+++...++ -..|.-.-..++.-+..                    -.++.++..=|+.....+..+|+
T Consensus       218 ~eN~~eai~Ilk~il~~d~k~~~ar~~~i~~lRd~y~~~~~~e~yl~~s~i~~~~rnf~~~l~dFek~m~f~eGnFV  294 (711)
T COG1747         218 NENWTEAIRILKHILEHDEKDVWARKEIIENLRDKYRGHSQLEEYLKISNISQSGRNFFEALNDFEKLMHFDEGNFV  294 (711)
T ss_pred             ccCHHHHHHHHHHHhhhcchhhhHHHHHHHHHHHHhccchhHHHHHHhcchhhccccHHHHHHHHHHHheeccCceE
Confidence            7777777777776444 12233333334443332                    33566666667776666655533

>PRK09687 putative lyase; Provisional

Probab=81.60  E-value=38  Score=30.16  Aligned_cols=226  Identities=12%  Similarity=-0.091  Sum_probs=152.5

Q ss_pred             CCCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCch----HHHHHHHHHHHHcCCCCchh
Q 047393            7 ISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILL----NVGTQAQAYMTKRGLISHPA   82 (373)
Q Consensus         7 ~~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~----~~a~~~~~~m~~~g~~~~~~   82 (373)
                      ..+|....-..+.++...|. .++...+..+..   .+|...-...+.++++.|+.    .++...+..+...  .++..
T Consensus        33 ~d~d~~vR~~A~~aL~~~~~-~~~~~~l~~ll~---~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~  106 (280)
T PRK09687         33 DDHNSLKRISSIRVLQLRGG-QDVFRLAIELCS---SKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSAC  106 (280)
T ss_pred             hCCCHHHHHHHHHHHHhcCc-chHHHHHHHHHh---CCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHH
Confidence            35778788888888988886 445555555554   35666666777778888763    5677777766433  46666


Q ss_pred             HHHHHHHHhHhcCC-----HHHHHHHHcc-CCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 047393           83 VGNCLININSRCGK-----IDDADLAFKS-TPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKA  156 (373)
Q Consensus        83 ~~~~li~~~~~~g~-----~~~A~~~~~~-m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~  156 (373)
                      +-...+.++...+.     ...+...+.. +..++..+-...+.++++.|+ .+|...+-.+.+.   +|...-...+.+
T Consensus       107 VR~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~D~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d---~~~~VR~~A~~a  182 (280)
T PRK09687        107 VRASAINATGHRCKKNPLYSPKIVEQSQITAFDKSTNVRFAVAFALSVIND-EAAIPLLINLLKD---PNGDVRNWAAFA  182 (280)
T ss_pred             HHHHHHHHHhcccccccccchHHHHHHHHHhhCCCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC---CCHHHHHHHHHH
Confidence            66666666665542     2334444433 345577777778888888886 5677777777753   566666777777


Q ss_pred             HHccC-CHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 047393          157 YALMG-LVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLA  235 (373)
Q Consensus       157 ~~~~g-~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A  235 (373)
                      +++.+ ....+...+..+..    .++..+....+.++++.|.. .|...+-+.+. .+++  ....+.++...|.. +|
T Consensus       183 Lg~~~~~~~~~~~~L~~~L~----D~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~-~~~~--~~~a~~ALg~ig~~-~a  253 (280)
T PRK09687        183 LNSNKYDNPDIREAFVAMLQ----DKNEEIRIEAIIGLALRKDK-RVLSVLIKELK-KGTV--GDLIIEAAGELGDK-TL  253 (280)
T ss_pred             HhcCCCCCHHHHHHHHHHhc----CCChHHHHHHHHHHHccCCh-hHHHHHHHHHc-CCch--HHHHHHHHHhcCCH-hH
Confidence            77653 23355666655543    56778888899999999985 56666655466 4443  45678999999995 68


Q ss_pred             HHHHHHHhccCCCCcc
Q 047393          236 KYALDKLLELDPGMYV  251 (373)
Q Consensus       236 ~~~~~~m~~~~P~~y~  251 (373)
                      ...+..+.+..||.++
T Consensus       254 ~p~L~~l~~~~~d~~v  269 (280)
T PRK09687        254 LPVLDTLLYKFDDNEI  269 (280)
T ss_pred             HHHHHHHHhhCCChhH
Confidence            9999999887776633

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=81.20  E-value=25  Score=27.70  Aligned_cols=80  Identities=9%  Similarity=-0.081  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCC---CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           13 PWNLLLKACIKAKDYEMVHELLERIQLCCGFI---DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        13 ~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p---~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      .+..-.....+.|++++|.+.|+.+..+ .+.   ....-..++.++-+.+++++|...+++.++..-.--..-|-..+.
T Consensus        12 ~ly~~a~~~l~~~~Y~~A~~~le~L~~r-yP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~   90 (142)
T PF13512_consen   12 ELYQEAQEALQKGNYEEAIKQLEALDTR-YPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMR   90 (142)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhc-CCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHH
Confidence            3333444456788888888888888764 222   234455677788888888888888888877653222334444444


Q ss_pred             HhHh
Q 047393           90 INSR   93 (373)
Q Consensus        90 ~~~~   93 (373)
                      +++.
T Consensus        91 gL~~   94 (142)
T PF13512_consen   91 GLSY   94 (142)
T ss_pred             HHHH
Confidence            4443

>PRK09687 putative lyase; Provisional

Probab=81.16  E-value=40  Score=30.06  Aligned_cols=186  Identities=11%  Similarity=0.016  Sum_probs=102.8

Q ss_pred             CCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCC----HHHHHHHHccC--CCCChhHHHH
Q 047393           44 IDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGK----IDDADLAFKST--PEKNSLSWTF  117 (373)
Q Consensus        44 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~----~~~A~~~~~~m--~~~d~~~~~~  117 (373)
                      +|.......+.++...|..+ +...+..+.+   .+|...-...+.++++.|+    .+++...+..+  ..++...-..
T Consensus        35 ~d~~vR~~A~~aL~~~~~~~-~~~~l~~ll~---~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~D~d~~VR~~  110 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGGQD-VFRLAIELCS---SKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALEDKSACVRAS  110 (280)
T ss_pred             CCHHHHHHHHHHHHhcCcch-HHHHHHHHHh---CCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhcCCCHHHHHH
Confidence            56666666667776666533 3333333333   3455555556666666665    24566666655  4566666666


Q ss_pred             HHHHHHhCCCh-----HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHH
Q 047393          118 IISARVNHGHP-----SEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEA  192 (373)
Q Consensus       118 li~~~~~~g~~-----~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~  192 (373)
                      .+.+++..+..     .++.+.+.....   .++..+=...+.++++.|+. .+...+-.+.+    .+|..+-...+.+
T Consensus       111 A~~aLG~~~~~~~~~~~~a~~~l~~~~~---D~~~~VR~~a~~aLg~~~~~-~ai~~L~~~L~----d~~~~VR~~A~~a  182 (280)
T PRK09687        111 AINATGHRCKKNPLYSPKIVEQSQITAF---DKSTNVRFAVAFALSVINDE-AAIPLLINLLK----DPNGDVRNWAAFA  182 (280)
T ss_pred             HHHHHhcccccccccchHHHHHHHHHhh---CCCHHHHHHHHHHHhccCCH-HHHHHHHHHhc----CCCHHHHHHHHHH
Confidence            66666655421     233333333332   33555556677777777764 44444444433    3455555666666


Q ss_pred             HHhcC-CHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 047393          193 LGRAG-MFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLL  243 (373)
Q Consensus       193 ~~~~g-~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  243 (373)
                      +++.+ ....+...+..++. .++..+-...+.++.+.|+. .|...+-...
T Consensus       183 Lg~~~~~~~~~~~~L~~~L~-D~~~~VR~~A~~aLg~~~~~-~av~~Li~~L  232 (280)
T PRK09687        183 LNSNKYDNPDIREAFVAMLQ-DKNEEIRIEAIIGLALRKDK-RVLSVLIKEL  232 (280)
T ss_pred             HhcCCCCCHHHHHHHHHHhc-CCChHHHHHHHHHHHccCCh-hHHHHHHHHH
Confidence            66653 23456666655454 66666667777777777764 3444433333

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=80.29  E-value=13  Score=23.74  Aligned_cols=29  Identities=28%  Similarity=0.383  Sum_probs=24.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          221 TLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       221 ~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      -+.-++.+.|++++|.+..+.+.+++|++
T Consensus         6 ~lAig~ykl~~Y~~A~~~~~~lL~~eP~N   34 (53)
T PF14853_consen    6 YLAIGHYKLGEYEKARRYCDALLEIEPDN   34 (53)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHHTTS-
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhhCCCc
Confidence            45668899999999999999999999866

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	373
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-07
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-06

>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 = 52.5 bits (125), Expect = 1e-07
 Identities = 62/413 (15%), Positives = 120/413 (29%), Gaps = 134/413 (32%)

Query: 11  EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQA 70
           +I W       +  K+      +LE +Q     ID        +S    + ++       
Sbjct: 183 KIFW-------LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE-- 233

Query: 71  YMTKRGLISHPAVGNCLI---NINS---------RCGKI----------DDADLAFKSTP 108
               R L+      NCL+   N+ +          C KI          D    A  +  
Sbjct: 234 ---LRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC-KILLTTRFKQVTDFLSAATTTHI 289

Query: 109 EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTF-RSALKAYAL-MGLVGEA 166
             +  S T           P E   L      +Y    P    R  L      + ++ E+
Sbjct: 290 SLDHHSMTL---------TPDEVKSLLL----KYLDCRPQDLPREVLTTNPRRLSIIAES 336

Query: 167 YRLFLSMEEVY-HIEPSEEHYSIM---VEALGRA---GMFEEVLEFIKGI-VPGKLCPLI 218
            R  L+  + + H+   ++  +I+   +  L  A    MF+ +  F     +P  L  LI
Sbjct: 337 IRDGLATWDNWKHVN-CDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLI 395

Query: 219 W-----------------RTLL------LSSRVHG---DMKL---AKYAL-DKLLE---- 244
           W                  +L+       +  +     ++K+    +YAL   +++    
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNI 455

Query: 245 ---LDPG--------MYVGCWI----------E--------------IQNKIYEFVSNEE 269
               D           Y    I          E              ++ KI    +   
Sbjct: 456 PKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWN 515

Query: 270 LTSEVSDKLAEIEENMKELGFVLNRSLYQTKMKAVALGLISFPHGMPTRVIKS 322
            +  + + L +++          N   Y+  + A    ++ F   +   +I S
Sbjct: 516 ASGSILNTLQQLKFYKPY--ICDNDPKYERLVNA----ILDFLPKIEENLICS 562

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 47.9 bits (112), Expect = 4e-06
 Identities = 10/90 (11%), Positives = 30/90 (33%), Gaps = 4/90 (4%)

Query: 118 IISARVNHGHPSEA---LDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSME 174
                +       A   L +   ++ +   +    + + +  +A  G   E   +   ++
Sbjct: 133 FFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVK 192

Query: 175 EVYHIEPSEEHYSIMVEALGRAGMFEEVLE 204
           +   + P    Y+  ++ +GR       +E
Sbjct: 193 D-AGLTPDLLSYAAALQCMGRQDQDAGTIE 221

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	373
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.93
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.92
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.83
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.82
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.82
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.8
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.79
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.79
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.76
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.76
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.74
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.73
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.72
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.71
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.7
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.69
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.68
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.67
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.67
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.66
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.66
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.65
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.63
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.63
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.62
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.62
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.62
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.61
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.61
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.6
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.6
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.59
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.59
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.59
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.59
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.58
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.57
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.54
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.51
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.49
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.49
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.47
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.47
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.44
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.43
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.41
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.41
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.38
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.34
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.32
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.32
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.31
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.31
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.31
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.29
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.29
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.27
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.27
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.25
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.25
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.24
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.23
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.21
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.2
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.19
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.18
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.18
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.18
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.16
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.16
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.15
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.14
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.13
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.13
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.12
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.1
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.08
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.07
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.05
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.04
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	98.99
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	98.98
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	98.97
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	98.96
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.94
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.94
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.91
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.9
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.9
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.9
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.9
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.89
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.89
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.88
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.87
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.87
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.86
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.86
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	98.84
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.83
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.82
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.81
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.78
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.76
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.75
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	98.75
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.73
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.73
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.72
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.71
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.7
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.66
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.66
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.63
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.62
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.62
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.61
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.6
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	98.6
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.6
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.59
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.58
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.57
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.56
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.55
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.54
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.52
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.5
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.49
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.49
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.49
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.48
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.48
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.46
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.46
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.46
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.43
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.4
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.38
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.37
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.37
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.37
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.37
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.36
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.35
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.35
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.34
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.34
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.34
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.31
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.3
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.29
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.28
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.28
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.27
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.25
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.22
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.21
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.21
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.2
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.2
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.19
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.16
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.16
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.15
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.14
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.12
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.11
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.09
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.09
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.08
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.06
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.05
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.03
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.0
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.0
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	97.99
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.98
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.97
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.95
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.88
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	97.86
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.85
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.79
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.78
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.73
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.71
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.68
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.62
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.62
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.59
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.54
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.51
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.48
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	97.46
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.41
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.36
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.36
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.3
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.29
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.24
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.19
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.16
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.16
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.08
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	97.05
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.0
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	96.96
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.95
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.83
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.7
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.68
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.61
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.58
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.43
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.3
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.3
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.87
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.69
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.29
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.15
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.9
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	94.5
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	93.81
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	93.75
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	93.73
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	92.22
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	91.81
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	91.76
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	91.35
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	91.16
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	91.03
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	90.93
2p58_C	116	Putative type III secretion protein YSCG; type III	90.68
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	89.44
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	89.31
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	88.72
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	87.89
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	87.52
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	87.47
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	86.78
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	86.64
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	86.1
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	83.17
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	82.67
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	80.31

>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=1.1e-33  Score=270.97  Aligned_cols=185  Identities=12%  Similarity=0.053  Sum_probs=176.3

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCc---------hHHHHHHHHHHHHcCCCCch
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPIL---------LNVGTQAQAYMTKRGLISHP   81 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~---------~~~a~~~~~~m~~~g~~~~~   81 (373)
                      ...++.+|++|++.|++++|+++|++|.+.|+.||..|||+||.+|++.+.         +++|.++|++|.+.|+.||.
T Consensus        26 e~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~  105 (501)
T 4g26_A           26 EALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNE  105 (501)
T ss_dssp             HHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCH
Confidence            456889999999999999999999999999999999999999999987654         78999999999999999999


Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHccCC----CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 047393           82 AVGNCLININSRCGKIDDADLAFKSTP----EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAY  157 (373)
Q Consensus        82 ~~~~~li~~~~~~g~~~~A~~~~~~m~----~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~  157 (373)
                      .|||+||.+|++.|++++|.++|++|.    .||..|||++|.+|++.|++++|.++|++|.+.|+.||..||+++|++|
T Consensus       106 ~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~  185 (501)
T 4g26_A          106 ATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVS  185 (501)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Confidence            999999999999999999999999997    5899999999999999999999999999999999999999999999999


Q ss_pred             HccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhc
Q 047393          158 ALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRA  196 (373)
Q Consensus       158 ~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~  196 (373)
                      ++.|++++|.+++++|.+. |+.|+..||+.++..|+..
T Consensus       186 ~~~g~~d~A~~ll~~Mr~~-g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          186 MDTKNADKVYKTLQRLRDL-VRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHTTCHHHHHHHHHHHHHH-TSSBCHHHHHHHHHHHHSH
T ss_pred             hhCCCHHHHHHHHHHHHHh-CCCcCHHHHHHHHHHHhcC
Confidence            9999999999999999655 9999999999999999874

>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=1.2e-32  Score=263.74  Aligned_cols=201  Identities=13%  Similarity=0.069  Sum_probs=172.9

Q ss_pred             hHHHHHHHHHHhcCCCCCH-HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCC---------H
Q 047393           28 EMVHELLERIQLCCGFIDS-YSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGK---------I   97 (373)
Q Consensus        28 ~~A~~l~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~---------~   97 (373)
                      ..+..+.+++.+.+..+.+ ..++.+|.+|++.|++++|.++|++|.+.|+.||..|||+||.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            3456667788877776554 45889999999999999999999999999999999999999999988765         7


Q ss_pred             HHHHHHHccCC----CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHh
Q 047393           98 DDADLAFKSTP----EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSM  173 (373)
Q Consensus        98 ~~A~~~~~~m~----~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m  173 (373)
                      ++|.++|++|.    .||.+|||+||.+|++.|++++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M  166 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM  166 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHH
Confidence            89999999996    58999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCC--CCCCHHHHHHHHHHHHHc
Q 047393          174 EEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVP--GKLCPLIWRTLLLSSRVH  229 (373)
Q Consensus       174 ~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~li~~~~~~  229 (373)
                      .+. |+.||..||++||.+|++.|+.++|.++|++|-.  ..|+..||+.++..++..
T Consensus       167 ~~~-G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          167 VES-EVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHT-TCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             Hhc-CCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            665 9999999999999999999999999999999433  789999999999998764

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.93  E-value=7.3e-25  Score=214.81  Aligned_cols=321  Identities=8%  Similarity=-0.060  Sum_probs=228.8

Q ss_pred             CCCCCCCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchh
Q 047393            3 LCSLISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPA   82 (373)
Q Consensus         3 f~~m~~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~   82 (373)
                      |+.+|.+++..|+.++..|.+.|++++|+++|++|..  ..||..++..++.+|.+.|++++|..+|+.+...  +++..
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~  151 (597)
T 2xpi_A           76 QNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSA  151 (597)
T ss_dssp             ------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHH
T ss_pred             cccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchh
Confidence            5667788999999999999999999999999999985  5688899999999999999999999999988543  68899


Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHccCCCC-------------------ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCC
Q 047393           83 VGNCLININSRCGKIDDADLAFKSTPEK-------------------NSLSWTFIISARVNHGHPSEALDLFKDKQWRYT  143 (373)
Q Consensus        83 ~~~~li~~~~~~g~~~~A~~~~~~m~~~-------------------d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  143 (373)
                      +++.++.+|.+.|++++|.++|+++...                   +..+|+.++.+|.+.|++++|.++|++|.+.+.
T Consensus       152 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  231 (597)
T 2xpi_A          152 CRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDA  231 (597)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc
Confidence            9999999999999999999999965433                   488999999999999999999999999976532


Q ss_pred             ----------------------------------------------------------------------CCCHHHHHHH
Q 047393          144 ----------------------------------------------------------------------SMNPTTFRSA  153 (373)
Q Consensus       144 ----------------------------------------------------------------------~p~~~t~~~l  153 (373)
                                                                                            +++..+++.+
T Consensus       232 ~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l  311 (597)
T 2xpi_A          232 KCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCK  311 (597)
T ss_dssp             TCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHH
T ss_pred             hhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHH
Confidence                                                                                  1566667777


Q ss_pred             HHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCH
Q 047393          154 LKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDM  232 (373)
Q Consensus       154 l~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~  232 (373)
                      +.+|.+.|++++|..+|+++.+. + +.+..+++.++.+|.+.|+.++|.+++++++...| ++.+|+.++..|.+.|++
T Consensus       312 ~~~~~~~g~~~~A~~~~~~~~~~-~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  389 (597)
T 2xpi_A          312 ADTLFVRSRFIDVLAITTKILEI-D-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRHPEKAVTWLAVGIYYLCVNKI  389 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH-C-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHc-C-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHhccH
Confidence            77777777777777777777554 1 33556677777777777777777777776544334 567788888888888888


Q ss_pred             HHHHHHHHHHhccCCCC---ccchhheecceEEEEecCCcchHHHHHHHHHHHHHHHHCCCccCCchhhhHH--------
Q 047393          233 KLAKYALDKLLELDPGM---YVGCWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKELGFVLNRSLYQTKM--------  301 (373)
Q Consensus       233 ~~A~~~~~~m~~~~P~~---y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~g~~p~~~~~~~~~--------  301 (373)
                      ++|.++|+++.+..|+.   |..            +...+...+.++.+.++++.+.+.+ ..+..++....        
T Consensus       390 ~~A~~~~~~~~~~~~~~~~~~~~------------l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~  456 (597)
T 2xpi_A          390 SEARRYFSKSSTMDPQFGPAWIG------------FAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGN  456 (597)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHH------------HHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHH------------HHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCC
Confidence            88888888888777765   111            0000222334566677777776543 12333322111        


Q ss_pred             ----HHHHhhhccCCCCCc---EEEEeeccccCChhHHHHHHHhHhCc
Q 047393          302 ----KAVALGLISFPHGMP---TRVIKSVGMCGYSHSACRFMSTIIER  342 (373)
Q Consensus       302 ----~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~a~~~~~~~~~~  342 (373)
                          .......+...+..+   ..+...+...|+.++|..++.++.+.
T Consensus       457 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  504 (597)
T 2xpi_A          457 ILLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLL  504 (597)
T ss_dssp             HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence                111111222122222   22445667788888999998888764

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.92  E-value=2.4e-23  Score=204.02  Aligned_cols=242  Identities=11%  Similarity=-0.045  Sum_probs=217.1

Q ss_pred             CCCCCC--CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCc
Q 047393            3 LCSLIS--DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISH   80 (373)
Q Consensus         3 f~~m~~--p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~   80 (373)
                      |+++.+  +|..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..+++.++.++.+.|++++|.++++.+.+.. +.+
T Consensus       295 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~  372 (597)
T 2xpi_A          295 LSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEK  372 (597)
T ss_dssp             HHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTS
T ss_pred             HHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-ccc
Confidence            344444  899999999999999999999999999999764 3377889999999999999999999999998664 567


Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 047393           81 PAVGNCLININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAY  157 (373)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~  157 (373)
                      ..+++.++.+|.+.|++++|.++|+++.   ..+..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+|+.+..+|
T Consensus       373 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  451 (597)
T 2xpi_A          373 AVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQH  451 (597)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHH
Confidence            8999999999999999999999999875   3468899999999999999999999999998774 45889999999999


Q ss_pred             HccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCC------CCC--HHHHHHHHHHHHHc
Q 047393          158 ALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPG------KLC--PLIWRTLLLSSRVH  229 (373)
Q Consensus       158 ~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~p~--~~~~~~li~~~~~~  229 (373)
                      .+.|++++|.++|+++.+..  +.+..+|+.++.+|.+.|++++|.++|++++..      .|+  ..+|..+..+|.+.
T Consensus       452 ~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~  529 (597)
T 2xpi_A          452 MQLGNILLANEYLQSSYALF--QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKL  529 (597)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHT
T ss_pred             HHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHh
Confidence            99999999999999997652  457899999999999999999999999996543      676  78999999999999


Q ss_pred             CCHHHHHHHHHHHhccCCCC
Q 047393          230 GDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       230 g~~~~A~~~~~~m~~~~P~~  249 (373)
                      |++++|.+.++++.+.+|++
T Consensus       530 g~~~~A~~~~~~~~~~~p~~  549 (597)
T 2xpi_A          530 KMYDAAIDALNQGLLLSTND  549 (597)
T ss_dssp             TCHHHHHHHHHHHHHHSSCC
T ss_pred             cCHHHHHHHHHHHHHhCCCC
Confidence            99999999999999988876

>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=99.83  E-value=2.5e-18  Score=159.48  Aligned_cols=292  Identities=10%  Similarity=0.042  Sum_probs=188.7

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCC-HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFID-SYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      +..+|+.+...|.+.|++++|++.|+++.+.  .|+ ..+|..+..++.+.|++++|.+.++.+.+.. +.+...+..+.
T Consensus        66 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  142 (388)
T 1w3b_A           66 LAEAYSNLGNVYKERGQLQEAIEHYRHALRL--KPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLG  142 (388)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            4556777777777777777777777777653  343 3456667777777777777777777776653 23344556666


Q ss_pred             HHhHhcCCHHHHHHHHccCC--CC-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH
Q 047393           89 NINSRCGKIDDADLAFKSTP--EK-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGE  165 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~--~~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  165 (373)
                      ..|.+.|++++|.+.|+++.  .| +..+|+.+...+.+.|++++|...|+++.+.+ +.+...+..+...+...|++++
T Consensus       143 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~  221 (388)
T 1w3b_A          143 NLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDR  221 (388)
T ss_dssp             HHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHH
Confidence            66777777777777776654  22 45667777777777777777777777776653 2345666677777777777777


Q ss_pred             HHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 047393          166 AYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLL  243 (373)
Q Consensus       166 a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~  243 (373)
                      |...+++..+.   .| +..++..+...|.+.|++++|.+.|++++...| ++.+|..+...+.+.|++++|...++++.
T Consensus       222 A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  298 (388)
T 1w3b_A          222 AVAAYLRALSL---SPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTAL  298 (388)
T ss_dssp             HHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhh---CcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            77777776543   34 466777777777788888888888877666556 46677777777788888888888888877


Q ss_pred             ccCCCC---ccc-hhheecceEEEEecCCcchHHHHHHHHHHHHHHHHCCCccCCchhhhHHHHHHhhhccCCCCCcEEE
Q 047393          244 ELDPGM---YVG-CWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKELGFVLNRSLYQTKMKAVALGLISFPHGMPTRV  319 (373)
Q Consensus       244 ~~~P~~---y~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~g~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~  319 (373)
                      +..|++   +.. +.+             ....+.++.+...++.+.+  ..|+....+..                  +
T Consensus       299 ~~~p~~~~~~~~l~~~-------------~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~------------------l  345 (388)
T 1w3b_A          299 RLCPTHADSLNNLANI-------------KREQGNIEEAVRLYRKALE--VFPEFAAAHSN------------------L  345 (388)
T ss_dssp             HHCTTCHHHHHHHHHH-------------HHTTTCHHHHHHHHHHHTT--SCTTCHHHHHH------------------H
T ss_pred             hhCcccHHHHHHHHHH-------------HHHcCCHHHHHHHHHHHHh--cCCCcHHHHHH------------------H
Confidence            777765   111 111             1111223445555555443  24543322211                  1


Q ss_pred             EeeccccCChhHHHHHHHhHhC
Q 047393          320 IKSVGMCGYSHSACRFMSTIIE  341 (373)
Q Consensus       320 ~~~~~~~~~~~~a~~~~~~~~~  341 (373)
                      ...+...|+.++|...+.++..
T Consensus       346 ~~~~~~~g~~~~A~~~~~~a~~  367 (388)
T 1w3b_A          346 ASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Confidence            2234567899999999999886

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.82  E-value=1.1e-20  Score=187.13  Aligned_cols=149  Identities=9%  Similarity=-0.037  Sum_probs=124.5

Q ss_pred             chhHHHHHHHHhHhcCCHHHHHHHHccCC-------CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 047393           80 HPAVGNCLININSRCGKIDDADLAFKSTP-------EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRS  152 (373)
Q Consensus        80 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~-------~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~  152 (373)
                      -..|||+||++||+.|++++|.++|++|.       .||++|||+||++||+.|++++|.++|++|.+.|+.||.+|||+
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            45699999999999999999999997753       68999999999999999999999999999999999999999999


Q ss_pred             HHHHHHccCC-HHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCC----CCHHHHHHHHHHHH
Q 047393          153 ALKAYALMGL-VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGK----LCPLIWRTLLLSSR  227 (373)
Q Consensus       153 ll~~~~~~g~-~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~----p~~~~~~~li~~~~  227 (373)
                      +|+++|+.|+ .++|.++|++|.+. |+.||..+|++++.+..+.+-++...++... ++..    |.+.+...|.+.|.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~k-G~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~-f~p~~~~~~~~~t~~LL~dl~s  283 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQE-GLKLQALFTAVLLSEEDRATVLKAVHKVKPT-FSLPPQLPPPVNTSKLLRDVYA  283 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHH-TCCSHHHHHHSCCCHHHHHHHHHHHGGGCCC-CCCCCCCCCCCCCCTTTHHHHC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHc-CCCCChhhcccccChhhHHHHHHHHHHhCcc-cCCCCCCcccccchHHHHHHHc
Confidence            9999999998 57899999999776 9999999999999988887666655555444 3311    11344445555665


Q ss_pred             HcC
Q 047393          228 VHG  230 (373)
Q Consensus       228 ~~g  230 (373)
                      +.+
T Consensus       284 ~d~  286 (1134)
T 3spa_A          284 KDG  286 (1134)
T ss_dssp             CCS
T ss_pred             cCC
Confidence            544

>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=99.82  E-value=1.4e-17  Score=154.36  Aligned_cols=234  Identities=13%  Similarity=0.030  Sum_probs=140.5

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCH-HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDS-YSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      +..+|+.+..++.+.|++++|.+.|+++.+.  .|+. ..+..+...+...|++++|.+.|+.+.+.. +.+..+|+.+.
T Consensus       100 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  176 (388)
T 1w3b_A          100 FIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLG  176 (388)
T ss_dssp             CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            3456777777777777777777777777764  3443 345556666677777777777777776653 33456677777


Q ss_pred             HHhHhcCCHHHHHHHHccCCC--C-----------------------------------ChhHHHHHHHHHHhCCChHHH
Q 047393           89 NINSRCGKIDDADLAFKSTPE--K-----------------------------------NSLSWTFIISARVNHGHPSEA  131 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~~--~-----------------------------------d~~~~~~li~~~~~~g~~~~A  131 (373)
                      ..|.+.|++++|...|+++.+  |                                   +..+|..+...|.+.|++++|
T Consensus       177 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  256 (388)
T 1w3b_A          177 CVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLA  256 (388)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHH
Confidence            777777777777777665431  1                                   344555555555555555555


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCC
Q 047393          132 LDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVP  211 (373)
Q Consensus       132 ~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  211 (373)
                      .+.|+++.+.+ +.+..+|..+...+.+.|++++|...++++.+.  .+.+..+++.+...+.+.|++++|.+.++++++
T Consensus       257 ~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  333 (388)
T 1w3b_A          257 IDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALE  333 (388)
T ss_dssp             HHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            55555555542 223445555555555666666666666655443  133455555566666666666666666665555


Q ss_pred             CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          212 GKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       212 ~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ..| +..+|..+...+.+.|++++|...++++.+.+|+.
T Consensus       334 ~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~  372 (388)
T 1w3b_A          334 VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTF  372 (388)
T ss_dssp             SCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTC
T ss_pred             cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence            444 34555555666666666666666666666555543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.80  E-value=9e-21  Score=187.82  Aligned_cols=146  Identities=7%  Similarity=0.048  Sum_probs=120.0

Q ss_pred             HHHHHHHHHHHcCCCchHHHHHHHHHHH---HcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCC----CCChhHHHHH
Q 047393           46 SYSICDILNSCLNPILLNVGTQAQAYMT---KRGLISHPAVGNCLININSRCGKIDDADLAFKSTP----EKNSLSWTFI  118 (373)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~---~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~----~~d~~~~~~l  118 (373)
                      ..||+++|++||+.|++++|.++|.+|.   +.|+.||++|||+||++||+.|++++|.++|++|.    .||++|||+|
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            4589999999999999999999998875   45889999999999999999999999999999996    5899999999


Q ss_pred             HHHHHhCCCh-HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC------HhHHHHHHH
Q 047393          119 ISARVNHGHP-SEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS------EEHYSIMVE  191 (373)
Q Consensus       119 i~~~~~~g~~-~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~------~~~~~~li~  191 (373)
                      |.++|+.|+. ++|.++|++|.+.|+.||..||+++++++.+.+-+    +..+++..  ++.|+      ..+...|.+
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL----~~Vrkv~P--~f~p~~~~~~~~~t~~LL~d  280 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVL----KAVHKVKP--TFSLPPQLPPPVNTSKLLRD  280 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHH----HHHGGGCC--CCCCCCCCCCCCCCCTTTHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHH----HHHHHhCc--ccCCCCCCcccccchHHHHH
Confidence            9999999985 78999999999999999999999999877765443    34444422  33443      455566777


Q ss_pred             HHHhcC
Q 047393          192 ALGRAG  197 (373)
Q Consensus       192 ~~~~~g  197 (373)
                      .|.+.+
T Consensus       281 l~s~d~  286 (1134)
T 3spa_A          281 VYAKDG  286 (1134)
T ss_dssp             HHCCCS
T ss_pred             HHccCC
Confidence            777655

>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=99.79  E-value=2.6e-17  Score=155.32  Aligned_cols=236  Identities=10%  Similarity=-0.012  Sum_probs=204.5

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      .+...|..+...+.+.|++++|+++|+++.+. .+.+..++..+..++.+.|++++|...++.+.+.+ +.+..++..+.
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  101 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDG-DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRG  101 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHH
Confidence            35678999999999999999999999999875 23467889999999999999999999999998876 45688999999


Q ss_pred             HHhHhcCCHHHHHHHHccCCC--C-Ch---hHHHHHHH------------HHHhCCChHHHHHHHHHHHHcCCCCCHHHH
Q 047393           89 NINSRCGKIDDADLAFKSTPE--K-NS---LSWTFIIS------------ARVNHGHPSEALDLFKDKQWRYTSMNPTTF  150 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~~--~-d~---~~~~~li~------------~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~  150 (373)
                      .+|.+.|++++|.+.|+++.+  | +.   .+|..++.            .+.+.|++++|.+.|+++.+.. +.+..++
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  180 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELR  180 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHH
Confidence            999999999999999998864  3 33   56666644            4889999999999999998864 4578899


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-HHHHHHH-------
Q 047393          151 RSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC-PLIWRTL-------  222 (373)
Q Consensus       151 ~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l-------  222 (373)
                      ..+...|.+.|++++|..+|+++.+..  +.+..++..+...|.+.|++++|.+.|++++...|+ ...+..+       
T Consensus       181 ~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~  258 (450)
T 2y4t_A          181 ELRAECFIKEGEPRKAISDLKAASKLK--NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLN  258 (450)
T ss_dssp             HHHHHHHHHTTCGGGGHHHHHHHHHHH--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHH
Confidence            999999999999999999999997653  557899999999999999999999999997776664 4555555       


Q ss_pred             -----HHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          223 -----LLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       223 -----i~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                           ...+...|++++|...++++.+..|++
T Consensus       259 ~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~  290 (450)
T 2y4t_A          259 KLIESAEELIRDGRYTDATSKYESVMKTEPSI  290 (450)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSS
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcc
Confidence                 788999999999999999999988875

>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=99.79  E-value=4.6e-17  Score=153.56  Aligned_cols=189  Identities=9%  Similarity=-0.020  Sum_probs=104.2

Q ss_pred             HcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHH
Q 047393           56 CLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEAL  132 (373)
Q Consensus        56 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~  132 (373)
                      +.+.|++++|...++.+.+.. +.+..++..+..+|.+.|++++|.+.|+++.   ..+..+|..+...|...|++++|.
T Consensus       153 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  231 (450)
T 2y4t_A          153 AFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSL  231 (450)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            333444444444444443332 2334444555555555555555555555443   124555666666666666666666


Q ss_pred             HHHHHHHHcCCCCCHHHHHHH------------HHHHHccCCHHHHHHHHHHhHHHcCCCCC-----HhHHHHHHHHHHh
Q 047393          133 DLFKDKQWRYTSMNPTTFRSA------------LKAYALMGLVGEAYRLFLSMEEVYHIEPS-----EEHYSIMVEALGR  195 (373)
Q Consensus       133 ~l~~~m~~~g~~p~~~t~~~l------------l~~~~~~g~~~~a~~~~~~m~~~~g~~p~-----~~~~~~li~~~~~  195 (373)
                      +.|+++.+.. +.+...+..+            ...+.+.|++++|..+|+++.+.   .|+     ..++..+...+.+
T Consensus       232 ~~~~~~~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~~~  307 (450)
T 2y4t_A          232 SEVRECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKERICHCFSK  307 (450)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhC-CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHHHH
Confidence            6666665442 1222333322            45566666666666666666543   333     3355666666666


Q ss_pred             cCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          196 AGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       196 ~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .|++++|.+.++++++..| +...|..+..+|...|++++|...++++.+++|++
T Consensus       308 ~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~  362 (450)
T 2y4t_A          308 DEKPVEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNEND  362 (450)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSC
T ss_pred             CCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcch
Confidence            6666666666666554444 45666666666666666666666666666666655

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.76  E-value=1.5e-16  Score=141.91  Aligned_cols=228  Identities=11%  Similarity=0.003  Sum_probs=193.2

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCC-chhHHHHHHHH
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLIS-HPAVGNCLINI   90 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~-~~~~~~~li~~   90 (373)
                      ...-.+..+|...|++++|+..++.    .-.|+..++..+...+...++.++|.+.++.+.+.+..| +...+..+...
T Consensus        35 e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~  110 (291)
T 3mkr_A           35 ERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASI  110 (291)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHH
Confidence            3456678999999999999986654    235677889999999999999999999999999887545 56677777899


Q ss_pred             hHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHH---HHHHHHHHccCCHHHHH
Q 047393           91 NSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTF---RSALKAYALMGLVGEAY  167 (373)
Q Consensus        91 ~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~---~~ll~~~~~~g~~~~a~  167 (373)
                      |.+.|++++|++.|++  ..+...+..++..+.+.|++++|.+.|+++.+..  |+....   ...+..+...|++++|.
T Consensus       111 ~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~  186 (291)
T 3mkr_A          111 YFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQD--EDATLTQLATAWVSLAAGGEKLQDAY  186 (291)
T ss_dssp             HHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHH
T ss_pred             HHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHH
Confidence            9999999999999999  5678899999999999999999999999998874  554321   22334445669999999


Q ss_pred             HHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHH-HHHHHHHHhcc
Q 047393          168 RLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKL-AKYALDKLLEL  245 (373)
Q Consensus       168 ~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~  245 (373)
                      .+|+++.+.  .+.+...++.+..++.+.|++++|.+.|++++...| ++.++..++..+...|+.++ +.++++++.+.
T Consensus       187 ~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~  264 (291)
T 3mkr_A          187 YIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA  264 (291)
T ss_dssp             HHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh
Confidence            999999776  366889999999999999999999999999888777 67899999999999998876 67899999999


Q ss_pred             CCCC
Q 047393          246 DPGM  249 (373)
Q Consensus       246 ~P~~  249 (373)
                      +|++
T Consensus       265 ~P~~  268 (291)
T 3mkr_A          265 HRSH  268 (291)
T ss_dssp             CTTC
T ss_pred             CCCC
Confidence            9987

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.76  E-value=4e-17  Score=149.92  Aligned_cols=238  Identities=12%  Similarity=-0.077  Sum_probs=198.8

Q ss_pred             CCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHH
Q 047393            8 SDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCL   87 (373)
Q Consensus         8 ~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l   87 (373)
                      ..+...|..+...+.+.|++++|++.|+++.+.. +.+..++..+..++.+.|++++|...|+++.+.. +.+..++..+
T Consensus        62 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  139 (365)
T 4eqf_A           62 FKDWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMAL  139 (365)
T ss_dssp             TTTCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHH
Confidence            3466779999999999999999999999998853 3367789999999999999999999999998875 4568899999


Q ss_pred             HHHhHhcCCHHHHHHHHccCCC--C-C----------hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC-CCHHHHHHH
Q 047393           88 ININSRCGKIDDADLAFKSTPE--K-N----------SLSWTFIISARVNHGHPSEALDLFKDKQWRYTS-MNPTTFRSA  153 (373)
Q Consensus        88 i~~~~~~g~~~~A~~~~~~m~~--~-d----------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-p~~~t~~~l  153 (373)
                      ...|.+.|++++|.+.|+++.+  | +          ...+..+...+...|++++|.+.|+++.+.... ++..++..+
T Consensus       140 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l  219 (365)
T 4eqf_A          140 AVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGL  219 (365)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHH
T ss_pred             HHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHH
Confidence            9999999999999999998763  2 1          233445688899999999999999999887422 268899999


Q ss_pred             HHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCH
Q 047393          154 LKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDM  232 (373)
Q Consensus       154 l~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~  232 (373)
                      ...+.+.|++++|...+++..+..  +.+..+|..+..+|.+.|++++|.+.|++++...| +..+|..+..+|...|++
T Consensus       220 ~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~  297 (365)
T 4eqf_A          220 GVLFHLSGEFNRAIDAFNAALTVR--PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAY  297 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCH
Confidence            999999999999999999997652  44688999999999999999999999999877667 478999999999999999


Q ss_pred             HHHHHHHHHHhccCCCC
Q 047393          233 KLAKYALDKLLELDPGM  249 (373)
Q Consensus       233 ~~A~~~~~~m~~~~P~~  249 (373)
                      ++|...++++.++.|+.
T Consensus       298 ~~A~~~~~~al~~~~~~  314 (365)
T 4eqf_A          298 REAVSNFLTALSLQRKS  314 (365)
T ss_dssp             HHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHhCccc
Confidence            99999999999977654

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.74  E-value=1.1e-15  Score=137.63  Aligned_cols=236  Identities=10%  Similarity=-0.070  Sum_probs=160.5

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      .|...+..+...+...|++++|+++|+++.+.. +.+...+..+..++...|++++|..+++++.+.. +.+..++..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            455566667777777788888888888777642 2234455556666777777888887777777654 34566777777


Q ss_pred             HHhHhcC-CHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHH
Q 047393           89 NINSRCG-KIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVG  164 (373)
Q Consensus        89 ~~~~~~g-~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~  164 (373)
                      ..|...| ++++|.+.|++..+   .+..+|..+...+...|++++|.+.+++..+.. +.+...+..+...+...|+++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHH
Confidence            7777777 77777777776542   245667777777777777777777777776653 223455666777777777777


Q ss_pred             HHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCC----------CCCHHHHHHHHHHHHHcCCHHH
Q 047393          165 EAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPG----------KLCPLIWRTLLLSSRVHGDMKL  234 (373)
Q Consensus       165 ~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----------~p~~~~~~~li~~~~~~g~~~~  234 (373)
                      +|...+++..+.  .+.+...+..+...+.+.|++++|...+++++..          .....+|..+...+...|++++
T Consensus       177 ~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  254 (330)
T 3hym_B          177 LAERFFSQALSI--APEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAE  254 (330)
T ss_dssp             HHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHh--CCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHH
Confidence            777777776543  2335566777777777777777777777765431          2234677777777777777777


Q ss_pred             HHHHHHHHhccCCCC
Q 047393          235 AKYALDKLLELDPGM  249 (373)
Q Consensus       235 A~~~~~~m~~~~P~~  249 (373)
                      |...+++..+..|+.
T Consensus       255 A~~~~~~a~~~~~~~  269 (330)
T 3hym_B          255 ALDYHRQALVLIPQN  269 (330)
T ss_dssp             HHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHhhCccc
Confidence            777777777776666

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.73  E-value=4.8e-16  Score=142.47  Aligned_cols=235  Identities=11%  Similarity=-0.098  Sum_probs=198.2

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      +...|..+...+.+.|++++|++.|+++.+.. +.+..++..+..++.+.|++++|...++.+.+.. +.+..++..+..
T Consensus        63 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~  140 (368)
T 1fch_A           63 DHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAV  140 (368)
T ss_dssp             TCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            56778899999999999999999999999853 3366788999999999999999999999998876 557889999999


Q ss_pred             HhHhcCCHHHHHHHHccCCC--C-ChhHHHH---------------HHHHHHhCCChHHHHHHHHHHHHcCCC-CCHHHH
Q 047393           90 INSRCGKIDDADLAFKSTPE--K-NSLSWTF---------------IISARVNHGHPSEALDLFKDKQWRYTS-MNPTTF  150 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~---------------li~~~~~~g~~~~A~~l~~~m~~~g~~-p~~~t~  150 (373)
                      .|.+.|++++|.+.|+++.+  | +...+..               .+..+...|++++|.+.|+++.+.... ++..++
T Consensus       141 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~  220 (368)
T 1fch_A          141 SFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQ  220 (368)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHH
Confidence            99999999999999987652  2 2222221               233444889999999999999887422 158899


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHc
Q 047393          151 RSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVH  229 (373)
Q Consensus       151 ~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~  229 (373)
                      ..+...+.+.|++++|...++++.+..  +.+..++..+...+.+.|++++|.+.|++++...| +...|..+...+.+.
T Consensus       221 ~~l~~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~  298 (368)
T 1fch_A          221 CGLGVLFNLSGEYDKAVDCFTAALSVR--PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINL  298 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC
Confidence            999999999999999999999997652  44678999999999999999999999999777666 578999999999999


Q ss_pred             CCHHHHHHHHHHHhccCCC
Q 047393          230 GDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       230 g~~~~A~~~~~~m~~~~P~  248 (373)
                      |++++|...++++.++.|+
T Consensus       299 g~~~~A~~~~~~al~~~~~  317 (368)
T 1fch_A          299 GAHREAVEHFLEALNMQRK  317 (368)
T ss_dssp             TCHHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHhCCC
Confidence            9999999999999986654

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.72  E-value=2e-15  Score=135.88  Aligned_cols=237  Identities=10%  Similarity=-0.042  Sum_probs=204.6

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCC-chHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPI-LLNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      +..++..++..+...|++++|..+++++.+.. +.+...+..+...+...| ++++|.+.++...+.. +.+...|..+.
T Consensus        55 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~  132 (330)
T 3hym_B           55 HASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYG  132 (330)
T ss_dssp             CTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHH
T ss_pred             ChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHH
Confidence            45667778889999999999999999998853 235678888889999999 9999999999998765 45678899999


Q ss_pred             HHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH
Q 047393           89 NINSRCGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGE  165 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  165 (373)
                      ..|.+.|++++|.+.|++..+   .+..++..+...|...|++++|.+.+++..+.. +.+..++..+...+...|++++
T Consensus       133 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~  211 (330)
T 3hym_B          133 HSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKT  211 (330)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHH
Confidence            999999999999999988752   356778889999999999999999999998764 4567899999999999999999


Q ss_pred             HHHHHHHhHHHcC-------CCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHH
Q 047393          166 AYRLFLSMEEVYH-------IEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKY  237 (373)
Q Consensus       166 a~~~~~~m~~~~g-------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~  237 (373)
                      |...+++..+...       .+....++..+...|.+.|++++|.+.+++++...| +...|..+...+...|++++|..
T Consensus       212 A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~  291 (330)
T 3hym_B          212 AEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVD  291 (330)
T ss_dssp             HHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHH
Confidence            9999999876421       133467899999999999999999999999776555 57899999999999999999999


Q ss_pred             HHHHHhccCCCC
Q 047393          238 ALDKLLELDPGM  249 (373)
Q Consensus       238 ~~~~m~~~~P~~  249 (373)
                      .++++.+++|++
T Consensus       292 ~~~~al~~~p~~  303 (330)
T 3hym_B          292 YFHTALGLRRDD  303 (330)
T ss_dssp             HHHTTTTTCSCC
T ss_pred             HHHHHHccCCCc
Confidence            999999998876

>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=99.71  E-value=3e-17  Score=151.42  Aligned_cols=215  Identities=11%  Similarity=-0.004  Sum_probs=101.6

Q ss_pred             CCCCCCCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchh
Q 047393            3 LCSLISDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPA   82 (373)
Q Consensus         3 f~~m~~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~   82 (373)
                      |++++.|  .+|+.+..++.+.|++++|++.|.+.      +|..+|..++.++...|++++|...++..++.  .+++.
T Consensus        26 ae~~~~~--~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~   95 (449)
T 1b89_A           26 AERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESY   95 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--Cccch
Confidence            3455555  49999999999999999999999653      67889999999999999999999988777664  56688


Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 047393           83 VGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGL  162 (373)
Q Consensus        83 ~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~  162 (373)
                      +.+.|+.+|.+.|+++++.++++.   |+..+|+.+...|...|++++|...|..+         ..|..+..++.+.|+
T Consensus        96 i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~  163 (449)
T 1b89_A           96 VETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGE  163 (449)
T ss_dssp             -------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTC
T ss_pred             hHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhcc
Confidence            999999999999999999988864   78889999999999999999999999977         489999999999999


Q ss_pred             HHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047393          163 VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKL  242 (373)
Q Consensus       163 ~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  242 (373)
                      +++|.+.++.+       .++.+|..++.+|...|+++.|...... +...|+  -...++..|.+.|++++|..+++..
T Consensus       164 yq~AVea~~KA-------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-L~~~ad--~l~~lv~~Yek~G~~eEai~lLe~a  233 (449)
T 1b89_A          164 YQAAVDGARKA-------NSTRTWKEVCFACVDGKEFRLAQMCGLH-IVVHAD--ELEELINYYQDRGYFEELITMLEAA  233 (449)
T ss_dssp             HHHHHHHHHHH-------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-TTTCHH--HHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHc-------CCchhHHHHHHHHHHcCcHHHHHHHHHH-HHhCHh--hHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            99999999877       2789999999999999999999777666 444444  3557999999999999999999999


Q ss_pred             hccCCCC
Q 047393          243 LELDPGM  249 (373)
Q Consensus       243 ~~~~P~~  249 (373)
                      .+.+|..
T Consensus       234 L~le~ah  240 (449)
T 1b89_A          234 LGLERAH  240 (449)
T ss_dssp             TTSTTCC
T ss_pred             hCCcHHH
Confidence            9988777

>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=99.70  E-value=1.3e-15  Score=136.96  Aligned_cols=235  Identities=9%  Similarity=-0.094  Sum_probs=197.3

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      .+...|..+...+...|++++|.++|+++.+.. +.+..++..+..++.+.|++++|.+.++++.+.. +.+..++..+.
T Consensus        19 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la   96 (327)
T 3cv0_A           19 MYHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALA   96 (327)
T ss_dssp             GGSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHH
Confidence            356678888899999999999999999998753 2366788889999999999999999999998875 55788999999


Q ss_pred             HHhHhcCCHHHHHHHHccCCC--C-ChhHHHHH--------------HH-HHHhCCChHHHHHHHHHHHHcCCCCCHHHH
Q 047393           89 NINSRCGKIDDADLAFKSTPE--K-NSLSWTFI--------------IS-ARVNHGHPSEALDLFKDKQWRYTSMNPTTF  150 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~l--------------i~-~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~  150 (373)
                      ..|.+.|++++|.+.|++..+  | +...+..+              .. .+...|++++|.+.++++.+.. +.+..++
T Consensus        97 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  175 (327)
T 3cv0_A           97 VSHTNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLH  175 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHH
Confidence            999999999999999987653  2 33333333              22 3777899999999999998874 4478899


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHc
Q 047393          151 RSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVH  229 (373)
Q Consensus       151 ~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~  229 (373)
                      ..+...+...|++++|...++++.+..  +.+..++..+...+.+.|++++|.+.|++++...| +..+|..+...+...
T Consensus       176 ~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~  253 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAANLRRAVELR--PDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNM  253 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHh
Confidence            999999999999999999999997652  44678899999999999999999999999777556 578999999999999


Q ss_pred             CCHHHHHHHHHHHhccCCC
Q 047393          230 GDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       230 g~~~~A~~~~~~m~~~~P~  248 (373)
                      |++++|.+.++++.+..|+
T Consensus       254 g~~~~A~~~~~~a~~~~~~  272 (327)
T 3cv0_A          254 SQYDLAAKQLVRAIYMQVG  272 (327)
T ss_dssp             TCHHHHHHHHHHHHHHHTT
T ss_pred             ccHHHHHHHHHHHHHhCCc
Confidence            9999999999999987765

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.69  E-value=1.7e-14  Score=131.05  Aligned_cols=189  Identities=9%  Similarity=0.004  Sum_probs=83.7

Q ss_pred             HHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHH
Q 047393           55 SCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEA  131 (373)
Q Consensus        55 ~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A  131 (373)
                      .+...|++++|.+.++.+.+.. +.+..++..+...|.+.|++++|.+.|++..+   .+..+|..+...+...|++++|
T Consensus       129 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  207 (359)
T 3ieg_A          129 DAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELS  207 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            3334444444444444443332 22334444444444444444444444443321   2344444444444555555555


Q ss_pred             HHHHHHHHHcCCCCCHHHHH------------HHHHHHHccCCHHHHHHHHHHhHHHcCCCCC-H----hHHHHHHHHHH
Q 047393          132 LDLFKDKQWRYTSMNPTTFR------------SALKAYALMGLVGEAYRLFLSMEEVYHIEPS-E----EHYSIMVEALG  194 (373)
Q Consensus       132 ~~l~~~m~~~g~~p~~~t~~------------~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-~----~~~~~li~~~~  194 (373)
                      .+.|++..+.. +.+..++.            .+...+.+.|++++|...++++.+.   .|+ .    ..+..+...+.
T Consensus       208 ~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~la~~~~  283 (359)
T 3ieg_A          208 LSEVRECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSVAEYTVRSKERICHCFS  283 (359)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCCchHHHHHHHHHHHHHHH
Confidence            55554444431 11112111            1133344455555555555554333   122 1    11223444555


Q ss_pred             hcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          195 RAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       195 ~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      +.|++++|.+.+++++...| ++.+|..+...+...|++++|...++++.+++|+
T Consensus       284 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~  338 (359)
T 3ieg_A          284 KDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNEN  338 (359)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT
T ss_pred             HccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            55555555555555444333 4445555555555555555555555555555443

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.68  E-value=1.8e-15  Score=131.22  Aligned_cols=224  Identities=10%  Similarity=-0.007  Sum_probs=192.8

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCC--CCc----hhHH
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGL--ISH----PAVG   84 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~--~~~----~~~~   84 (373)
                      ...|..+...+...|++++|++.|++..+..  .+...+..+..++...|++++|...++...+...  .++    ..++
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            4578889999999999999999999999876  7888999999999999999999999999876531  112    5788


Q ss_pred             HHHHHHhHhcCCHHHHHHHHccCCC--CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 047393           85 NCLININSRCGKIDDADLAFKSTPE--KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGL  162 (373)
Q Consensus        85 ~~li~~~~~~g~~~~A~~~~~~m~~--~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~  162 (373)
                      ..+...|.+.|++++|.+.|++..+  |+.       ..+.+.|++++|...++++.... +.+...+..+...+...|+
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  154 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTEHRTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSD  154 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCchh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcC
Confidence            9999999999999999999988763  442       45667788999999999988763 3345678888999999999


Q ss_pred             HHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047393          163 VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDK  241 (373)
Q Consensus       163 ~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~  241 (373)
                      +++|...+++..+..  +.+..++..+...|.+.|++++|.+.|++++...| ++..|..+...+...|++++|...+++
T Consensus       155 ~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  232 (258)
T 3uq3_A          155 WPNAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDA  232 (258)
T ss_dssp             HHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            999999999997652  44678899999999999999999999999777666 578999999999999999999999999


Q ss_pred             HhccC
Q 047393          242 LLELD  246 (373)
Q Consensus       242 m~~~~  246 (373)
                      ..++.
T Consensus       233 a~~~~  237 (258)
T 3uq3_A          233 ARTKD  237 (258)
T ss_dssp             HHHHH
T ss_pred             HHHhC
Confidence            99876

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.67  E-value=2e-15  Score=138.50  Aligned_cols=227  Identities=11%  Similarity=-0.021  Sum_probs=187.7

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCc-h------
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISH-P------   81 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~-~------   81 (373)
                      .+..+|+.+...|.+.|++++|++.|+++.+.. +.+..++..+..++.+.|++++|...++++.+..  |+ .      
T Consensus        97 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~  173 (365)
T 4eqf_A           97 GDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNTSHQQDACEALKNWIKQN--PKYKYLVKNK  173 (365)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--HHHHCC----
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccccHHHHHHHHHHHHHhC--ccchHHHhhh
Confidence            467889999999999999999999999998853 2357789999999999999999999999998754  32 2      


Q ss_pred             ----hHHHHHHHHhHhcCCHHHHHHHHccCCC--C---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 047393           82 ----AVGNCLININSRCGKIDDADLAFKSTPE--K---NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRS  152 (373)
Q Consensus        82 ----~~~~~li~~~~~~g~~~~A~~~~~~m~~--~---d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~  152 (373)
                          .++..+...|.+.|++++|.+.|+++.+  |   +..+|..+...|...|++++|.+.|++..+.. +.+..++..
T Consensus       174 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~  252 (365)
T 4eqf_A          174 KGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNR  252 (365)
T ss_dssp             ---------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             ccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence                2334457889999999999999998762  3   67899999999999999999999999998874 456889999


Q ss_pred             HHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-------------HHHH
Q 047393          153 ALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC-------------PLIW  219 (373)
Q Consensus       153 ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-------------~~~~  219 (373)
                      +..+|.+.|++++|...|+++.+..  +.+..++..+..+|.+.|++++|.+.|++++...|+             ...|
T Consensus       253 l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~  330 (365)
T 4eqf_A          253 LGATLANGDRSEEAVEAYTRALEIQ--PGFIRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIW  330 (365)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHH
Confidence            9999999999999999999997652  345888999999999999999999999997653333             5789


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHH
Q 047393          220 RTLLLSSRVHGDMKLAKYALDK  241 (373)
Q Consensus       220 ~~li~~~~~~g~~~~A~~~~~~  241 (373)
                      ..+..++...|+.+.+..+.++
T Consensus       331 ~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          331 AALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHcCcHHHHHHHHHh
Confidence            9999999999999998887765

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.67  E-value=3e-14  Score=129.44  Aligned_cols=235  Identities=9%  Similarity=-0.044  Sum_probs=198.3

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      |+..|..+...+...|++++|++.|+++.+.. +.+..++..+..++...|++++|...++.+.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            45678889999999999999999999998753 2357788899999999999999999999998875 446788999999


Q ss_pred             HhHhcCCHHHHHHHHccCCC--C----ChhHHHHH------------HHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHH
Q 047393           90 INSRCGKIDDADLAFKSTPE--K----NSLSWTFI------------ISARVNHGHPSEALDLFKDKQWRYTSMNPTTFR  151 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~~--~----d~~~~~~l------------i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~  151 (373)
                      .|.+.|++++|...|++..+  |    +...+..+            ...+...|++++|.+.++++.+.. +.+..++.
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  158 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRE  158 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHH
Confidence            99999999999999998754  3    33444444            578899999999999999998874 45788899


Q ss_pred             HHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-HHHHH----------
Q 047393          152 SALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC-PLIWR----------  220 (373)
Q Consensus       152 ~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~----------  220 (373)
                      .+...+...|++++|...++.+.+.  .+.+..++..+...+...|++++|.+.|++++...|+ ...+.          
T Consensus       159 ~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  236 (359)
T 3ieg_A          159 LRAECFIKEGEPRKAISDLKAASKL--KSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQDHKRCFAHYKQVKKLNK  236 (359)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTT--CSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCccchHHHHHHHHHHHHHH
Confidence            9999999999999999999999654  2457789999999999999999999999997775564 44443          


Q ss_pred             --HHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          221 --TLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       221 --~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                        .+...+.+.|++++|...++++.+..|++
T Consensus       237 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~  267 (359)
T 3ieg_A          237 LIESAEELIRDGRYTDATSKYESVMKTEPSV  267 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCSS
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCc
Confidence              23667899999999999999999988876

>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=99.66  E-value=6.6e-15  Score=132.26  Aligned_cols=231  Identities=8%  Similarity=-0.037  Sum_probs=193.2

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHH-
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCL-   87 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l-   87 (373)
                      .+..+|..+...+...|++++|.+.|+++.+.. +.+..++..+...+...|++++|.+.++.+.+.. +.+...+..+ 
T Consensus        53 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~  130 (327)
T 3cv0_A           53 EREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAALASLRAWLLSQ-PQYEQLGSVNL  130 (327)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-TTTTTC-----
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHh
Confidence            366788999999999999999999999998853 3367788899999999999999999999998764 2333333333 


Q ss_pred             -------------HH-HhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHH
Q 047393           88 -------------IN-INSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTF  150 (373)
Q Consensus        88 -------------i~-~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~  150 (373)
                                   .. .+...|++++|.+.+++..   ..+..++..+...+...|++++|.+.++++.+.. +.+..++
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  209 (327)
T 3cv0_A          131 QADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMNPNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLW  209 (327)
T ss_dssp             ---------------CCTTSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHH
Confidence                         33 4888899999999998875   3367889999999999999999999999998874 4567899


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-------------HH
Q 047393          151 RSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC-------------PL  217 (373)
Q Consensus       151 ~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-------------~~  217 (373)
                      ..+...+...|++++|...++++.+..  +.+...+..+...|.+.|++++|.+.|++++...|+             ..
T Consensus       210 ~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~  287 (327)
T 3cv0_A          210 NKLGATLANGNRPQEALDAYNRALDIN--PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRS  287 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHH
Confidence            999999999999999999999987652  446788999999999999999999999997765555             67


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          218 IWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       218 ~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      .|..+..++...|+.++|..++++..+
T Consensus       288 ~~~~l~~~~~~~g~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          288 MWDFFRMLLNVMNRPDLVELTYAQNVE  314 (327)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHTTCCSH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            999999999999999999999887655

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.66  E-value=5.5e-15  Score=141.45  Aligned_cols=236  Identities=11%  Similarity=-0.041  Sum_probs=205.1

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      +..+|..+...+...|++++|.+.|+++.+..  |+..++..+..++...|++++|...++.+.+.. +.+..++..+..
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~  312 (514)
T 2gw1_A          236 LAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQ  312 (514)
T ss_dssp             HHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHH
Confidence            45678899999999999999999999998864  457788999999999999999999999998765 456788999999


Q ss_pred             HhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHH
Q 047393           90 INSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEA  166 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a  166 (373)
                      .|.+.|++++|...|++..   ..+..+|..+...+...|++++|...++++.+.. +.+..++..+...+.+.|++++|
T Consensus       313 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  391 (514)
T 2gw1_A          313 MNFILQNYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKA  391 (514)
T ss_dssp             HHHHTTCTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHH
Confidence            9999999999999998764   3467889999999999999999999999998763 34677889999999999999999


Q ss_pred             HHHHHHhHHHcCCCCC----HhHHHHHHHHHHh---cCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHH
Q 047393          167 YRLFLSMEEVYHIEPS----EEHYSIMVEALGR---AGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYA  238 (373)
Q Consensus       167 ~~~~~~m~~~~g~~p~----~~~~~~li~~~~~---~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~  238 (373)
                      ...++++.+...-.++    ...+..+...+.+   .|++++|.+.|++++...| ++.+|..+...+.+.|++++|...
T Consensus       392 ~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  471 (514)
T 2gw1_A          392 LKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITL  471 (514)
T ss_dssp             HHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHH
Confidence            9999998765322232    3488999999999   9999999999999777556 678899999999999999999999


Q ss_pred             HHHHhccCCCC
Q 047393          239 LDKLLELDPGM  249 (373)
Q Consensus       239 ~~~m~~~~P~~  249 (373)
                      ++++.++.|++
T Consensus       472 ~~~a~~~~~~~  482 (514)
T 2gw1_A          472 FEESADLARTM  482 (514)
T ss_dssp             HHHHHHHCSSH
T ss_pred             HHHHHHhcccc
Confidence            99999988754

>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=99.65  E-value=6.2e-15  Score=135.04  Aligned_cols=231  Identities=12%  Similarity=-0.042  Sum_probs=193.1

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHH--
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNC--   86 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~--   86 (373)
                      .+..+|..+...+...|++++|++.|+++.+.. +.+..++..+...+...|++++|...++.+.+.. +.+...+..  
T Consensus        96 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~  173 (368)
T 1fch_A           96 KHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYT-PAYAHLVTPAE  173 (368)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-TTTGGGCC---
T ss_pred             CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            467789999999999999999999999998853 3367789999999999999999999999998865 222333321  


Q ss_pred             -------------HHHHhHhcCCHHHHHHHHccCC--CC---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHH
Q 047393           87 -------------LININSRCGKIDDADLAFKSTP--EK---NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPT  148 (373)
Q Consensus        87 -------------li~~~~~~g~~~~A~~~~~~m~--~~---d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~  148 (373)
                                   .+..+.+.|++++|...|+++.  .|   +..+|..+...|.+.|++++|...|+++.+.. +.+..
T Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~  252 (368)
T 1fch_A          174 EGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYL  252 (368)
T ss_dssp             ------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHH
T ss_pred             HHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHH
Confidence                         2334448999999999998875  23   57889999999999999999999999998873 44678


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC------------H
Q 047393          149 TFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC------------P  216 (373)
Q Consensus       149 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~------------~  216 (373)
                      ++..+...+.+.|++++|...++++.+..  +.+...+..+...|.+.|++++|.+.|++++...|+            .
T Consensus       253 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  330 (368)
T 1fch_A          253 LWNKLGATLANGNQSEEAVAAYRRALELQ--PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSE  330 (368)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhh
Confidence            99999999999999999999999997652  446788999999999999999999999997664332            6


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          217 LIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       217 ~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      .+|..+..++...|+.++|..++++..+
T Consensus       331 ~~~~~l~~~~~~~g~~~~A~~~~~~~l~  358 (368)
T 1fch_A          331 NIWSTLRLALSMLGQSDAYGAADARDLS  358 (368)
T ss_dssp             HHHHHHHHHHHHHTCGGGHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHhCChHhHHHhHHHHHH
Confidence            8999999999999999999998875443

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.63  E-value=1.5e-14  Score=138.37  Aligned_cols=232  Identities=12%  Similarity=-0.040  Sum_probs=133.0

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHh
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININ   91 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~   91 (373)
                      ..|......+.+.|++++|++.|+++....  ||..++..+..++.+.|++++|.+.++.+++.. +.+..++..+..+|
T Consensus         7 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~   83 (514)
T 2gw1_A            7 LALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASAN   83 (514)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHH
Confidence            345555566666666666666666666643  566666666666666666666666666666554 34455666666666


Q ss_pred             HhcCCHHHHHHHHccCCCC---C---------------------------------------------------------
Q 047393           92 SRCGKIDDADLAFKSTPEK---N---------------------------------------------------------  111 (373)
Q Consensus        92 ~~~g~~~~A~~~~~~m~~~---d---------------------------------------------------------  111 (373)
                      .+.|++++|...|+++.+.   +                                                         
T Consensus        84 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (514)
T 2gw1_A           84 EGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTS  163 (514)
T ss_dssp             HHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHH
T ss_pred             HHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHH
Confidence            6666666666666543210   0                                                         


Q ss_pred             ----------------------hhHHHHHHHHHHh---CCChHHHHHHHHHHHH-----cCCC--------CCHHHHHHH
Q 047393          112 ----------------------SLSWTFIISARVN---HGHPSEALDLFKDKQW-----RYTS--------MNPTTFRSA  153 (373)
Q Consensus       112 ----------------------~~~~~~li~~~~~---~g~~~~A~~l~~~m~~-----~g~~--------p~~~t~~~l  153 (373)
                                            ...+......+..   .|++++|...|+++.+     ..-.        .+..++..+
T Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  243 (514)
T 2gw1_A          164 MASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHT  243 (514)
T ss_dssp             HHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHH
Confidence                                  1112222222222   5666666666666655     2111        123455555


Q ss_pred             HHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCH
Q 047393          154 LKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDM  232 (373)
Q Consensus       154 l~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~  232 (373)
                      ...+...|++++|...++++.+.   .|+...+..+...|...|++++|.+.+++++...| +...|..+...+...|++
T Consensus       244 ~~~~~~~~~~~~A~~~~~~~l~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  320 (514)
T 2gw1_A          244 GIFKFLKNDPLGAHEDIKKAIEL---FPRVNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNY  320 (514)
T ss_dssp             HHHHHHSSCHHHHHHHHHHHHHH---CCCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhh---CccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCH
Confidence            56666666666666666666443   23355556666666666666666666666555444 445566666666666666


Q ss_pred             HHHHHHHHHHhccCCCC
Q 047393          233 KLAKYALDKLLELDPGM  249 (373)
Q Consensus       233 ~~A~~~~~~m~~~~P~~  249 (373)
                      ++|...++++.+..|+.
T Consensus       321 ~~A~~~~~~~~~~~~~~  337 (514)
T 2gw1_A          321 DQAGKDFDKAKELDPEN  337 (514)
T ss_dssp             THHHHHHHHHHHTCSSC
T ss_pred             HHHHHHHHHHHHhChhh
Confidence            66666666666655554

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.63  E-value=5.2e-14  Score=123.32  Aligned_cols=221  Identities=14%  Similarity=-0.081  Sum_probs=184.6

Q ss_pred             HcCCHhHHHHHHHHHHhcCCC--C-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHH
Q 047393           23 KAKDYEMVHELLERIQLCCGF--I-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDD   99 (373)
Q Consensus        23 ~~g~~~~A~~l~~~m~~~g~~--p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~   99 (373)
                      ..|++++|++.|+++.+....  | +..++..+...+...|++++|...++.+.+.. +.+..++..+...|.+.|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHH
Confidence            457899999999999986321  2 45678889999999999999999999998875 4568899999999999999999


Q ss_pred             HHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHH
Q 047393          100 ADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEV  176 (373)
Q Consensus       100 A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  176 (373)
                      |.+.|++..+   .+..+|..+...|.+.|++++|.+.|+++.+.  .|+.......+..+...|++++|...++.....
T Consensus        96 A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           96 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            9999998763   36889999999999999999999999999886  455555555556667789999999999888665


Q ss_pred             cCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-----HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          177 YHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC-----PLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       177 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .  +++...+ .++..+...++.++|.+.+++++...|+     ..+|..+...+...|++++|...++++.+.+|++
T Consensus       174 ~--~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~  248 (275)
T 1xnf_A          174 S--DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHN  248 (275)
T ss_dssp             S--CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTT
T ss_pred             C--CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchh
Confidence            2  4444444 4777788888999999999997775553     5789999999999999999999999999998866

>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=99.62  E-value=9.2e-14  Score=120.34  Aligned_cols=200  Identities=11%  Similarity=-0.057  Sum_probs=137.6

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHH
Q 047393           47 YSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARV  123 (373)
Q Consensus        47 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~  123 (373)
                      ..+..+...+...|++++|.+.++.+.+.. +.+..++..+...|.+.|++++|.+.|++..   ..+...|..+...|.
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~  116 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLY  116 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHH
Confidence            345555555566666666666666665543 3345566666666666666666666666543   235566677777777


Q ss_pred             hCCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHH
Q 047393          124 NHGHPSEALDLFKDKQWRYTSM-NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEV  202 (373)
Q Consensus       124 ~~g~~~~A~~l~~~m~~~g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A  202 (373)
                      ..|++++|.+.++++.+.+..| +...+..+...+...|++++|...+++..+..  +.+...+..+...|.+.|++++|
T Consensus       117 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          117 EQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN--RNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHcCCHHHH
Confidence            7777777777777776633344 34566777777788888888888888776542  33567777888888888888888


Q ss_pred             HHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          203 LEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       203 ~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .+.+++++...| +...+..+...+...|+.++|.+.++++.+..|++
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~  242 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGS  242 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTS
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCC
Confidence            888888666554 56677777788888888888888888888877765

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.62  E-value=5.2e-14  Score=135.59  Aligned_cols=234  Identities=9%  Similarity=-0.043  Sum_probs=198.1

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHh
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININ   91 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~   91 (373)
                      .+|..+...+...|++++|.+.|++..+.  .|+..++..+...+...|++++|...++.+.+.. +.+..++..+...|
T Consensus       244 ~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  320 (537)
T 3fp2_A          244 LALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMY  320 (537)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHH
Confidence            35777788899999999999999999985  5777889999999999999999999999998875 45688999999999


Q ss_pred             HhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 047393           92 SRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYR  168 (373)
Q Consensus        92 ~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~  168 (373)
                      .+.|++++|.+.|++..   ..+..+|..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|..
T Consensus       321 ~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  399 (537)
T 3fp2_A          321 FILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIK  399 (537)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHH
Confidence            99999999999998775   2367889999999999999999999999998874 4457788999999999999999999


Q ss_pred             HHHHhHHHcCCCC----CHhHHHHHHHHHHhc----------CCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHH
Q 047393          169 LFLSMEEVYHIEP----SEEHYSIMVEALGRA----------GMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMK  233 (373)
Q Consensus       169 ~~~~m~~~~g~~p----~~~~~~~li~~~~~~----------g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~  233 (373)
                      .++++.+...-.+    ....+......+.+.          |++++|...|++++...| +...|..+...+...|+++
T Consensus       400 ~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~  479 (537)
T 3fp2_A          400 QYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKID  479 (537)
T ss_dssp             HHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHH
Confidence            9999865421111    222344555677777          999999999999777566 5789999999999999999


Q ss_pred             HHHHHHHHHhccCCCC
Q 047393          234 LAKYALDKLLELDPGM  249 (373)
Q Consensus       234 ~A~~~~~~m~~~~P~~  249 (373)
                      +|...|+++.++.|+.
T Consensus       480 ~A~~~~~~al~~~~~~  495 (537)
T 3fp2_A          480 EAIELFEDSAILARTM  495 (537)
T ss_dssp             HHHHHHHHHHHHC--C
T ss_pred             HHHHHHHHHHHhCCCc
Confidence            9999999999988755

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.62  E-value=1.5e-14  Score=128.92  Aligned_cols=217  Identities=10%  Similarity=0.047  Sum_probs=178.0

Q ss_pred             HHHHHHcCCHhHHHHHHHHHHhcCCCCCH--HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcC
Q 047393           18 LKACIKAKDYEMVHELLERIQLCCGFIDS--YSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCG   95 (373)
Q Consensus        18 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g   95 (373)
                      |+.....|++..|+..+++...  ..|+.  .....+..++...|+++.|...++.    .-+|+..++..+...|.+.|
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~--~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKP--SSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCC--CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhccc--CCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCC
Confidence            4556778999999998877654  34554  3556678899999999999876644    24678889999999999999


Q ss_pred             CHHHHHHHHccCC----CC-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 047393           96 KIDDADLAFKSTP----EK-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLF  170 (373)
Q Consensus        96 ~~~~A~~~~~~m~----~~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~  170 (373)
                      +.++|.+.++++.    .| +...+..+...+.+.|++++|++.+++      +.+...+..+...+.+.|++++|...+
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999999863    25 566677778999999999999999987      568889999999999999999999999


Q ss_pred             HHhHHHcCCCCCHhHH---HHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC
Q 047393          171 LSMEEVYHIEPSEEHY---SIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELD  246 (373)
Q Consensus       171 ~~m~~~~g~~p~~~~~---~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  246 (373)
                      +.+.+.   .|+....   ...+..+...|++++|..+|++++...| ++..|+.+..++.+.|++++|...++++.+.+
T Consensus       154 ~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~  230 (291)
T 3mkr_A          154 KKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD  230 (291)
T ss_dssp             HHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999765   4654211   2233444556999999999999776455 78899999999999999999999999999999


Q ss_pred             CCC
Q 047393          247 PGM  249 (373)
Q Consensus       247 P~~  249 (373)
                      |++
T Consensus       231 p~~  233 (291)
T 3mkr_A          231 SGH  233 (291)
T ss_dssp             TTC
T ss_pred             CCC
Confidence            987

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.61  E-value=4.7e-14  Score=123.56  Aligned_cols=232  Identities=13%  Similarity=0.004  Sum_probs=188.2

Q ss_pred             HHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCc--hhHHHHHHH
Q 047393           13 PWNLLLKACIKAKDYEMVHELLERIQLCCGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISH--PAVGNCLIN   89 (373)
Q Consensus        13 ~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~--~~~~~~li~   89 (373)
                      .+......+...|++++|++.|++..+.  .| +...+..+..++...|++++|...++...+..-.|+  ...|..+..
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAK--KYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGK   82 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHT--TCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            4455677889999999999999999875  34 445788888999999999999999999988432222  234888999


Q ss_pred             HhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHH
Q 047393           90 INSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEA  166 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a  166 (373)
                      .|.+.|++++|.+.|++..   ..+..+|..+...|...|++++|.+.|++..+.. +.+..++..+...+...+++++|
T Consensus        83 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A  161 (272)
T 3u4t_A           83 ILMKKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKA  161 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999998775   3467899999999999999999999999988762 44566777776244445699999


Q ss_pred             HHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCC---HHHHHHHHHhhCCC---CCC------HHHHHHHHHHHHHcCCHHH
Q 047393          167 YRLFLSMEEVYHIEPSEEHYSIMVEALGRAGM---FEEVLEFIKGIVPG---KLC------PLIWRTLLLSSRVHGDMKL  234 (373)
Q Consensus       167 ~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~---~p~------~~~~~~li~~~~~~g~~~~  234 (373)
                      ...++++.+..  +.+...+..+...+...|+   .++|...+++++..   .|+      ..+|..+...|...|++++
T Consensus       162 ~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  239 (272)
T 3u4t_A          162 DSSFVKVLELK--PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVK  239 (272)
T ss_dssp             HHHHHHHHHHS--TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHhC--ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHH
Confidence            99999997652  3346777888888888888   77788888776542   244      2578889999999999999


Q ss_pred             HHHHHHHHhccCCCC
Q 047393          235 AKYALDKLLELDPGM  249 (373)
Q Consensus       235 A~~~~~~m~~~~P~~  249 (373)
                      |...++++.+++|++
T Consensus       240 A~~~~~~al~~~p~~  254 (272)
T 3u4t_A          240 ADAAWKNILALDPTN  254 (272)
T ss_dssp             HHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHhcCccH
Confidence            999999999999987

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.61  E-value=1.8e-13  Score=115.91  Aligned_cols=205  Identities=10%  Similarity=-0.078  Sum_probs=110.4

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      +..+|..+...+...|++++|++.|+++.+.. +.+...+..+...+...|++++|.+.++.+.+.. +.+..++..   
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~---   81 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNN---   81 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH---
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHH---
Confidence            44566666667777777777777777666532 2234555556666666666666666666665443 223444444   


Q ss_pred             HhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhC-CChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCHHHHH
Q 047393           90 INSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNH-GHPSEALDLFKDKQWRYTSMN-PTTFRSALKAYALMGLVGEAY  167 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~-g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~  167 (373)
                                                  +...+... |++++|...++++.+.+..|+ ...+..+...+...|++++|.
T Consensus        82 ----------------------------l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  133 (225)
T 2vq2_A           82 ----------------------------YGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAE  133 (225)
T ss_dssp             ----------------------------HHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ----------------------------HHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHH
Confidence                                        44444455 555555555555444222222 344455555555555555555


Q ss_pred             HHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          168 RLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL--CPLIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       168 ~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      ..++++.+..  +.+...+..+...+.+.|++++|.+.+++++...|  +...+..+...+...|+.+.|..+++.+.+.
T Consensus       134 ~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          134 AYLKRSLAAQ--PQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHS--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC--CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            5555554331  22345555555555566666666666555444323  3445555555555666666666666665555


Q ss_pred             CCCC
Q 047393          246 DPGM  249 (373)
Q Consensus       246 ~P~~  249 (373)
                      .|++
T Consensus       212 ~p~~  215 (225)
T 2vq2_A          212 FPYS  215 (225)
T ss_dssp             CTTC
T ss_pred             CCCC
Confidence            5543

>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=99.60  E-value=1.8e-13  Score=118.42  Aligned_cols=205  Identities=6%  Similarity=-0.080  Sum_probs=176.0

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLINI   90 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~   90 (373)
                      ...|..+...+...|++++|++.|+++.+.. +.+...+..+...+...|++++|.+.++++.+.. +.+..++..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            5778999999999999999999999998753 3367788889999999999999999999998875 4577889999999


Q ss_pred             hHhcCCHHHHHHHHccCCC----C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH
Q 047393           91 NSRCGKIDDADLAFKSTPE----K-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGE  165 (373)
Q Consensus        91 ~~~~g~~~~A~~~~~~m~~----~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  165 (373)
                      |.+.|++++|.+.|++..+    | +...|..+...+...|++++|.+.+++..+.. +.+..++..+...+...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999998765    3 46778889999999999999999999998874 4468889999999999999999


Q ss_pred             HHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHH
Q 047393          166 AYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWR  220 (373)
Q Consensus       166 a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  220 (373)
                      |...++.+.+.  .+.+...+..+...+.+.|+.++|.++++++....|+...+.
T Consensus       194 A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  246 (252)
T 2ho1_A          194 ARQYYDLFAQG--GGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSLEYQ  246 (252)
T ss_dssp             HHHHHHHHHTT--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSHHHH
T ss_pred             HHHHHHHHHHh--CcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCHHHH
Confidence            99999998653  345677888999999999999999999999766666544433

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.60  E-value=3e-13  Score=114.51  Aligned_cols=167  Identities=10%  Similarity=-0.039  Sum_probs=127.4

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCC-CchHHHHHHHHHHHHcCCCC-chhHHHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNP-ILLNVGTQAQAYMTKRGLIS-HPAVGNC   86 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~-~~~~~a~~~~~~m~~~g~~~-~~~~~~~   86 (373)
                      .+..+|..+...|...|++++|.+.|+++.+.. +.+..++..+...+... |++++|...++.+.+.+..| +...+..
T Consensus        40 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~  118 (225)
T 2vq2_A           40 KNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLN  118 (225)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHH
T ss_pred             cchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHH
Confidence            457789999999999999999999999998753 33667888899999999 99999999999998733333 3567777


Q ss_pred             HHHHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCH
Q 047393           87 LININSRCGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLV  163 (373)
Q Consensus        87 li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~  163 (373)
                      +...|.+.|++++|.+.|++..+   .+...+..+...+.+.|++++|.+.+++..+.....+...+..+...+...|+.
T Consensus       119 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  198 (225)
T 2vq2_A          119 KGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNA  198 (225)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcH
Confidence            88888888888888888876542   346677777777777788888877777776653214566666666677777777


Q ss_pred             HHHHHHHHHhHHH
Q 047393          164 GEAYRLFLSMEEV  176 (373)
Q Consensus       164 ~~a~~~~~~m~~~  176 (373)
                      +.|..+++.+.+.
T Consensus       199 ~~a~~~~~~~~~~  211 (225)
T 2vq2_A          199 QAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            7777777777543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.59  E-value=4.7e-14  Score=121.21  Aligned_cols=197  Identities=13%  Similarity=0.018  Sum_probs=109.7

Q ss_pred             HHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhC
Q 047393           49 ICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNH  125 (373)
Q Consensus        49 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~  125 (373)
                      +..+...+.+.|++++|...++.+.+.. +.+..++..+...|.+.|++++|.+.|++..   ..+..+|..+...+...
T Consensus        26 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~  104 (243)
T 2q7f_A           26 GGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVK  104 (243)
T ss_dssp             ----------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHh
Confidence            3333334444444444444444443322 2234444444444455555555555444432   12445556666666666


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHH
Q 047393          126 GHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEF  205 (373)
Q Consensus       126 g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  205 (373)
                      |++++|.+.++++.+.. +.+...+..+...+.+.|++++|..+++++.+..  +.+...+..+...+.+.|++++|.+.
T Consensus       105 ~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~  181 (243)
T 2q7f_A          105 EMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN--ENDTEARFQFGMCLANEGMLDEALSQ  181 (243)
T ss_dssp             TCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHcCCHHHHHHH
Confidence            66666666666666553 3355666666667777777777777777765441  33556666777777777777777777


Q ss_pred             HHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          206 IKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       206 ~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      |++++...| +..+|..+...+...|++++|...++++.+..|++
T Consensus       182 ~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~  226 (243)
T 2q7f_A          182 FAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDH  226 (243)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcch
Confidence            777555444 46677777777777777777777777777777665

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.59  E-value=1.8e-13  Score=116.50  Aligned_cols=193  Identities=16%  Similarity=-0.022  Sum_probs=122.0

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCL   87 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l   87 (373)
                      ++...|..+...+.+.|++++|+..|++..+.  .| +...+..+..++.+.|++++|...+++.++.. +.+...+..+
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKE--NPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--SSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            45667888888888999999999999888764  34 55677888888888899999999998887765 4456777778


Q ss_pred             HHHhHhc-----------CCHHHHHHHHccCC--CC-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 047393           88 ININSRC-----------GKIDDADLAFKSTP--EK-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSA  153 (373)
Q Consensus        88 i~~~~~~-----------g~~~~A~~~~~~m~--~~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~l  153 (373)
                      ...|.+.           |++++|...|++..  .| +...|..+...+...|++++|+..|++..+..  .+...+..+
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~l  157 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHH
Confidence            8888777           66666666665543  22 45556666666666666666666666665554  455566666


Q ss_pred             HHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHh
Q 047393          154 LKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       154 l~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                      ..++...|++++|...|++..+..  +.+...+..+...+.+.|+.++|.+.|++
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~--P~~~~~~~~la~~~~~~g~~~~A~~~~~~  210 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQA--PKDLDLRVRYASALLLKGKAEEAARAAAL  210 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTC-------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            666666666666666666654431  22445555555666666666666666555

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.59  E-value=2.3e-13  Score=131.04  Aligned_cols=232  Identities=9%  Similarity=-0.041  Sum_probs=162.4

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHh
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININ   91 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~   91 (373)
                      ..|..+...+.+.|++++|++.|+++.+.. +.+..++..+..++.+.|++++|.+.++.+.+.. +.+..++..+..+|
T Consensus        26 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~  103 (537)
T 3fp2_A           26 VQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASAN  103 (537)
T ss_dssp             HHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHH
Confidence            456666667777777777777777776642 2255666667777777777777777777776654 34566666677777


Q ss_pred             HhcCCHHHHHHHHccC----------------------------------------------------------------
Q 047393           92 SRCGKIDDADLAFKST----------------------------------------------------------------  107 (373)
Q Consensus        92 ~~~g~~~~A~~~~~~m----------------------------------------------------------------  107 (373)
                      .+.|++++|.+.|+.+                                                                
T Consensus       104 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (537)
T 3fp2_A          104 ESLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSV  183 (537)
T ss_dssp             HHHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTS
T ss_pred             HHcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHH
Confidence            7777777776655322                                                                


Q ss_pred             ---------------------------------------------CC--CC--------hhHHHHHHHHHHhCCChHHHH
Q 047393          108 ---------------------------------------------PE--KN--------SLSWTFIISARVNHGHPSEAL  132 (373)
Q Consensus       108 ---------------------------------------------~~--~d--------~~~~~~li~~~~~~g~~~~A~  132 (373)
                                                                   .+  |+        ..+|..+...+...|++++|.
T Consensus       184 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~  263 (537)
T 3fp2_A          184 NTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQ  263 (537)
T ss_dssp             CCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHH
Confidence                                                         11  11        123455556677778888888


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCC
Q 047393          133 DLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPG  212 (373)
Q Consensus       133 ~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  212 (373)
                      +.|++..+.  .|+..++..+...+...|++++|...++++.+..  +.+..++..+...+...|++++|.+.|++++..
T Consensus       264 ~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  339 (537)
T 3fp2_A          264 VLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN--PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSL  339 (537)
T ss_dssp             HHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            888888775  4557777778888888888888888888876542  345677788888888888888888888886665


Q ss_pred             CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          213 KL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       213 ~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .| +...|..+...+...|++++|...++++.+..|++
T Consensus       340 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~  377 (537)
T 3fp2_A          340 NPENVYPYIQLACLLYKQGKFTESEAFFNETKLKFPTL  377 (537)
T ss_dssp             CTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            55 45778888888888888888888888888877766

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.59  E-value=7.2e-14  Score=118.91  Aligned_cols=197  Identities=14%  Similarity=-0.009  Sum_probs=158.2

Q ss_pred             CCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCC--CC-ChhHHHHHH
Q 047393           43 FIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTP--EK-NSLSWTFII  119 (373)
Q Consensus        43 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~--~~-d~~~~~~li  119 (373)
                      +++...+..+...+.+.|++++|...++..++.. +.+...+..+...+.+.|++++|...|++..  .| +...|..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTPRYLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHH
Confidence            4567788888899999999999999999998765 5568889999999999999999999999775  34 678899999


Q ss_pred             HHHHhC-----------CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHH
Q 047393          120 SARVNH-----------GHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSI  188 (373)
Q Consensus       120 ~~~~~~-----------g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~  188 (373)
                      ..+.+.           |++++|...|++..+.. +-+...+..+-..+...|++++|...|++..+. .  .+...+..
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~--~~~~~~~~  156 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLKQALAL-E--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C--CCHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHHHHHhc-c--cchHHHHH
Confidence            999999           99999999999998873 335788889999999999999999999999776 4  78888999


Q ss_pred             HHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          189 MVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       189 li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      +..+|...|++++|...|++++...| ++..+..+...+...|++++|...+++...
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  213 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEHH  213 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC----------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHhh
Confidence            99999999999999999999877677 678899999999999999999999887643

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.58  E-value=1.3e-12  Score=114.84  Aligned_cols=227  Identities=10%  Similarity=-0.088  Sum_probs=196.2

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcC----CCchHHHHHHHHHHHHcCCCCchhHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLN----PILLNVGTQAQAYMTKRGLISHPAVG   84 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~   84 (373)
                      -+..++..+-..|...|++++|++.|++..+.   -+...+..+...+..    .+++++|...|++..+.+   +...+
T Consensus         4 ~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~   77 (273)
T 1ouv_A            4 QDPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGC   77 (273)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            35678888899999999999999999999883   345677778888888    999999999999998876   67888


Q ss_pred             HHHHHHhHh----cCCHHHHHHHHccCCC-CChhHHHHHHHHHHh----CCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047393           85 NCLININSR----CGKIDDADLAFKSTPE-KNSLSWTFIISARVN----HGHPSEALDLFKDKQWRYTSMNPTTFRSALK  155 (373)
Q Consensus        85 ~~li~~~~~----~g~~~~A~~~~~~m~~-~d~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~  155 (373)
                      ..+...|.+    .+++++|.+.|++..+ .+..++..+...|..    .+++++|.+.|++..+.+   +...+..+-.
T Consensus        78 ~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~  154 (273)
T 1ouv_A           78 HLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGS  154 (273)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHH
Confidence            889999999    9999999999987654 477889999999999    999999999999999876   6777888888


Q ss_pred             HHHc----cCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHH
Q 047393          156 AYAL----MGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGR----AGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSR  227 (373)
Q Consensus       156 ~~~~----~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~  227 (373)
                      .|..    .+++++|...|++..+.    .+...+..+...|..    .++.++|.+.|+++++..| +..+..+...|.
T Consensus       155 ~~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~-~~a~~~l~~~~~  229 (273)
T 1ouv_A          155 LYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN-GGGCFNLGAMQY  229 (273)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC-HHHHHHHHHHHH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC-HHHHHHHHHHHH
Confidence            8887    99999999999998654    256778888899999    9999999999999776544 778888889999


Q ss_pred             H----cCCHHHHHHHHHHHhccCCCC
Q 047393          228 V----HGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       228 ~----~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .    .++.++|.+.+++..+.+|+.
T Consensus       230 ~g~~~~~~~~~A~~~~~~a~~~~~~~  255 (273)
T 1ouv_A          230 NGEGVTRNEKQAIENFKKGCKLGAKG  255 (273)
T ss_dssp             TTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             cCCCcccCHHHHHHHHHHHHHcCCHH
Confidence            8    999999999999999987754

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.57  E-value=9.5e-14  Score=119.28  Aligned_cols=210  Identities=12%  Similarity=-0.025  Sum_probs=160.8

Q ss_pred             CCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHH
Q 047393            8 SDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCL   87 (373)
Q Consensus         8 ~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l   87 (373)
                      ..+..+|..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|...++.+.+.. +.+..++..+
T Consensus        20 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l   97 (243)
T 2q7f_A           20 HMASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGA   97 (243)
T ss_dssp             ----------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHH
Confidence            3456778889999999999999999999998742 3367788889999999999999999999998775 4578889999


Q ss_pred             HHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHH
Q 047393           88 ININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVG  164 (373)
Q Consensus        88 i~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~  164 (373)
                      ...|.+.|++++|.+.|++..   ..+...|..+...+.+.|++++|.+.++++.+.. +.+...+..+...+.+.|+++
T Consensus        98 a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A           98 GNVYVVKEMYKEAKDMFEKALRAGMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHH
Confidence            999999999999999998765   3477889999999999999999999999998763 457888999999999999999


Q ss_pred             HHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-HHHHHHH
Q 047393          165 EAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC-PLIWRTL  222 (373)
Q Consensus       165 ~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l  222 (373)
                      +|...++++.+..  +.+..++..+...|.+.|+.++|.+.+++++...|+ ...+..+
T Consensus       177 ~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~  233 (243)
T 2q7f_A          177 EALSQFAAVTEQD--PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHMLALHAK  233 (243)
T ss_dssp             HHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhC--cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHHHHHHH
Confidence            9999999997652  446788999999999999999999999997776664 4444443

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.54  E-value=2.4e-12  Score=118.93  Aligned_cols=231  Identities=10%  Similarity=-0.040  Sum_probs=196.2

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCCc-hHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFI-DSYSICDILNSCLNPIL-LNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~~-~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      ...|+.+-..+.+.|++++|++.|++....  .| +...|+.+..++...|+ +++|...+++.++.. +-+...|+.+.
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l--~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g  173 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRR  173 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHH
Confidence            467888999999999999999999999984  46 45678889999999997 999999999999876 45788999999


Q ss_pred             HHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc-cCCHH
Q 047393           89 NINSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYAL-MGLVG  164 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~-~g~~~  164 (373)
                      .+|.+.|++++|+..|++..   ..+..+|..+..++.+.|++++|++.|+++++.. +-+...|+.+..++.+ .|..+
T Consensus       174 ~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          174 VLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcch
Confidence            99999999999999999876   3478899999999999999999999999999875 3478899999999988 66657


Q ss_pred             HH-----HHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcC--CHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcC-----
Q 047393          165 EA-----YRLFLSMEEVYHIEP-SEEHYSIMVEALGRAG--MFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHG-----  230 (373)
Q Consensus       165 ~a-----~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g-----  230 (373)
                      +|     ...+++..+.   .| +...|+.+...+.+.|  +.++|.+.+.++ +..| +...+..+...|.+.|     
T Consensus       253 eA~~~~el~~~~~Al~l---~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~  328 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKL---VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCD  328 (382)
T ss_dssp             HHHHHHHHHHHHHHHHH---STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhccccc
Confidence            77     5788887664   45 6678888888899888  689999999995 6556 5688899999998874     


Q ss_pred             ----CHHHHHHHHHHH-hccCCCC
Q 047393          231 ----DMKLAKYALDKL-LELDPGM  249 (373)
Q Consensus       231 ----~~~~A~~~~~~m-~~~~P~~  249 (373)
                          ..++|.++++++ .+++|..
T Consensus       329 ~~~~~~~~A~~~~~~l~~~~DP~r  352 (382)
T 2h6f_A          329 NKEDILNKALELCEILAKEKDTIR  352 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHTTCGGG
T ss_pred             chHHHHHHHHHHHHHHHHHhCchh
Confidence                358999999999 8888643

>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=99.51  E-value=1.2e-13  Score=127.38  Aligned_cols=207  Identities=13%  Similarity=0.039  Sum_probs=115.2

Q ss_pred             CCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHH
Q 047393            8 SDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCL   87 (373)
Q Consensus         8 ~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l   87 (373)
                      .+|..+|..++.++...|++++|...++...+.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|+.+
T Consensus        58 a~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~I  128 (449)
T 1b89_A           58 ADDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQV  128 (449)
T ss_dssp             -----------------------------------------------------CHHHHTTTTT-------CC--------
T ss_pred             CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHH
Confidence            478889999999999999999999977766653  4667889999999999999999998884       4788899999


Q ss_pred             HHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHH
Q 047393           88 ININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAY  167 (373)
Q Consensus        88 i~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~  167 (373)
                      .+.|...|.+++|...|..+     ..|..++.++.+.|++++|.+.++++      .+..||..++.+|...|+++.|.
T Consensus       129 Gd~~~~~g~yeeA~~~Y~~a-----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~  197 (449)
T 1b89_A          129 GDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQ  197 (449)
T ss_dssp             --------CTTTHHHHHHHT-----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHh-----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHH
Confidence            99999999999999999988     48999999999999999999999988      38899999999999999999995


Q ss_pred             HHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcC--CHHHHHHHHH
Q 047393          168 RLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHG--DMKLAKYALD  240 (373)
Q Consensus       168 ~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g--~~~~A~~~~~  240 (373)
                      .....+      ...+.....++..|.+.|++++|..+++..+..++ ....|+-|.-+|++-+  +..+..++|.
T Consensus       198 ~~~l~L------~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le~ah~~~ftel~il~~ky~p~k~~ehl~~~~  267 (449)
T 1b89_A          198 MCGLHI------VVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFW  267 (449)
T ss_dssp             HTTTTT------TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHS
T ss_pred             HHHHHH------HhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            544432      23334455799999999999999999999888655 5788888888887653  4455555544

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.49  E-value=8.2e-13  Score=115.61  Aligned_cols=221  Identities=6%  Similarity=-0.182  Sum_probs=175.3

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      +..+|..+...+...|++++|++.|+++.+.. +.+..++..+...+...|++++|...++..++.. +.+..++..+..
T Consensus        42 ~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~  119 (275)
T 1xnf_A           42 RAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGI  119 (275)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-ccccHHHHHHHH
Confidence            56789999999999999999999999998853 2367889999999999999999999999998875 456889999999


Q ss_pred             HhHhcCCHHHHHHHHccCC--CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHH
Q 047393           90 INSRCGKIDDADLAFKSTP--EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAY  167 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~--~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~  167 (373)
                      .|.+.|++++|.+.|+++.  .|+.......+..+...|++++|...+++..... +++...+. ++..+...++.++|.
T Consensus       120 ~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~a~  197 (275)
T 1xnf_A          120 ALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS-DKEQWGWN-IVEFYLGNISEQTLM  197 (275)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS-CCCSTHHH-HHHHHTTSSCHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CcchHHHH-HHHHHHHhcCHHHHH
Confidence            9999999999999999876  3544444555556677799999999998887763 34444444 677778888999999


Q ss_pred             HHHHHhHHHcCCCCC-----HhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047393          168 RLFLSMEEVYHIEPS-----EEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYAL  239 (373)
Q Consensus       168 ~~~~~m~~~~g~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  239 (373)
                      ..++...+   ..|+     ..++..+...|.+.|++++|...|++++...|+.  +.....++...|++++|.+.+
T Consensus       198 ~~~~~~~~---~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          198 ERLKADAT---DNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHHHCC---SHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTT--CHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHhc---ccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchh--HHHHHHHHHHHHHHHhhHHHH
Confidence            99987643   2332     5788899999999999999999999988877743  223355677788888887765

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.49  E-value=1.7e-11  Score=109.97  Aligned_cols=236  Identities=8%  Similarity=-0.036  Sum_probs=185.4

Q ss_pred             ChhHHHHHHHHHHHc----CCH----hHHHHHHHHHHhcCCCCCHHHHHHHHHHHc-------CCCch-------HHHHH
Q 047393           10 VEIPWNLLLKACIKA----KDY----EMVHELLERIQLCCGFIDSYSICDILNSCL-------NPILL-------NVGTQ   67 (373)
Q Consensus        10 ~~~~~n~li~~~~~~----g~~----~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~-------~~~~~-------~~a~~   67 (373)
                      +...|...+.---+.    ++.    ++|..+|++..... +-+...|..+...+.       +.|++       ++|..
T Consensus         7 ~~~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~   85 (308)
T 2ond_A            7 QVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAAN   85 (308)
T ss_dssp             HHHHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHH
Confidence            345677777754443    233    68899999998742 235566777766664       35775       89999


Q ss_pred             HHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC--C-Chh-HHHHHHHHHHhCCChHHHHHHHHHHHHcCC
Q 047393           68 AQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE--K-NSL-SWTFIISARVNHGHPSEALDLFKDKQWRYT  143 (373)
Q Consensus        68 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~-d~~-~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  143 (373)
                      +|++.++.--+-+...|..++..+.+.|++++|.++|++..+  | +.. .|..+...+.+.|++++|..+|++..+.. 
T Consensus        86 ~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-  164 (308)
T 2ond_A           86 IYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-  164 (308)
T ss_dssp             HHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-
Confidence            999998742234567899999999999999999999998764  3 343 89999999999999999999999998864 


Q ss_pred             CCCHHHHHHHHHHH-HccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCC---CC--CHH
Q 047393          144 SMNPTTFRSALKAY-ALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPG---KL--CPL  217 (373)
Q Consensus       144 ~p~~~t~~~ll~~~-~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~p--~~~  217 (373)
                      +++...|....... ...|+.++|..+|+...+..  +-+...|..++..+.+.|+.++|..+|++++..   .|  ...
T Consensus       165 p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~  242 (308)
T 2ond_A          165 RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGE  242 (308)
T ss_dssp             TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHH
T ss_pred             CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHH
Confidence            34455555443332 23799999999999997763  446788999999999999999999999997763   44  467


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          218 IWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       218 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .|..++....+.|+.+.|..+++++.+..|++
T Consensus       243 l~~~~~~~~~~~g~~~~a~~~~~~a~~~~p~~  274 (308)
T 2ond_A          243 IWARFLAFESNIGDLASILKVEKRRFTAFREE  274 (308)
T ss_dssp             HHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHcccc
Confidence            89999999999999999999999999988865

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.47  E-value=3.8e-12  Score=104.78  Aligned_cols=168  Identities=13%  Similarity=0.056  Sum_probs=135.2

Q ss_pred             CchhHHHHHHHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047393           79 SHPAVGNCLININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALK  155 (373)
Q Consensus        79 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~  155 (373)
                      .+..+|..+...|.+.|++++|++.|++..   ..+..+|..+...|.+.|++++|...+....... +-+...+..+..
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~   81 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGS   81 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHH
Confidence            356678888888888888888888888765   2367788888888888899999988888887763 345667777777


Q ss_pred             HHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHH
Q 047393          156 AYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKL  234 (373)
Q Consensus       156 ~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~  234 (373)
                      .+...++++.|...+.+..+..  +.+...+..+...|.+.|++++|.+.|+++++..| ++.+|..+..+|.+.|++++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~~--~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIALN--TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHH
Confidence            8888899999999998886542  34677888888899999999999999988777666 57788889999999999999


Q ss_pred             HHHHHHHHhccCCCC
Q 047393          235 AKYALDKLLELDPGM  249 (373)
Q Consensus       235 A~~~~~~m~~~~P~~  249 (373)
                      |.+.|++.++++|++
T Consensus       160 A~~~~~~al~~~p~~  174 (184)
T 3vtx_A          160 AVKYFKKALEKEEKK  174 (184)
T ss_dssp             HHHHHHHHHHTTHHH
T ss_pred             HHHHHHHHHhCCccC
Confidence            999999999888754

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.47  E-value=2.8e-13  Score=120.64  Aligned_cols=239  Identities=12%  Similarity=-0.025  Sum_probs=172.3

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhc-------CCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHc------C
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLC-------CGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKR------G   76 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~-------g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------g   76 (373)
                      +..+|..+...+...|++++|+++|+++.+.       .......++..+...+...|++++|...+++..+.      +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            4577999999999999999999999998873       22224567888889999999999999999998764      2


Q ss_pred             C-CCchhHHHHHHHHhHhcCCHHHHHHHHccCCC----------C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHc---
Q 047393           77 L-ISHPAVGNCLININSRCGKIDDADLAFKSTPE----------K-NSLSWTFIISARVNHGHPSEALDLFKDKQWR---  141 (373)
Q Consensus        77 ~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----------~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~---  141 (373)
                      - +....++..+...|...|++++|.+.|++..+          + ...++..+...+...|++++|.+.+++..+.   
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  185 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQT  185 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            2 23466888999999999999999999986642          1 3567888899999999999999999998764   


Q ss_pred             ---CCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHhHHHc------CCCCCH-------hHHHHHHHHHHhcCCHHHHHH
Q 047393          142 ---YTSMN-PTTFRSALKAYALMGLVGEAYRLFLSMEEVY------HIEPSE-------EHYSIMVEALGRAGMFEEVLE  204 (373)
Q Consensus       142 ---g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~------g~~p~~-------~~~~~li~~~~~~g~~~~A~~  204 (373)
                         +-.|+ ..++..+...+...|++++|...++++.+..      ...+..       ..+..+...+...+.+.+|..
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  265 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGG  265 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC-
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHH
Confidence               22332 4578888999999999999999999986531      112211       222233334444556666666


Q ss_pred             HHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          205 FIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       205 ~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      .+.......| ...+|..+...|.+.|++++|...+++..++.|+
T Consensus       266 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          266 WYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             HHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            7776444344 4578999999999999999999999999886653

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.44  E-value=2.7e-12  Score=110.91  Aligned_cols=191  Identities=9%  Similarity=-0.027  Sum_probs=165.5

Q ss_pred             HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC--C----C----hhHH
Q 047393           46 SYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE--K----N----SLSW  115 (373)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~----d----~~~~  115 (373)
                      ...+..+...+...|++++|...++...+..  .+..++..+...|.+.|++++|.+.|++..+  |    +    ..+|
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            3567778888999999999999999998887  7889999999999999999999999987763  1    1    5788


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHh
Q 047393          116 TFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGR  195 (373)
Q Consensus       116 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~  195 (373)
                      ..+...+...|++++|.+.|++..+.  .|+.       ..+.+.|++++|...++.+...  .+.+...+..+...+..
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~  151 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYV--NPEKAEEARLEGKEYFT  151 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHc--CcchHHHHHHHHHHHHH
Confidence            99999999999999999999999886  4553       3466778999999999998653  23356788899999999


Q ss_pred             cCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          196 AGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       196 ~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .|++++|.+.|++++...| ++.+|..+...+...|++++|...++++.+..|+.
T Consensus       152 ~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~  206 (258)
T 3uq3_A          152 KSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNF  206 (258)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             hcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHH
Confidence            9999999999999777555 68899999999999999999999999999988876

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.43  E-value=1.8e-11  Score=106.99  Aligned_cols=215  Identities=10%  Similarity=-0.103  Sum_probs=170.4

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCC--HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFID--SYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCL   87 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l   87 (373)
                      +..+|..+...|...|++++|++.|++..+.+-.|+  ..+|..+...+...|++++|...++...+.. +.+..++..+
T Consensus        36 ~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l  114 (272)
T 3u4t_A           36 SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAIQQYQAAVDRD-TTRLDMYGQI  114 (272)
T ss_dssp             CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcC-cccHHHHHHH
Confidence            455888899999999999999999999988432222  2348889999999999999999999998865 4567899999


Q ss_pred             HHHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC--
Q 047393           88 ININSRCGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGL--  162 (373)
Q Consensus        88 i~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~--  162 (373)
                      ...|.+.|++++|.+.|++..+   .+..+|..+...+...+++++|.+.|++..+.. +.+...+..+...+...|+  
T Consensus       115 ~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~  193 (272)
T 3u4t_A          115 GSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDT  193 (272)
T ss_dssp             HHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcch
Confidence            9999999999999999998874   356777777734444569999999999998873 3347788888888888888  


Q ss_pred             -HHHHHHHHHHhHHHcCCCCCH------hHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-HHHHHHHHHHH
Q 047393          163 -VGEAYRLFLSMEEVYHIEPSE------EHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC-PLIWRTLLLSS  226 (373)
Q Consensus       163 -~~~a~~~~~~m~~~~g~~p~~------~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~li~~~  226 (373)
                       .++|...+++..+...-.|+.      ..|..+...|.+.|++++|.+.|++++...|+ +..+..+-...
T Consensus       194 ~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~  265 (272)
T 3u4t_A          194 KQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALDPTNKKAIDGLKMKL  265 (272)
T ss_dssp             SSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHC---
T ss_pred             hhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCccHHHHHHHhhhhh
Confidence             888999998887654333542      57788899999999999999999998877774 55555544443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.41  E-value=8.2e-12  Score=118.99  Aligned_cols=209  Identities=11%  Similarity=-0.031  Sum_probs=166.6

Q ss_pred             HhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCch-HHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHc
Q 047393           27 YEMVHELLERIQLCCGFIDSYSICDILNSCLNPILL-NVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFK  105 (373)
Q Consensus        27 ~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~-~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  105 (373)
                      ++++++.+++.... .+.+...+..+..++...|++ ++|.+.|++.++.. +.+...|..+...|.+.|++++|.+.|+
T Consensus        84 ~~~al~~l~~~~~~-~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGS-AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTT-CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc-CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            45566666655442 223667788888888999999 99999999988765 4457888889999999999999999998


Q ss_pred             cCC--CCChhHHHHHHHHHHhC---------CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc--------CCHHHH
Q 047393          106 STP--EKNSLSWTFIISARVNH---------GHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALM--------GLVGEA  166 (373)
Q Consensus       106 ~m~--~~d~~~~~~li~~~~~~---------g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~--------g~~~~a  166 (373)
                      +..  .|+..+|..+...|...         |++++|.+.|++..+.. +-+...|..+..+|...        |++++|
T Consensus       162 ~al~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A  240 (474)
T 4abn_A          162 GALTHCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQA  240 (474)
T ss_dssp             HHHTTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHhhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHH
Confidence            765  46677888888888888         99999999999988764 34577888888888888        889999


Q ss_pred             HHHHHHhHHHcCCCC----CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047393          167 YRLFLSMEEVYHIEP----SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDK  241 (373)
Q Consensus       167 ~~~~~~m~~~~g~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~  241 (373)
                      ...|++..+.   .|    +...|..+..+|.+.|++++|.+.|++++...| +...+..+...+...|+.++|.+.+.+
T Consensus       241 ~~~~~~al~~---~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          241 LSAYAQAEKV---DRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHH---CGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHh---CCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            9999988664   44    678888889999999999999999998777666 466788888888888888888875543

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.41  E-value=2.8e-11  Score=98.74  Aligned_cols=166  Identities=16%  Similarity=0.052  Sum_probs=144.8

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 047393           81 PAVGNCLININSRCGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAY  157 (373)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~  157 (373)
                      ...+..+...+.+.|++++|.+.|+++.+   .+..++..+...+...|++++|.+.+++..+.. +.+...+..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            45677788889999999999999998874   367888999999999999999999999998773 45678889999999


Q ss_pred             HccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHH
Q 047393          158 ALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAK  236 (373)
Q Consensus       158 ~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~  236 (373)
                      ...|++++|...++++.+..  +.+...+..+...+...|++++|.+.+++++...| ++..+..+...+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEAN--PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC--cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999999997652  45778888999999999999999999999776555 6789999999999999999999


Q ss_pred             HHHHHHhccCCCC
Q 047393          237 YALDKLLELDPGM  249 (373)
Q Consensus       237 ~~~~~m~~~~P~~  249 (373)
                      ..++++.+..|++
T Consensus       165 ~~~~~~~~~~~~~  177 (186)
T 3as5_A          165 PHFKKANELDEGA  177 (186)
T ss_dssp             HHHHHHHHHHHCC
T ss_pred             HHHHHHHHcCCCc
Confidence            9999999877665

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.38  E-value=3.1e-11  Score=99.24  Aligned_cols=160  Identities=11%  Similarity=-0.011  Sum_probs=87.9

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      +...|..+-..|.+.|++++|++.|++..+.  .| +..++..+..++.+.|++++|...+....... +.+...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKA--DPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHH
Confidence            4556777777777777777777777776653  34 34456666666666666666666666665543 23344455555


Q ss_pred             HHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH
Q 047393           89 NINSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGE  165 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  165 (373)
                      ..+...++++.|.+.+++..   ..+..++..+...|.+.|++++|++.|++..+.. +.+..+|..+..+|.+.|++++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHH
Confidence            55555555555555554432   1234444455555555555555555555544432 2234444444445555555555


Q ss_pred             HHHHHHHh
Q 047393          166 AYRLFLSM  173 (373)
Q Consensus       166 a~~~~~~m  173 (373)
                      |...|++.
T Consensus       160 A~~~~~~a  167 (184)
T 3vtx_A          160 AVKYFKKA  167 (184)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55555444

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.34  E-value=1.7e-11  Score=113.33  Aligned_cols=236  Identities=14%  Similarity=-0.006  Sum_probs=185.8

Q ss_pred             CCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCC-----HHHHHHHHHHHcCCCchHHHHHHHHHHHHc----CCC
Q 047393            8 SDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFID-----SYSICDILNSCLNPILLNVGTQAQAYMTKR----GLI   78 (373)
Q Consensus         8 ~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~   78 (373)
                      ++....+......+...|++++|...|++..+.+  |+     ...+..+...+...|++++|...+++..+.    +-.
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~   83 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQ   83 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcccc
Confidence            4566777888889999999999999999998863  43     356788888999999999999999987543    222


Q ss_pred             C-chhHHHHHHHHhHhcCCHHHHHHHHccCCC-----CC----hhHHHHHHHHHHhCCC--------------------h
Q 047393           79 S-HPAVGNCLININSRCGKIDDADLAFKSTPE-----KN----SLSWTFIISARVNHGH--------------------P  128 (373)
Q Consensus        79 ~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~d----~~~~~~li~~~~~~g~--------------------~  128 (373)
                      | ...++..+...|...|++++|...|++..+     ++    ..++..+...|...|+                    +
T Consensus        84 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~  163 (406)
T 3sf4_A           84 LGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDAL  163 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHH
Confidence            2 255788888999999999999999887652     22    4578888999999999                    9


Q ss_pred             HHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC----HhHHHHHHHHHHhcCCH
Q 047393          129 SEALDLFKDKQWR----YTSM-NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS----EEHYSIMVEALGRAGMF  199 (373)
Q Consensus       129 ~~A~~l~~~m~~~----g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~----~~~~~~li~~~~~~g~~  199 (373)
                      ++|.+.+++..+.    +-.| ...++..+...+...|++++|...+++..+...-.++    ..++..+...|...|++
T Consensus       164 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  243 (406)
T 3sf4_A          164 QAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEF  243 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCh
Confidence            9999998886542    2111 2357788888999999999999999988654221222    34788889999999999


Q ss_pred             HHHHHHHHhhCCCCC---C----HHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          200 EEVLEFIKGIVPGKL---C----PLIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       200 ~~A~~~~~~~~~~~p---~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      ++|...+++++...|   +    ..++..+...+...|++++|...+++..++
T Consensus       244 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  296 (406)
T 3sf4_A          244 ETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  296 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence            999999998664221   2    468889999999999999999999998874

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.32  E-value=6.2e-10  Score=97.52  Aligned_cols=192  Identities=9%  Similarity=-0.064  Sum_probs=166.5

Q ss_pred             CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHh----cCCHHHHHHHHccCCC-CChhHHHHHH
Q 047393           45 DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSR----CGKIDDADLAFKSTPE-KNSLSWTFII  119 (373)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~-~d~~~~~~li  119 (373)
                      +..++..+...+...|++++|.+.|+...+.   -+...+..+...|.+    .+++++|.+.|++..+ .+..++..+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg   81 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLG   81 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4567777888888999999999999999883   356778888899999    9999999999987653 4788899999


Q ss_pred             HHHHh----CCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHH
Q 047393          120 SARVN----HGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYAL----MGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE  191 (373)
Q Consensus       120 ~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  191 (373)
                      ..|..    .+++++|.+.|++..+.+   +..++..+-..|..    .+++++|...|++..+. +   +...+..+..
T Consensus        82 ~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~  154 (273)
T 1ouv_A           82 NLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL-N---DGDGCTILGS  154 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHH
T ss_pred             HHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhc-C---cHHHHHHHHH
Confidence            99999    999999999999998875   78889999999998    99999999999999664 3   5667788888


Q ss_pred             HHHh----cCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHhccCC
Q 047393          192 ALGR----AGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRV----HGDMKLAKYALDKLLELDP  247 (373)
Q Consensus       192 ~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~P  247 (373)
                      .|..    .++.++|.+.|+++... .++..+..+...|..    .+++++|...+++..+.+|
T Consensus       155 ~~~~~~~~~~~~~~A~~~~~~a~~~-~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~  217 (273)
T 1ouv_A          155 LYDAGRGTPKDLKKALASYDKACDL-KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN  217 (273)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHC-CCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC
Confidence            8888    99999999999997663 467888889999999    9999999999999988654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.32  E-value=1.5e-10  Score=103.69  Aligned_cols=202  Identities=12%  Similarity=0.045  Sum_probs=161.2

Q ss_pred             ChhHHHHHHHHHH-------HcCCH-------hHHHHHHHHHHhcCCCCC-HHHHHHHHHHHcCCCchHHHHHHHHHHHH
Q 047393           10 VEIPWNLLLKACI-------KAKDY-------EMVHELLERIQLCCGFID-SYSICDILNSCLNPILLNVGTQAQAYMTK   74 (373)
Q Consensus        10 ~~~~~n~li~~~~-------~~g~~-------~~A~~l~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   74 (373)
                      +...|..+...+.       +.|++       ++|..+|++..+. +.|+ ...|..+...+.+.|++++|..+|++.++
T Consensus        49 ~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~-~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  127 (308)
T 2ond_A           49 HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST-LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA  127 (308)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTT-TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHH-hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            5567877777765       35886       8999999999873 3464 45788999999999999999999999987


Q ss_pred             cCCCCc-hh-HHHHHHHHhHhcCCHHHHHHHHccCCC--C-ChhHHHHHHHHH-HhCCChHHHHHHHHHHHHcCCCCCHH
Q 047393           75 RGLISH-PA-VGNCLININSRCGKIDDADLAFKSTPE--K-NSLSWTFIISAR-VNHGHPSEALDLFKDKQWRYTSMNPT  148 (373)
Q Consensus        75 ~g~~~~-~~-~~~~li~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~-~~~g~~~~A~~l~~~m~~~g~~p~~~  148 (373)
                      .  .|+ .. +|..+...+.+.|++++|..+|++..+  | +...|....... ...|++++|..+|++..+.. +-+..
T Consensus       128 ~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~  204 (308)
T 2ond_A          128 I--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPE  204 (308)
T ss_dssp             S--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHH
T ss_pred             c--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHH
Confidence            4  454 43 899999999999999999999998764  2 344454333332 23799999999999988763 34678


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC--CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC
Q 047393          149 TFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP--SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC  215 (373)
Q Consensus       149 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  215 (373)
                      .|..++..+.+.|++++|..+|++......++|  ....|..++..+.+.|+.++|..++++++...|+
T Consensus       205 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~~p~  273 (308)
T 2ond_A          205 YVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFRE  273 (308)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHccc
Confidence            899999999999999999999999976423465  4678899999999999999999999997765564

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.31  E-value=4e-11  Score=107.33  Aligned_cols=233  Identities=14%  Similarity=-0.002  Sum_probs=180.6

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCC-----HHHHHHHHHHHcCCCchHHHHHHHHHHHHc----CCCC-c
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFID-----SYSICDILNSCLNPILLNVGTQAQAYMTKR----GLIS-H   80 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~~-~   80 (373)
                      ...+......+...|++++|.+.|+++.+..  |+     ...+..+...+...|++++|.+.++...+.    +-.| .
T Consensus         5 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~   82 (338)
T 3ro2_A            5 CLELALEGERLCKSGDCRAGVSFFEAAVQVG--TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGE   82 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHH
Confidence            3455666778889999999999999998853  43     356788888999999999999999886543    2222 2


Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHccCCC-----CC----hhHHHHHHHHHHhCCC--------------------hHHH
Q 047393           81 PAVGNCLININSRCGKIDDADLAFKSTPE-----KN----SLSWTFIISARVNHGH--------------------PSEA  131 (373)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~d----~~~~~~li~~~~~~g~--------------------~~~A  131 (373)
                      ..++..+...|...|++++|...|++..+     ++    ..++..+...+...|+                    +++|
T Consensus        83 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A  162 (338)
T 3ro2_A           83 AKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAA  162 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHH
Confidence            56788889999999999999999887542     22    4478888899999999                    9999


Q ss_pred             HHHHHHHHHc----CCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC----HhHHHHHHHHHHhcCCHHHH
Q 047393          132 LDLFKDKQWR----YTSM-NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS----EEHYSIMVEALGRAGMFEEV  202 (373)
Q Consensus       132 ~~l~~~m~~~----g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~----~~~~~~li~~~~~~g~~~~A  202 (373)
                      .+.+++..+.    +-.| ...++..+...+...|++++|...+++..+...-.++    ..++..+...+...|++++|
T Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  242 (338)
T 3ro2_A          163 VDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETA  242 (338)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHH
Confidence            9998886532    2111 2347778888899999999999999987643211122    34788888999999999999


Q ss_pred             HHHHHhhCCCC---CC----HHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          203 LEFIKGIVPGK---LC----PLIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       203 ~~~~~~~~~~~---p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      .+.+++++...   ++    ..++..+...+...|++++|...+++..+.
T Consensus       243 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  292 (338)
T 3ro2_A          243 SEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAI  292 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            99999865422   12    568888899999999999999999998874

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.31  E-value=6.8e-11  Score=109.14  Aligned_cols=198  Identities=9%  Similarity=-0.034  Sum_probs=171.5

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCC-HHHHHHHHccCCC---CChhHHHHHHHHH
Q 047393           47 YSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGK-IDDADLAFKSTPE---KNSLSWTFIISAR  122 (373)
Q Consensus        47 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~---~d~~~~~~li~~~  122 (373)
                      ..|..+..++.+.|++++|...++..++.. +-+..+|+.+..+|.+.|+ +++|+..|++..+   .+...|+.+...+
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~  176 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            467778888889999999999999998875 4568899999999999997 9999999998763   4788999999999


Q ss_pred             HhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHh-cCCHHH
Q 047393          123 VNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGR-AGMFEE  201 (373)
Q Consensus       123 ~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~-~g~~~~  201 (373)
                      ...|++++|+..|+++.+.. +-+...|..+-.++.+.|++++|...++++.+..  +-+...|+.+..++.+ .|..++
T Consensus       177 ~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~--P~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED--VRNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCcchH
Confidence            99999999999999999874 4478899999999999999999999999997752  3367899999999999 677677


Q ss_pred             H-----HHHHHhhCCCCC-CHHHHHHHHHHHHHcC--CHHHHHHHHHHHhccCCCC
Q 047393          202 V-----LEFIKGIVPGKL-CPLIWRTLLLSSRVHG--DMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       202 A-----~~~~~~~~~~~p-~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~~P~~  249 (373)
                      |     ++.|++++...| +...|+.+...+...|  +.++|.+.+.++ +.+|+.
T Consensus       254 A~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~  308 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSS  308 (382)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCC
T ss_pred             HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCC
Confidence            7     588888787777 5789999999998888  689999999988 888877

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.31  E-value=2e-11  Score=113.49  Aligned_cols=232  Identities=11%  Similarity=-0.009  Sum_probs=181.8

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCC-H----HHHHHHHHHHcCCCchHHHHHHHHHHHHc----CC-CCch
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCGFID-S----YSICDILNSCLNPILLNVGTQAQAYMTKR----GL-ISHP   81 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~-~~~~   81 (373)
                      ..+..+...+...|++++|++.|++..+.  .|+ .    ..+..+...+...|++++|...+++..+.    +- +...
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  126 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQA--GTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEA  126 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHh--cccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHH
Confidence            44556677889999999999999999885  343 2    46788888899999999999999987653    21 2335


Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHccCCCC---------ChhHHHHHHHHHHhCCC-----------------hHHHHHHH
Q 047393           82 AVGNCLININSRCGKIDDADLAFKSTPEK---------NSLSWTFIISARVNHGH-----------------PSEALDLF  135 (373)
Q Consensus        82 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~---------d~~~~~~li~~~~~~g~-----------------~~~A~~l~  135 (373)
                      .++..+...|...|++++|...|++..+-         ...++..+...|...|+                 +++|.+.+
T Consensus       127 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~  206 (411)
T 4a1s_A          127 KSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFY  206 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHH
Confidence            67888999999999999999999876421         35578888999999999                 99999998


Q ss_pred             HHHHHc----CCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC----HhHHHHHHHHHHhcCCHHHHHHHH
Q 047393          136 KDKQWR----YTSM-NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS----EEHYSIMVEALGRAGMFEEVLEFI  206 (373)
Q Consensus       136 ~~m~~~----g~~p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~  206 (373)
                      ++..+.    +-.| ...++..+...+...|++++|...+++..+...-.++    ...+..+...|...|++++|.+.+
T Consensus       207 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  286 (411)
T 4a1s_A          207 QENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHY  286 (411)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHH
Confidence            886542    2112 2347788888999999999999999988654211112    237888899999999999999999


Q ss_pred             HhhCCCCC-------CHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          207 KGIVPGKL-------CPLIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       207 ~~~~~~~p-------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      ++++...|       ...++..+...+...|++++|...+++..+.
T Consensus       287 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  332 (411)
T 4a1s_A          287 KRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAI  332 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            88665222       1478888999999999999999999998874

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.29  E-value=1.4e-11  Score=114.51  Aligned_cols=235  Identities=10%  Similarity=-0.028  Sum_probs=184.2

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhc----CCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHc----CC-CCch
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLC----CGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKR----GL-ISHP   81 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~----g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~-~~~~   81 (373)
                      .+|..+...|...|++++|++.|++..+.    +-.| ...++..+...+...|++++|...+++..+.    +- +...
T Consensus        87 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  166 (411)
T 4a1s_A           87 AIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEG  166 (411)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHH
Confidence            57889999999999999999999987653    2122 3456888888999999999999999987654    21 2235


Q ss_pred             hHHHHHHHHhHhcCC-----------------HHHHHHHHccCCC-----C----ChhHHHHHHHHHHhCCChHHHHHHH
Q 047393           82 AVGNCLININSRCGK-----------------IDDADLAFKSTPE-----K----NSLSWTFIISARVNHGHPSEALDLF  135 (373)
Q Consensus        82 ~~~~~li~~~~~~g~-----------------~~~A~~~~~~m~~-----~----d~~~~~~li~~~~~~g~~~~A~~l~  135 (373)
                      .++..+...|...|+                 +++|.+.+++..+     .    ...+|..+...|...|++++|.+.+
T Consensus       167 ~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  246 (411)
T 4a1s_A          167 RALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHH  246 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            578888999999999                 9999988876532     1    2457888899999999999999999


Q ss_pred             HHHHHcCC-CCC----HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC----CHhHHHHHHHHHHhcCCHHHHHHHH
Q 047393          136 KDKQWRYT-SMN----PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP----SEEHYSIMVEALGRAGMFEEVLEFI  206 (373)
Q Consensus       136 ~~m~~~g~-~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p----~~~~~~~li~~~~~~g~~~~A~~~~  206 (373)
                      ++..+... .++    ..++..+...|...|++++|...+++......-..    ...++..+...|...|++++|.+.+
T Consensus       247 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  326 (411)
T 4a1s_A          247 QERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYH  326 (411)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            98865311 112    23788888999999999999999998765421111    2567888899999999999999999


Q ss_pred             HhhCCCCC---C----HHHHHHHHHHHHHcCCHHHHHHHHHHHhccC
Q 047393          207 KGIVPGKL---C----PLIWRTLLLSSRVHGDMKLAKYALDKLLELD  246 (373)
Q Consensus       207 ~~~~~~~p---~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  246 (373)
                      ++++...+   +    ..++..+...|...|++++|...+++..++.
T Consensus       327 ~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  373 (411)
T 4a1s_A          327 NRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLA  373 (411)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHH
Confidence            98665221   1    3588889999999999999999999998853

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.29  E-value=6.7e-11  Score=112.67  Aligned_cols=183  Identities=10%  Similarity=-0.003  Sum_probs=159.6

Q ss_pred             hHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCH-HHHHHHHccCC--C-CChhHHHHHHHHHHhCCChHHHHHHHHH
Q 047393           62 LNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKI-DDADLAFKSTP--E-KNSLSWTFIISARVNHGHPSEALDLFKD  137 (373)
Q Consensus        62 ~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~m~--~-~d~~~~~~li~~~~~~g~~~~A~~l~~~  137 (373)
                      ++++.+.++...+.. +.+...+..+...|...|++ ++|++.|++..  . .+..+|..+...|.+.|++++|.+.|++
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            566666776655433 45788899999999999999 99999998875  2 3688999999999999999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHcc---------CCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhc--------CCHH
Q 047393          138 KQWRYTSMNPTTFRSALKAYALM---------GLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRA--------GMFE  200 (373)
Q Consensus       138 m~~~g~~p~~~t~~~ll~~~~~~---------g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~--------g~~~  200 (373)
                      ..+.  .|+..++..+...+...         |++++|...+++..+..  +-+...|..+..+|...        |+++
T Consensus       163 al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          163 ALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD--VLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            9886  57888999999999999         99999999999997652  34678899999999998        9999


Q ss_pred             HHHHHHHhhCCCCC----CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          201 EVLEFIKGIVPGKL----CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       201 ~A~~~~~~~~~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +|.+.|++++...|    ++..|..+..+|...|++++|...|++..+++|+.
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~  291 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAW  291 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            99999999887677    78899999999999999999999999999999877

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.27  E-value=2.4e-11  Score=108.78  Aligned_cols=237  Identities=10%  Similarity=-0.005  Sum_probs=182.0

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhc----CCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCC-CCc----
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLC----CGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGL-ISH----   80 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~----g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~-~~~----   80 (373)
                      ..+|..+...|...|++++|.+.+++....    +-.| ...++..+...+...|++++|...+++..+..- .++    
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  122 (338)
T 3ro2_A           43 SAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGE  122 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHH
Confidence            467889999999999999999999987542    2222 245678888899999999999999998755311 011    


Q ss_pred             hhHHHHHHHHhHhcCC--------------------HHHHHHHHccCCC-----C----ChhHHHHHHHHHHhCCChHHH
Q 047393           81 PAVGNCLININSRCGK--------------------IDDADLAFKSTPE-----K----NSLSWTFIISARVNHGHPSEA  131 (373)
Q Consensus        81 ~~~~~~li~~~~~~g~--------------------~~~A~~~~~~m~~-----~----d~~~~~~li~~~~~~g~~~~A  131 (373)
                      ..++..+...|...|+                    +++|.+.+++..+     +    ...++..+...+...|++++|
T Consensus       123 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  202 (338)
T 3ro2_A          123 ARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDA  202 (338)
T ss_dssp             HHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHH
Confidence            3478888899999999                    9999988876532     1    245788888999999999999


Q ss_pred             HHHHHHHHHcCC-CCC----HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC----HhHHHHHHHHHHhcCCHHHH
Q 047393          132 LDLFKDKQWRYT-SMN----PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS----EEHYSIMVEALGRAGMFEEV  202 (373)
Q Consensus       132 ~~l~~~m~~~g~-~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~----~~~~~~li~~~~~~g~~~~A  202 (373)
                      .+.+++..+... .++    ..++..+...+...|++++|...+++..+...-.++    ..++..+...|...|++++|
T Consensus       203 ~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  282 (338)
T 3ro2_A          203 VIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKA  282 (338)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHH
Confidence            999998764310 112    337888888999999999999999987643211122    56778888999999999999


Q ss_pred             HHHHHhhCCCCC---C----HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCC
Q 047393          203 LEFIKGIVPGKL---C----PLIWRTLLLSSRVHGDMKLAKYALDKLLELDP  247 (373)
Q Consensus       203 ~~~~~~~~~~~p---~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P  247 (373)
                      .+.+++++...+   +    ..++..+...+...|++++|...+++..++.+
T Consensus       283 ~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  334 (338)
T 3ro2_A          283 IDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISR  334 (338)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHH
Confidence            999998655221   2    35788899999999999999999999988543

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.27  E-value=2.5e-10  Score=97.19  Aligned_cols=195  Identities=11%  Similarity=0.010  Sum_probs=133.8

Q ss_pred             CCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC--C-ChhHHHHHHH
Q 047393           44 IDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE--K-NSLSWTFIIS  120 (373)
Q Consensus        44 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~  120 (373)
                      .|+..+......+.+.|++++|...|+..++..-+++...+..+..+|.+.|++++|.+.|++..+  | +..+|..+..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   84 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSA   84 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHH
Confidence            355677777788888888888888888887776436666766688888888888888888876542  2 4667777888


Q ss_pred             HHHhCCChHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC---HhHHHHHH
Q 047393          121 ARVNHGHPSEALDLFKDKQWRYTSMNP-------TTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS---EEHYSIMV  190 (373)
Q Consensus       121 ~~~~~g~~~~A~~l~~~m~~~g~~p~~-------~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~---~~~~~~li  190 (373)
                      .|...|++++|.+.+++..+.. +.+.       ..|..+-..+...|++++|...|++..+   +.|+   ...+..+.
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~l~  160 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD---VTSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SSCHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh---cCCCcccHHHHHHHH
Confidence            8888888888888888877653 2233       3466666777778888888888887743   3554   45666666


Q ss_pred             HHHHhcCCHHHHHHHHHhhCCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          191 EALGRAGMFEEVLEFIKGIVPG-KLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       191 ~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ..|...|+.     +++++... ..+...|....  ....+.+++|...+++..+++|++
T Consensus       161 ~~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~  213 (228)
T 4i17_A          161 VLFYNNGAD-----VLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNR  213 (228)
T ss_dssp             HHHHHHHHH-----HHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHH-----HHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCC
Confidence            666554432     23332221 22344444333  233456799999999999998876

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.25  E-value=3.5e-10  Score=104.34  Aligned_cols=228  Identities=7%  Similarity=-0.078  Sum_probs=177.0

Q ss_pred             HHHHHHHcCCHhHHHHHHHHHHhc----CCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcC--C---C-CchhHHH
Q 047393           17 LLKACIKAKDYEMVHELLERIQLC----CGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRG--L---I-SHPAVGN   85 (373)
Q Consensus        17 li~~~~~~g~~~~A~~l~~~m~~~----g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g--~---~-~~~~~~~   85 (373)
                      ....+...|++++|++.|++..+.    +-.+ ...++..+...+...|++++|...+.+..+.-  .   . ....+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            445567899999999999998763    1112 23578888899999999999999999876531  1   1 1245788


Q ss_pred             HHHHHhHhcCCHHHHHHHHccCCC-----CC----hhHHHHHHHHHHhCCChHHHHHHHHHHHHc----CC-CCCHHHHH
Q 047393           86 CLININSRCGKIDDADLAFKSTPE-----KN----SLSWTFIISARVNHGHPSEALDLFKDKQWR----YT-SMNPTTFR  151 (373)
Q Consensus        86 ~li~~~~~~g~~~~A~~~~~~m~~-----~d----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~-~p~~~t~~  151 (373)
                      .+...|...|++++|.+.|++..+     ++    ..+|..+...|...|++++|.+.+++..+.    +. +....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            889999999999999999986652     22    357888999999999999999999998762    33 33467888


Q ss_pred             HHHHHHHccCCHHHHHHHHHHhHHHc---CCCCCHhHHHHHHHHHHhcCC---HHHHHHHHHhhCCCCCC-HHHHHHHHH
Q 047393          152 SALKAYALMGLVGEAYRLFLSMEEVY---HIEPSEEHYSIMVEALGRAGM---FEEVLEFIKGIVPGKLC-PLIWRTLLL  224 (373)
Q Consensus       152 ~ll~~~~~~g~~~~a~~~~~~m~~~~---g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~p~-~~~~~~li~  224 (373)
                      .+...+.+.|++++|...+++..+..   +-+.....+..+...|...|+   .++|..++++ ....|+ ...+..+..
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~-~~~~~~~~~~~~~la~  347 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLES-KMLYADLEDFAIDVAK  347 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHH-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence            99999999999999999999876432   111223345677788888898   9999999999 553443 357788889


Q ss_pred             HHHHcCCHHHHHHHHHHHhcc
Q 047393          225 SSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       225 ~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      .|...|++++|...+++..++
T Consensus       348 ~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          348 YYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHH
Confidence            999999999999999998873

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.25  E-value=4.5e-10  Score=91.43  Aligned_cols=163  Identities=19%  Similarity=0.040  Sum_probs=118.7

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLINI   90 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~   90 (373)
                      ...|..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|...++.+.+.. +.+..++..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   85 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            3557778888889999999999998887542 2356677888888888889999998888887764 4456677777777


Q ss_pred             hHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHH
Q 047393           91 NSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAY  167 (373)
Q Consensus        91 ~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~  167 (373)
                      |.+.|++++|.+.|++..   ..+...+..+...+...|++++|.+.+++..+.. +.+..++..+...+...|++++|.
T Consensus        86 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           86 YVQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHH
Confidence            777788888877777654   2356666777777777777777777777776653 335566677777777777777777


Q ss_pred             HHHHHhHHH
Q 047393          168 RLFLSMEEV  176 (373)
Q Consensus       168 ~~~~~m~~~  176 (373)
                      ..++...+.
T Consensus       165 ~~~~~~~~~  173 (186)
T 3as5_A          165 PHFKKANEL  173 (186)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHc
Confidence            777766443

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.24  E-value=3.1e-10  Score=100.84  Aligned_cols=207  Identities=11%  Similarity=-0.042  Sum_probs=149.8

Q ss_pred             CHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHc----CCCCc-hhHHHHHHHHhHhcCCHHHH
Q 047393           26 DYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKR----GLISH-PAVGNCLININSRCGKIDDA  100 (373)
Q Consensus        26 ~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~~~-~~~~~~li~~~~~~g~~~~A  100 (373)
                      ++++|.+.|++.               ...+...|++++|...|.+..+.    |-+++ ..+|+.+..+|.+.|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            477777777665               34566778899998888877543    32222 46888888999999999999


Q ss_pred             HHHHccCCC-----CC----hhHHHHHHHHHHhC-CChHHHHHHHHHHHHcCCC-CC----HHHHHHHHHHHHccCCHHH
Q 047393          101 DLAFKSTPE-----KN----SLSWTFIISARVNH-GHPSEALDLFKDKQWRYTS-MN----PTTFRSALKAYALMGLVGE  165 (373)
Q Consensus       101 ~~~~~~m~~-----~d----~~~~~~li~~~~~~-g~~~~A~~l~~~m~~~g~~-p~----~~t~~~ll~~~~~~g~~~~  165 (373)
                      ...|++..+     .+    ..+|+.+...|... |++++|+..|++..+.... .+    ..+++.+...+.+.|++++
T Consensus        97 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~  176 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHH
Confidence            888876542     12    45788899999996 9999999999998654211 11    3578888999999999999


Q ss_pred             HHHHHHHhHHHcCCCCCH-----hHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHH------HHHHHHHHHH--HcCCH
Q 047393          166 AYRLFLSMEEVYHIEPSE-----EHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPL------IWRTLLLSSR--VHGDM  232 (373)
Q Consensus       166 a~~~~~~m~~~~g~~p~~-----~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~------~~~~li~~~~--~~g~~  232 (373)
                      |...|++..+...-.+..     ..+..+..++...|++++|...|++++.+.|+..      .+..++.++.  ..+++
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~  256 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQL  256 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTH
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHH
Confidence            999999986542111221     1567788889999999999999999887777532      3455566664  45679


Q ss_pred             HHHHHHHHHHhccCC
Q 047393          233 KLAKYALDKLLELDP  247 (373)
Q Consensus       233 ~~A~~~~~~m~~~~P  247 (373)
                      ++|...|+.+..++|
T Consensus       257 ~~A~~~~~~~~~l~~  271 (292)
T 1qqe_A          257 SEHCKEFDNFMRLDK  271 (292)
T ss_dssp             HHHHHHHTTSSCCCH
T ss_pred             HHHHHHhccCCccHH
Confidence            999999988877765

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.23  E-value=1e-10  Score=116.36  Aligned_cols=164  Identities=16%  Similarity=0.135  Sum_probs=128.0

Q ss_pred             chhHHHHHHHHhHhcCCHHHHHHHHccCC--CC-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 047393           80 HPAVGNCLININSRCGKIDDADLAFKSTP--EK-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKA  156 (373)
Q Consensus        80 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~--~~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~  156 (373)
                      +..+++.|...|.+.|++++|++.|++..  .| +..+|+.+...|.+.|++++|++.|++..+.. +-+..+|..+-.+
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~   86 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            35677777777777888888887777654  23 56778888888888888888888888877763 2346788888888


Q ss_pred             HHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHH
Q 047393          157 YALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKL  234 (373)
Q Consensus       157 ~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~  234 (373)
                      +.+.|++++|.+.|++..+.   .| +...|+.+..+|.+.|++++|.+.|+++++..| +...|..+..++...|++++
T Consensus        87 l~~~g~~~~A~~~~~kAl~l---~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQI---NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHH
Confidence            88888888888888887654   44 567888888888888888888888888777777 46788888888888898888


Q ss_pred             HHHHHHHHhccCC
Q 047393          235 AKYALDKLLELDP  247 (373)
Q Consensus       235 A~~~~~~m~~~~P  247 (373)
                      |.+.++++.++.|
T Consensus       164 A~~~~~kal~l~~  176 (723)
T 4gyw_A          164 YDERMKKLVSIVA  176 (723)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCh
Confidence            8888888776443

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.21  E-value=8.3e-11  Score=108.61  Aligned_cols=235  Identities=10%  Similarity=-0.026  Sum_probs=182.3

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhc----CCCCC-HHHHHHHHHHHcCCCchHHHHHHHHHHHHc----CCCC-c
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLC----CGFID-SYSICDILNSCLNPILLNVGTQAQAYMTKR----GLIS-H   80 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~----g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~~-~   80 (373)
                      ..+|..+...|...|++++|.+.|++....    +-.|. ..++..+...+...|++++|...++...+.    +-.+ .
T Consensus        47 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  126 (406)
T 3sf4_A           47 SAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGE  126 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccch
Confidence            357888999999999999999999987542    22222 456778888999999999999999987653    1111 1


Q ss_pred             hhHHHHHHHHhHhcCC--------------------HHHHHHHHccCCC-----C----ChhHHHHHHHHHHhCCChHHH
Q 047393           81 PAVGNCLININSRCGK--------------------IDDADLAFKSTPE-----K----NSLSWTFIISARVNHGHPSEA  131 (373)
Q Consensus        81 ~~~~~~li~~~~~~g~--------------------~~~A~~~~~~m~~-----~----d~~~~~~li~~~~~~g~~~~A  131 (373)
                      ..++..+...|...|+                    +++|.+.+++..+     +    ...+|..+...|...|++++|
T Consensus       127 ~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  206 (406)
T 3sf4_A          127 ARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDA  206 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHH
T ss_pred             HHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHH
Confidence            4478888899999999                    9999888875431     1    245788889999999999999


Q ss_pred             HHHHHHHHHcCC-CCC----HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC----HhHHHHHHHHHHhcCCHHHH
Q 047393          132 LDLFKDKQWRYT-SMN----PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS----EEHYSIMVEALGRAGMFEEV  202 (373)
Q Consensus       132 ~~l~~~m~~~g~-~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~----~~~~~~li~~~~~~g~~~~A  202 (373)
                      .+.+++..+... .++    ..++..+...+...|++++|...+++..+...-.++    ..++..+...|...|++++|
T Consensus       207 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  286 (406)
T 3sf4_A          207 VIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKA  286 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHH
Confidence            999998865310 122    247888889999999999999999987643211112    56788889999999999999


Q ss_pred             HHHHHhhCCC---CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          203 LEFIKGIVPG---KLC----PLIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       203 ~~~~~~~~~~---~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      .+.+++++..   .++    ..++..+...|...|++++|...+++..++
T Consensus       287 ~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  336 (406)
T 3sf4_A          287 IDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  336 (406)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999986552   122    568888999999999999999999998874

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.20  E-value=1.1e-09  Score=105.63  Aligned_cols=233  Identities=10%  Similarity=-0.013  Sum_probs=178.3

Q ss_pred             hHHHHHHHHHHHc----CCH----hHHHHHHHHHHhcCCCCCHHHHHHHHHHHcC-------CCchH-------HHHHHH
Q 047393           12 IPWNLLLKACIKA----KDY----EMVHELLERIQLCCGFIDSYSICDILNSCLN-------PILLN-------VGTQAQ   69 (373)
Q Consensus        12 ~~~n~li~~~~~~----g~~----~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~-------~~~~~-------~a~~~~   69 (373)
                      ..|...+......    ++.    .+|..+|++.... .+-+...|......+.+       .|+++       +|..++
T Consensus       231 ~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~-~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~  309 (530)
T 2ooe_A          231 DMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIY  309 (530)
T ss_dssp             HHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHH
Confidence            5676666543332    222    4778889988874 22356677777777664       78887       899999


Q ss_pred             HHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC--C-Ch-hHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCC
Q 047393           70 AYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE--K-NS-LSWTFIISARVNHGHPSEALDLFKDKQWRYTSM  145 (373)
Q Consensus        70 ~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~-d~-~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p  145 (373)
                      ++.++.-.+.+...|..++..+.+.|++++|.++|++..+  | +. ..|..++..+.+.|++++|.++|++..+.. +.
T Consensus       310 ~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~  388 (530)
T 2ooe_A          310 ERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RT  388 (530)
T ss_dssp             HHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TC
T ss_pred             HHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CC
Confidence            9987632345688999999999999999999999998753  4 33 489999999999999999999999998763 22


Q ss_pred             CHHHHHHHHHH-HHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-C----HHHH
Q 047393          146 NPTTFRSALKA-YALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-C----PLIW  219 (373)
Q Consensus       146 ~~~t~~~ll~~-~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~----~~~~  219 (373)
                      +...|...... +...|+.++|..+|+...+..  +-+...|..++..+.+.|+.++|..+|++++...| +    ...|
T Consensus       389 ~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw  466 (530)
T 2ooe_A          389 RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIW  466 (530)
T ss_dssp             CTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHH
T ss_pred             chHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHH
Confidence            23333322222 346899999999999987763  34678999999999999999999999999765433 2    3589


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          220 RTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       220 ~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      ...+......|+.+.+..+++++.+..|+
T Consensus       467 ~~~~~~e~~~G~~~~~~~~~~r~~~~~p~  495 (530)
T 2ooe_A          467 ARFLAFESNIGDLASILKVEKRRFTAFRE  495 (530)
T ss_dssp             HHHHHHHHHSSCHHHHHHHHHHHHHHTHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCch
Confidence            99999999999999999999999987663

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.19  E-value=2.5e-08  Score=95.19  Aligned_cols=225  Identities=12%  Similarity=-0.095  Sum_probs=103.6

Q ss_pred             ChhHHHHHHHHHHH----cCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcC----CCchHHHHHHHHHHHHcCCCCch
Q 047393           10 VEIPWNLLLKACIK----AKDYEMVHELLERIQLCCGFIDSYSICDILNSCLN----PILLNVGTQAQAYMTKRGLISHP   81 (373)
Q Consensus        10 ~~~~~n~li~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~g~~~~~   81 (373)
                      |..++..+-..|..    .+++++|.+.|++..+.|   +...+..|-..+..    .++.++|.+.|+...+.|   +.
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  111 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LP  111 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            44445555555555    555555555555555432   23344444444444    455555555555554443   33


Q ss_pred             hHHHHHHHHhHh----cCCHHHHHHHHccCCC-CChhHHHHHHHHHHh----CCChHHHHHHHHHHHHcCC---------
Q 047393           82 AVGNCLININSR----CGKIDDADLAFKSTPE-KNSLSWTFIISARVN----HGHPSEALDLFKDKQWRYT---------  143 (373)
Q Consensus        82 ~~~~~li~~~~~----~g~~~~A~~~~~~m~~-~d~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~---------  143 (373)
                      ..+..|...|..    .+++++|.+.|++..+ .+..++..|...|..    .+++++|.+.|++..+.|.         
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~  191 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGY  191 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            344444444444    4455555555544332 233344444444443    3444444444444444320         


Q ss_pred             ------------------------CCCHHHHHHHHHHHHc----cCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHh
Q 047393          144 ------------------------SMNPTTFRSALKAYAL----MGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGR  195 (373)
Q Consensus       144 ------------------------~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~  195 (373)
                                              ..+..++..+...|..    .++.++|..+|+...+.    .+...+..+-..|..
T Consensus       192 ~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~y~~  267 (490)
T 2xm6_A          192 MYSRGLGVERNDAISAQWYRKSATSGDELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQ----GNSIAQFRLGYILEQ  267 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTT----TCHHHHHHHHHHHHH
T ss_pred             HHhcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHC
Confidence                                    0133334444444433    44555555555544321    123333444444444


Q ss_pred             ----cCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHc-----CCHHHHHHHHHHHhcc
Q 047393          196 ----AGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVH-----GDMKLAKYALDKLLEL  245 (373)
Q Consensus       196 ----~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~  245 (373)
                          .++.++|.+.|+++.+ .-++..+..+...|...     ++.++|...+++..+.
T Consensus       268 g~~~~~d~~~A~~~~~~a~~-~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~  325 (490)
T 2xm6_A          268 GLAGAKEPLKALEWYRKSAE-QGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ  325 (490)
T ss_dssp             TTTSSCCHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT
T ss_pred             CCCCCCCHHHHHHHHHHHHH-cCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc
Confidence                4555555555555433 23444444555555544     5555555555555543

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.18  E-value=4.4e-09  Score=99.47  Aligned_cols=202  Identities=12%  Similarity=-0.046  Sum_probs=124.7

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhc-----C--CCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHc-----C
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLC-----C--GFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKR-----G   76 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~-----g--~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~-----g   76 (373)
                      ....||.+-..+...|++++|++.|++..+.     +  ..| ...+|+.+..+|...|++++|...++...+.     +
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            3567999999999999999999999887542     1  233 3467899999999999999999999887542     1


Q ss_pred             -CC-CchhHHHHHHHHhHhc--CCHHHHHHHHccCC--CC-ChhHHHHHHHH---HHhCCChHHHHHHHHHHHHcCCCCC
Q 047393           77 -LI-SHPAVGNCLININSRC--GKIDDADLAFKSTP--EK-NSLSWTFIISA---RVNHGHPSEALDLFKDKQWRYTSMN  146 (373)
Q Consensus        77 -~~-~~~~~~~~li~~~~~~--g~~~~A~~~~~~m~--~~-d~~~~~~li~~---~~~~g~~~~A~~l~~~m~~~g~~p~  146 (373)
                       .. ....+++.+..++.+.  +++++|.+.|++..  .| +...+..+..+   +...++.++|++.+++..+.. +.+
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~  208 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDN  208 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSC
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-Ccc
Confidence             11 1245666555555554  46899999998764  23 34444444333   334566666777776665542 223


Q ss_pred             HHHHHHHHHHHHc----cCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC
Q 047393          147 PTTFRSALKAYAL----MGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL  214 (373)
Q Consensus       147 ~~t~~~ll~~~~~----~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p  214 (373)
                      ..++..+...+..    .|+.++|.+++++.....  +.+...+..+...|.+.|++++|.+.++++++..|
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~--~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p  278 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA--PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIP  278 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC--ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCC
Confidence            4444444333332    345556666666654431  33445556666666666666666666666544444

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.18  E-value=1.6e-09  Score=83.07  Aligned_cols=132  Identities=21%  Similarity=0.239  Sum_probs=108.1

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHH
Q 047393          114 SWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEAL  193 (373)
Q Consensus       114 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~  193 (373)
                      .|..+...+...|++++|..+++++.+.+ +.+..++..+...+...|++++|..+++++.+..  +.+...+..+...+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC--CCchHHHHHHHHHH
Confidence            56777888888899999999998887764 3467778888888888999999999999886542  44667788888889


Q ss_pred             HhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          194 GRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       194 ~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      ...|++++|.+.+++++...| +...+..+...+...|++++|...++++.+.+|+
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            999999999999988666444 5778888899999999999999999999887775

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.18  E-value=3.4e-08  Score=94.19  Aligned_cols=203  Identities=9%  Similarity=-0.093  Sum_probs=148.8

Q ss_pred             hHHHHHHHHHHhcCCCCCHHHHHHHHHHHcC----CCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHh----cCCHHH
Q 047393           28 EMVHELLERIQLCCGFIDSYSICDILNSCLN----PILLNVGTQAQAYMTKRGLISHPAVGNCLININSR----CGKIDD   99 (373)
Q Consensus        28 ~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~   99 (373)
                      ..+.+.+.+..+.|   +...+..+-..+..    .+++++|...|+...+.|   +...+..|...|..    .+++++
T Consensus        24 ~~~~~~~~~~a~~g---~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~   97 (490)
T 2xm6_A           24 NVNLEQLKQKAESG---EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQ   97 (490)
T ss_dssp             -CCHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             hHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHH
Confidence            34566666666543   66667777777766    899999999999998875   56778888888988    899999


Q ss_pred             HHHHHccCCC-CChhHHHHHHHHHHh----CCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc----cCCHHHHHHHH
Q 047393          100 ADLAFKSTPE-KNSLSWTFIISARVN----HGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYAL----MGLVGEAYRLF  170 (373)
Q Consensus       100 A~~~~~~m~~-~d~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~  170 (373)
                      |.+.|++..+ .+...+..|...|..    .+++++|...|++..+.|   +...+..+-..|..    .++.++|.+.|
T Consensus        98 A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  174 (490)
T 2xm6_A           98 AVIWYKKAALKGLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWY  174 (490)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            9999987664 477888888888888    889999999999998876   56677777777766    67888888888


Q ss_pred             HHhHHHcCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHH
Q 047393          171 LSMEEVYHIEPSEEHYSIMVEALGR----AGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRV----HGDMKLAKYALDKL  242 (373)
Q Consensus       171 ~~m~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m  242 (373)
                      ++..+.    .+...+..+...|..    .++.++|.+.|+++.. ..++..+..+...|..    .++.++|...|++.
T Consensus       175 ~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~-~~~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a  249 (490)
T 2xm6_A          175 SKAAEQ----GNVWSCNQLGYMYSRGLGVERNDAISAQWYRKSAT-SGDELGQLHLADMYYFGIGVTQDYTQSRVLFSQS  249 (490)
T ss_dssp             HHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHH
T ss_pred             HHHHHC----CCHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHH-CCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            887543    255666666667766    6777777777776444 3345555555555554    55666666666665


Q ss_pred             hc
Q 047393          243 LE  244 (373)
Q Consensus       243 ~~  244 (373)
                      .+
T Consensus       250 ~~  251 (490)
T 2xm6_A          250 AE  251 (490)
T ss_dssp             HT
T ss_pred             HH
Confidence            54

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.16  E-value=8.4e-09  Score=106.27  Aligned_cols=210  Identities=11%  Similarity=0.011  Sum_probs=157.4

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      +..+|..+-.++...|++++|++.|.+.      -|...|..++.+|.+.|++++|.+.+...++..  ++....+.++.
T Consensus      1104 ~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~Laf 1175 (1630)
T 1xi4_A         1104 EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIF 1175 (1630)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHH
Confidence            4567888888888888888888888553      356677788888888888888888888776654  44334445888


Q ss_pred             HhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHH
Q 047393           90 INSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRL  169 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~  169 (373)
                      +|++.+++++.....   ..++...|..+...|...|++++|..+|...         ..|..+...+.+.|++++|.+.
T Consensus      1176 aYAKl~rleele~fI---~~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEa 1243 (1630)
T 1xi4_A         1176 ALAKTNRLAELEEFI---NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDG 1243 (1630)
T ss_pred             HHHhhcCHHHHHHHH---hCCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHH
Confidence            888888888655443   3456667777888888888888888888774         4788888888888888888888


Q ss_pred             HHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          170 FLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       170 ~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +++.       .+..+|..+-.+|...|++..|...... +  ..++..+..++..|.+.|.+++|..+++..++++|.+
T Consensus      1244 arKA-------~n~~aWkev~~acve~~Ef~LA~~cgl~-I--iv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH 1313 (1630)
T 1xi4_A         1244 ARKA-------NSTRTWKEVCFACVDGKEFRLAQMCGLH-I--VVHADELEELINYYQDRGYFEELITMLEAALGLERAH 1313 (1630)
T ss_pred             HHHh-------CCHHHHHHHHHHHhhhhHHHHHHHHHHh-h--hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhH
Confidence            8755       2456777777777777777777776654 3  2355566688888888888888888888888877766

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.16  E-value=2.1e-10  Score=100.17  Aligned_cols=224  Identities=12%  Similarity=-0.055  Sum_probs=157.1

Q ss_pred             HHcCCHhHHHHHHHHHHhc-------CCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHc------CCCC-chhHHHHH
Q 047393           22 IKAKDYEMVHELLERIQLC-------CGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKR------GLIS-HPAVGNCL   87 (373)
Q Consensus        22 ~~~g~~~~A~~l~~~m~~~-------g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------g~~~-~~~~~~~l   87 (373)
                      ...|++++|+++|++..+.       ..+....++..+...+...|++++|...+++..+.      +-.| ...++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            4567777777777776652       11223567888999999999999999999998765      2223 35688999


Q ss_pred             HHHhHhcCCHHHHHHHHccCCC----------C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHc------CCCC-CHHH
Q 047393           88 ININSRCGKIDDADLAFKSTPE----------K-NSLSWTFIISARVNHGHPSEALDLFKDKQWR------YTSM-NPTT  149 (373)
Q Consensus        88 i~~~~~~g~~~~A~~~~~~m~~----------~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~------g~~p-~~~t  149 (373)
                      ...|...|++++|.+.|++..+          | ...+|..+...|...|++++|.+.+++..+.      +-.| ...+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            9999999999999999987642          1 3567888999999999999999999998765      2123 3567


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHhHHHc------CCCCC-HhHHHHHHHHHHhcC------CHHHHHHHHHhhCCCCC-C
Q 047393          150 FRSALKAYALMGLVGEAYRLFLSMEEVY------HIEPS-EEHYSIMVEALGRAG------MFEEVLEFIKGIVPGKL-C  215 (373)
Q Consensus       150 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~------g~~p~-~~~~~~li~~~~~~g------~~~~A~~~~~~~~~~~p-~  215 (373)
                      +..+...|...|++++|..++++..+..      ...+. ...+..+...+...+      ...++...++......| .
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTV  251 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHH
Confidence            8889999999999999999999986531      11222 233333333333322      23444445555222223 3


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          216 PLIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       216 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      ..++..+...|...|++++|...+++..+.
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            468889999999999999999999998763

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.15  E-value=3e-08  Score=93.71  Aligned_cols=235  Identities=10%  Similarity=-0.002  Sum_probs=130.9

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhc-----C-CCC-CHHHHHHHHHHHc--CCCchHHHHHHHHHHHHcCCCCc
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLC-----C-GFI-DSYSICDILNSCL--NPILLNVGTQAQAYMTKRGLISH   80 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~-----g-~~p-~~~~~~~ll~~~~--~~~~~~~a~~~~~~m~~~g~~~~   80 (373)
                      ..++|+.+...|...|++++|...+++..+.     + ..+ ...++..+..++.  ..+++++|.+.|++.++.. +-+
T Consensus        93 ~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~  171 (472)
T 4g1t_A           93 SLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKN  171 (472)
T ss_dssp             THHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTC
T ss_pred             HHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCC
Confidence            4678999999999999999999999887652     1 122 2345555444443  3467899999999987764 334


Q ss_pred             hhHHHHHHHHh---HhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHh----CCChHHHHHHHHHHHHcCCCCCHHHH
Q 047393           81 PAVGNCLININ---SRCGKIDDADLAFKSTP---EKNSLSWTFIISARVN----HGHPSEALDLFKDKQWRYTSMNPTTF  150 (373)
Q Consensus        81 ~~~~~~li~~~---~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~t~  150 (373)
                      ...+..+..++   ...++.++|++.|++..   ..+..++..+...+..    .|++++|.+.+++..... +.+..++
T Consensus       172 ~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~  250 (472)
T 4g1t_A          172 PEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVL  250 (472)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHH
T ss_pred             HHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHH
Confidence            55555554443   34455566666665432   2344455544444433    345666777776665543 3455566


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhc-------------------CCHHHHHHHHHhhCC
Q 047393          151 RSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRA-------------------GMFEEVLEFIKGIVP  211 (373)
Q Consensus       151 ~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~-------------------g~~~~A~~~~~~~~~  211 (373)
                      ..+...|...|++++|...+++..+..  +-+..++..+...|...                   +..++|...|+++..
T Consensus       251 ~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~  328 (472)
T 4g1t_A          251 RSAAKFYRRKDEPDKAIELLKKALEYI--PNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADE  328 (472)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCchHHHHHHHHHHHHhC--CChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhh
Confidence            666677777777777777777665431  22333444333333211                   123344444444333


Q ss_pred             CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          212 GKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       212 ~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      ..| +..++..+...+...|++++|...|++.++++|+
T Consensus       329 ~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~  366 (472)
T 4g1t_A          329 ANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELT  366 (472)
T ss_dssp             HCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCC
T ss_pred             cCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCC
Confidence            233 2334445555555555555555555555554443

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.14  E-value=4.8e-09  Score=96.59  Aligned_cols=226  Identities=9%  Similarity=-0.024  Sum_probs=174.0

Q ss_pred             HHHHHHcCCHhHHHHHHHHHHhcC-CCCC----HHHHHHHHHHHcCCCchHHHHHHHHHHHHcC-----CCC-chhHHHH
Q 047393           18 LKACIKAKDYEMVHELLERIQLCC-GFID----SYSICDILNSCLNPILLNVGTQAQAYMTKRG-----LIS-HPAVGNC   86 (373)
Q Consensus        18 i~~~~~~g~~~~A~~l~~~m~~~g-~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g-----~~~-~~~~~~~   86 (373)
                      -..+...|++++|++.|++..+.- -.+|    ..++..+...+...|+++.|...+.+..+..     ..+ ...+++.
T Consensus       108 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  187 (378)
T 3q15_A          108 GMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFV  187 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHH
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHH
Confidence            344578999999999999987631 1123    3567888889999999999999999876531     111 2457888


Q ss_pred             HHHHhHhcCCHHHHHHHHccCCC-----C----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHc----CCCCCHHHHHHH
Q 047393           87 LININSRCGKIDDADLAFKSTPE-----K----NSLSWTFIISARVNHGHPSEALDLFKDKQWR----YTSMNPTTFRSA  153 (373)
Q Consensus        87 li~~~~~~g~~~~A~~~~~~m~~-----~----d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~p~~~t~~~l  153 (373)
                      +...|...|++++|.+.|++..+     +    ...+++.+...|...|++++|.+.+++..+.    +.+....++..+
T Consensus       188 lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  267 (378)
T 3q15_A          188 IAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGL  267 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHH
Confidence            99999999999999999876542     1    2457888999999999999999999998761    223346788889


Q ss_pred             HHHHHccCCHHHHHHHHHHhHHHcCCC--C-CHhHHHHHHHHHHhcCC---HHHHHHHHHhhCCCCCC-HHHHHHHHHHH
Q 047393          154 LKAYALMGLVGEAYRLFLSMEEVYHIE--P-SEEHYSIMVEALGRAGM---FEEVLEFIKGIVPGKLC-PLIWRTLLLSS  226 (373)
Q Consensus       154 l~~~~~~g~~~~a~~~~~~m~~~~g~~--p-~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~p~-~~~~~~li~~~  226 (373)
                      ...+.+.|++++|...+++..+...-.  | ....+..+-..|...|+   +.+|..++++ ....|+ ...+..+...|
T Consensus       268 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~-~~~~~~~~~~~~~la~~y  346 (378)
T 3q15_A          268 SWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK-KNLHAYIEACARSAAAVF  346 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh-CCChhHHHHHHHHHHHHH
Confidence            999999999999999999987653221  1 23455666667777788   8999999998 553443 35677888999


Q ss_pred             HHcCCHHHHHHHHHHHhc
Q 047393          227 RVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       227 ~~~g~~~~A~~~~~~m~~  244 (373)
                      ...|++++|...|++..+
T Consensus       347 ~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          347 ESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH
Confidence            999999999999998876

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.13  E-value=1.6e-09  Score=107.94  Aligned_cols=162  Identities=8%  Similarity=-0.022  Sum_probs=129.8

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCC-HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFID-SYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      +..+|+.+-..|.+.|++++|++.|++..+.  .|+ ..++..+..++.+.|++++|.+.|++.++.. +-+...|+.+.
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg   84 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            3567888888999999999999999988874  454 5678888888888999999999998887764 34577888888


Q ss_pred             HHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH
Q 047393           89 NINSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGE  165 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  165 (373)
                      .+|.+.|++++|++.|++..   ..+..+|+.+...|.+.|++++|++.|++..+.. +-+...+..+...+...|++++
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHH
Confidence            88888888888888888764   2367788888888888888888888888887763 3356788888888888888888


Q ss_pred             HHHHHHHhHH
Q 047393          166 AYRLFLSMEE  175 (373)
Q Consensus       166 a~~~~~~m~~  175 (373)
                      |.+.+++..+
T Consensus       164 A~~~~~kal~  173 (723)
T 4gyw_A          164 YDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8888777643

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.13  E-value=3.1e-08  Score=90.71  Aligned_cols=231  Identities=10%  Similarity=-0.038  Sum_probs=166.2

Q ss_pred             HHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHH----HHHHHHHHHcCCCchHHHHHHHHHHHHcCC---CCc--hhHHH
Q 047393           15 NLLLKACIKAKDYEMVHELLERIQLCCGFIDSY----SICDILNSCLNPILLNVGTQAQAYMTKRGL---ISH--PAVGN   85 (373)
Q Consensus        15 n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~---~~~--~~~~~   85 (373)
                      ......+...|++++|.+.+++.....-..+..    +++.+...+...|++++|...+++..+..-   .+.  ..+++
T Consensus        18 ~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   97 (373)
T 1hz4_A           18 ALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLI   97 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            344455678999999999999987753222222    455666777888999999999998765311   111  23456


Q ss_pred             HHHHHhHhcCCHHHHHHHHccCCC----------C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC--C--CHHHH
Q 047393           86 CLININSRCGKIDDADLAFKSTPE----------K-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTS--M--NPTTF  150 (373)
Q Consensus        86 ~li~~~~~~g~~~~A~~~~~~m~~----------~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~--p--~~~t~  150 (373)
                      .+...+...|++++|...+++..+          + ...++..+...+...|++++|...+++..+..-.  +  ...++
T Consensus        98 ~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  177 (373)
T 1hz4_A           98 QQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCL  177 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHH
Confidence            777889999999999998876541          2 2345667888899999999999999998764321  1  24577


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHH-----HHHHHHHhcCCHHHHHHHHHhhCCCCCC-----HHHHH
Q 047393          151 RSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYS-----IMVEALGRAGMFEEVLEFIKGIVPGKLC-----PLIWR  220 (373)
Q Consensus       151 ~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~-----~li~~~~~~g~~~~A~~~~~~~~~~~p~-----~~~~~  220 (373)
                      ..+...+...|++++|...+++......-......+.     ..+..+...|+.++|...++++....|.     ...+.
T Consensus       178 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~  257 (373)
T 1hz4_A          178 AMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWR  257 (373)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHH
Confidence            7888889999999999999998865422111111222     2334577899999999999996654332     33567


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          221 TLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       221 ~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      .+...+...|++++|...+++....
T Consensus       258 ~la~~~~~~g~~~~A~~~l~~a~~~  282 (373)
T 1hz4_A          258 NIARAQILLGEFEPAEIVLEELNEN  282 (373)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            7888999999999999999998763

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.12  E-value=5.9e-10  Score=97.25  Aligned_cols=199  Identities=12%  Similarity=0.041  Sum_probs=141.9

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhc------CCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHc------C
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLC------CGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKR------G   76 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~------g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~------g   76 (373)
                      ...+|+.+...|...|++++|++.|++..+.      +-.| ...++..+...+...|++++|...+.+..+.      .
T Consensus        42 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~  121 (283)
T 3edt_B           42 VATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGK  121 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCC
Confidence            4577899999999999999999999998764      2233 3457888999999999999999999998765      1


Q ss_pred             C-CCchhHHHHHHHHhHhcCCHHHHHHHHccCCC-------C----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHc---
Q 047393           77 L-ISHPAVGNCLININSRCGKIDDADLAFKSTPE-------K----NSLSWTFIISARVNHGHPSEALDLFKDKQWR---  141 (373)
Q Consensus        77 ~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-------~----d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~---  141 (373)
                      - +....++..+...|...|++++|...|++..+       +    ...++..+...|...|++++|.+.+++..+.   
T Consensus       122 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~  201 (283)
T 3edt_B          122 FHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHE  201 (283)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            1 23467888999999999999999999986642       1    3567888999999999999999999998763   


Q ss_pred             ----CCCCCH-HHHHHHHHHHHccC------CHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhh
Q 047393          142 ----YTSMNP-TTFRSALKAYALMG------LVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGI  209 (373)
Q Consensus       142 ----g~~p~~-~t~~~ll~~~~~~g------~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~  209 (373)
                          ...+.. ..+..+...+...+      .+..+...++...   ...| ...++..+...|.+.|++++|.++|+++
T Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  278 (283)
T 3edt_B          202 KEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACK---VDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCA  278 (283)
T ss_dssp             HHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCC---CCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcC---CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                122222 23333333333222      2333333333221   1122 3467888999999999999999999986


Q ss_pred             CC
Q 047393          210 VP  211 (373)
Q Consensus       210 ~~  211 (373)
                      ++
T Consensus       279 l~  280 (283)
T 3edt_B          279 SR  280 (283)
T ss_dssp             HT
T ss_pred             HH
Confidence            54

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.10  E-value=9.8e-09  Score=87.22  Aligned_cols=197  Identities=9%  Similarity=-0.026  Sum_probs=151.9

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      .|...|......+...|++++|++.|++..+..-.++...+..+..++...|++++|.+.++...+.. +.+..++..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHH
Confidence            45678888999999999999999999999986543677777778899999999999999999998765 44678899999


Q ss_pred             HHhHhcCCHHHHHHHHccCCC--C-Ch-------hHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC---HHHHHHHHH
Q 047393           89 NINSRCGKIDDADLAFKSTPE--K-NS-------LSWTFIISARVNHGHPSEALDLFKDKQWRYTSMN---PTTFRSALK  155 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~~--~-d~-------~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~---~~t~~~ll~  155 (373)
                      ..|.+.|++++|.+.|++..+  | +.       ..|..+...+...|++++|++.|++..+.  .|+   ...+..+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHH
Confidence            999999999999999987753  3 44       45888888899999999999999999876  465   456666766


Q ss_pred             HHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHH
Q 047393          156 AYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPL  217 (373)
Q Consensus       156 ~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~  217 (373)
                      .|...|     ...++.+... + ..+...|....  ....+.+++|...|+++++..|+..
T Consensus       162 ~~~~~~-----~~~~~~a~~~-~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~  214 (228)
T 4i17_A          162 LFYNNG-----ADVLRKATPL-A-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRT  214 (228)
T ss_dssp             HHHHHH-----HHHHHHHGGG-T-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHH-----HHHHHHHHhc-c-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCH
Confidence            665443     4445555222 1 23344444433  2345678999999999877777543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.08  E-value=5.5e-09  Score=92.74  Aligned_cols=201  Identities=8%  Similarity=-0.066  Sum_probs=151.6

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhc----CCCCC-HHHHHHHHHHHcCCCchHHHHHHHHHHHHc----CCCC-ch
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLC----CGFID-SYSICDILNSCLNPILLNVGTQAQAYMTKR----GLIS-HP   81 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~----g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~~-~~   81 (373)
                      ..|+.....|...|++++|.+.|++....    |-.++ ..+|+.+..++.+.|++++|...++..++.    |-.. -.
T Consensus        38 ~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a  117 (292)
T 1qqe_A           38 DLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGA  117 (292)
T ss_dssp             HHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            46888888999999999999999987653    32222 467899999999999999999999987653    2111 14


Q ss_pred             hHHHHHHHHhHhc-CCHHHHHHHHccCCC--C---C----hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCH----
Q 047393           82 AVGNCLININSRC-GKIDDADLAFKSTPE--K---N----SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNP----  147 (373)
Q Consensus        82 ~~~~~li~~~~~~-g~~~~A~~~~~~m~~--~---d----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~----  147 (373)
                      .+++.+...|.+. |++++|...|++..+  |   +    ..+|+.+...+.+.|++++|+..|++..+.......    
T Consensus       118 ~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  197 (292)
T 1qqe_A          118 NFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWS  197 (292)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGG
T ss_pred             HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHH
Confidence            5788899999996 999999999987652  1   1    356888999999999999999999999876433222    


Q ss_pred             --HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCH------hHHHHHHHHHH--hcCCHHHHHHHHHhhCCCCCC
Q 047393          148 --TTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSE------EHYSIMVEALG--RAGMFEEVLEFIKGIVPGKLC  215 (373)
Q Consensus       148 --~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~------~~~~~li~~~~--~~g~~~~A~~~~~~~~~~~p~  215 (373)
                        .+|..+..++...|++++|...|++..+   +.|+.      ..+..++.++.  ..+++++|...|+++....|.
T Consensus       198 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~  272 (292)
T 1qqe_A          198 LKDYFLKKGLCQLAATDAVAAARTLQEGQS---EDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKW  272 (292)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHGGGC---C---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHH
Confidence              2577788888999999999999998743   34532      23445566665  457899999999985555553

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.07  E-value=3.8e-09  Score=93.37  Aligned_cols=177  Identities=10%  Similarity=0.071  Sum_probs=135.8

Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC-----CChhHHHHHHHHHHhCCChHHHHHHHHHHH
Q 047393           65 GTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE-----KNSLSWTFIISARVNHGHPSEALDLFKDKQ  139 (373)
Q Consensus        65 a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~d~~~~~~li~~~~~~g~~~~A~~l~~~m~  139 (373)
                      |...+++..+.+ .++..+...+..++...|++++|++++.+...     .+...+..++..+.+.|+++.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            566677666555 45666666888899999999999999988743     256677888999999999999999999998


Q ss_pred             HcCCCC-----CHHHHHHHHHHHH--ccC--CHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhC
Q 047393          140 WRYTSM-----NPTTFRSALKAYA--LMG--LVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIV  210 (373)
Q Consensus       140 ~~g~~p-----~~~t~~~ll~~~~--~~g--~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  210 (373)
                      +.  .|     +..+...+..++.  ..|  +..+|..+|+++...   .|+..+-..++.++.+.|++++|.+.++.+.
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            76  56     3666667766633  234  899999999999654   4654444455558899999999999998744


Q ss_pred             CC----------CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          211 PG----------KL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       211 ~~----------~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +.          .| ++.+...+|......|+  +|.++++++.+..|++
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~h  286 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEH  286 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCC
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCC
Confidence            42          24 56777566666666787  8999999999999988

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.05  E-value=1.9e-08  Score=87.37  Aligned_cols=166  Identities=13%  Similarity=-0.010  Sum_probs=99.2

Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHccCCC--C-C---hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCC-CCC-HHHHHHH
Q 047393           82 AVGNCLININSRCGKIDDADLAFKSTPE--K-N---SLSWTFIISARVNHGHPSEALDLFKDKQWRYT-SMN-PTTFRSA  153 (373)
Q Consensus        82 ~~~~~li~~~~~~g~~~~A~~~~~~m~~--~-d---~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-~p~-~~t~~~l  153 (373)
                      ..+-.+...+.+.|++++|...|+++.+  | +   ...+..+..+|.+.|++++|...|++..+... .|. ...+..+
T Consensus        16 ~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l   95 (261)
T 3qky_A           16 QEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYER   95 (261)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHHH
Confidence            3333444444555555555555554432  1 1   33444455555555555555555555554421 111 2334444


Q ss_pred             HHHHHc--------cCCHHHHHHHHHHhHHHcCCCCCHhH-----------------HHHHHHHHHhcCCHHHHHHHHHh
Q 047393          154 LKAYAL--------MGLVGEAYRLFLSMEEVYHIEPSEEH-----------------YSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       154 l~~~~~--------~g~~~~a~~~~~~m~~~~g~~p~~~~-----------------~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                      ..++..        .|++++|...|++..+.+  +-+...                 +..+...|.+.|++++|...|++
T Consensus        96 g~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  173 (261)
T 3qky_A           96 AMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYEA  173 (261)
T ss_dssp             HHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            444444        555666666665554442  111122                 24567888899999999999999


Q ss_pred             hCCCCCC----HHHHHHHHHHHHHc----------CCHHHHHHHHHHHhccCCCC
Q 047393          209 IVPGKLC----PLIWRTLLLSSRVH----------GDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       209 ~~~~~p~----~~~~~~li~~~~~~----------g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ++...|+    +..+..+..+|...          |++++|...++++.+..|++
T Consensus       174 ~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~  228 (261)
T 3qky_A          174 VFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDS  228 (261)
T ss_dssp             HHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCC
Confidence            7665564    45777888888766          89999999999999988876

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.04  E-value=5.9e-09  Score=79.79  Aligned_cols=125  Identities=18%  Similarity=0.197  Sum_probs=70.1

Q ss_pred             HHHHHHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 047393           84 GNCLININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALM  160 (373)
Q Consensus        84 ~~~li~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~  160 (373)
                      |..+...|.+.|++++|.++|+++.   ..+..+|..+...+...|++++|...++++.+.+ +.+...+..+...+...
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHh
Confidence            4444555555555555555555443   1244455555555666666666666666655543 33455555666666666


Q ss_pred             CCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCC
Q 047393          161 GLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVP  211 (373)
Q Consensus       161 g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  211 (373)
                      |++++|..+++++.+..  +.+...+..+...+.+.|+.++|.+.+++++.
T Consensus        83 ~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           83 GDYDEAIEYYQKALELD--PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            66666666666664431  23455556666666666666666666665433

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=98.99  E-value=1.8e-08  Score=97.13  Aligned_cols=201  Identities=11%  Similarity=0.025  Sum_probs=157.4

Q ss_pred             ChhHHHHHHHHHHH-------cCCHh-------HHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHH
Q 047393           10 VEIPWNLLLKACIK-------AKDYE-------MVHELLERIQLCCGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTK   74 (373)
Q Consensus        10 ~~~~~n~li~~~~~-------~g~~~-------~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~   74 (373)
                      +...|......+.+       .|+++       +|.++|++..+. +.| +...+..+...+.+.|++++|..+|+.+++
T Consensus       271 ~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~-~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~  349 (530)
T 2ooe_A          271 HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAIST-LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA  349 (530)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTT-TCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHH-hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhC
Confidence            45677777777775       69987       899999998863 345 567788899999999999999999999988


Q ss_pred             cCCCCc--hhHHHHHHHHhHhcCCHHHHHHHHccCCCC---ChhHHHHHHH-HHHhCCChHHHHHHHHHHHHcCCCCCHH
Q 047393           75 RGLISH--PAVGNCLININSRCGKIDDADLAFKSTPEK---NSLSWTFIIS-ARVNHGHPSEALDLFKDKQWRYTSMNPT  148 (373)
Q Consensus        75 ~g~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---d~~~~~~li~-~~~~~g~~~~A~~l~~~m~~~g~~p~~~  148 (373)
                      .  .|+  ..+|...+..+.+.|++++|.++|++..+.   +...|..... .+...|++++|..+|++..+.. +-+..
T Consensus       350 ~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~  426 (530)
T 2ooe_A          350 I--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPE  426 (530)
T ss_dssp             S--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHH
T ss_pred             c--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHH
Confidence            5  454  358999999999999999999999877542   2223322221 2346899999999999988763 34678


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC--HhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC
Q 047393          149 TFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS--EEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL  214 (373)
Q Consensus       149 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p  214 (373)
                      .|..++..+.+.|+.++|..+|++........|+  ...|...+....+.|+.+.+..++.++++..|
T Consensus       427 ~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p  494 (530)
T 2ooe_A          427 YVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFR  494 (530)
T ss_dssp             HHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTH
T ss_pred             HHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            9999999999999999999999999765333443  45788888888889999999999998655344

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=98.98  E-value=2e-08  Score=91.96  Aligned_cols=232  Identities=11%  Similarity=0.014  Sum_probs=167.8

Q ss_pred             HHHHHHHHHHHcCCHhHHHHHHHHHHhcCC-CCCH----HHHHHHHHHHcCCCchHHHHHHHHHHHHc----CCC--C-c
Q 047393           13 PWNLLLKACIKAKDYEMVHELLERIQLCCG-FIDS----YSICDILNSCLNPILLNVGTQAQAYMTKR----GLI--S-H   80 (373)
Q Consensus        13 ~~n~li~~~~~~g~~~~A~~l~~~m~~~g~-~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~--~-~   80 (373)
                      +++.+...+...|++++|.+.+++.....- .++.    .++..+...+...|++++|...+++..+.    +..  | .
T Consensus        55 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~  134 (373)
T 1hz4_A           55 ATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMH  134 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHH
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHH
Confidence            567777888899999999999998765210 1122    33566777888999999999999987653    222  3 2


Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHccCCC--C------ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC--HHHH
Q 047393           81 PAVGNCLININSRCGKIDDADLAFKSTPE--K------NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMN--PTTF  150 (373)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~------d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~t~  150 (373)
                      ..++..+...|...|++++|...+++..+  +      ...+|..+...+...|++++|...+++.....-.++  ....
T Consensus       135 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~  214 (373)
T 1hz4_A          135 EFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWI  214 (373)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHH
Confidence            45667788899999999999999976431  1      235677888889999999999999999865421211  1211


Q ss_pred             H----HHHHHHHccCCHHHHHHHHHHhHHHcCCCC---CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCC------CCH-
Q 047393          151 R----SALKAYALMGLVGEAYRLFLSMEEVYHIEP---SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGK------LCP-  216 (373)
Q Consensus       151 ~----~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~------p~~-  216 (373)
                      .    ..+..+...|++++|...+++.... ...+   ....+..+...+...|+.++|...++++....      ++. 
T Consensus       215 ~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~-~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~  293 (373)
T 1hz4_A          215 SNANKVRVIYWQMTGDKAAAANWLRHTAKP-EFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLN  293 (373)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHSCCC-CCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHhCCCC-CCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHH
Confidence            1    2334477899999999999987432 1111   12346677889999999999999998854411      122 


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          217 LIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       217 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      ..+..+..++...|+.++|...+++....
T Consensus       294 ~~~~~la~~~~~~g~~~~A~~~l~~al~~  322 (373)
T 1hz4_A          294 RNLLLLNQLYWQAGRKSDAQRVLLDALKL  322 (373)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            36667778889999999999999998874

>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=98.97  E-value=1.4e-07  Score=97.45  Aligned_cols=213  Identities=13%  Similarity=0.048  Sum_probs=169.7

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      .|...|..++.++.+.|++++|.+.|...++..  +++...+.+..+|++.+++++...+.    +   .++...|..+.
T Consensus      1132 dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iG 1202 (1630)
T 1xi4_A         1132 DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVG 1202 (1630)
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHH
Confidence            567789999999999999999999998877643  44444445889999999988644442    2   45667777899


Q ss_pred             HHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 047393           89 NINSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYR  168 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~  168 (373)
                      ..|...|++++|..+|...     ..|..+..+|.+.|++++|.+.+++.      -+..+|..+-.+|...|++..|..
T Consensus      1203 d~le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~ 1271 (1630)
T 1xi4_A         1203 DRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQM 1271 (1630)
T ss_pred             HHHHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHH
Confidence            9999999999999999985     59999999999999999999999876      377999999999999999999887


Q ss_pred             HHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcC--CHHHHHHHHHHHhcc
Q 047393          169 LFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHG--DMKLAKYALDKLLEL  245 (373)
Q Consensus       169 ~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~  245 (373)
                      ....      +..+...+..++..|.+.|.+++|..+++..+...| ....|+-|...|++..  +..++.+.|..-..+
T Consensus      1272 cgl~------Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f~~rini 1345 (1630)
T 1xi4_A         1272 CGLH------IVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNI 1345 (1630)
T ss_pred             HHHh------hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhccc
Confidence            6543      344666777999999999999999999999777665 4467777777776643  556666666655544


Q ss_pred             CC
Q 047393          246 DP  247 (373)
Q Consensus       246 ~P  247 (373)
                      .|
T Consensus      1346 ~k 1347 (1630)
T 1xi4_A         1346 PK 1347 (1630)
T ss_pred             ch
Confidence            33

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=98.96  E-value=5.7e-09  Score=92.43  Aligned_cols=164  Identities=15%  Similarity=0.077  Sum_probs=101.1

Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHccCCC--------C---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHc------CCC
Q 047393           82 AVGNCLININSRCGKIDDADLAFKSTPE--------K---NSLSWTFIISARVNHGHPSEALDLFKDKQWR------YTS  144 (373)
Q Consensus        82 ~~~~~li~~~~~~g~~~~A~~~~~~m~~--------~---d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~------g~~  144 (373)
                      .++..+...|...|++++|...|++..+        .   ...++..+...|...|++++|.+.+++..+.      +-.
T Consensus        28 ~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  107 (311)
T 3nf1_A           28 RTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDH  107 (311)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            3444444555555555555555544332        1   2344555555666666666666666655432      111


Q ss_pred             C-CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHc-----CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCC-----
Q 047393          145 M-NPTTFRSALKAYALMGLVGEAYRLFLSMEEVY-----HIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPG-----  212 (373)
Q Consensus       145 p-~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~-----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----  212 (373)
                      | ...++..+...+...|++++|..++++..+..     +-.| ....+..+...+...|++++|.++|++++..     
T Consensus       108 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~  187 (311)
T 3nf1_A          108 PAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKL  187 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHh
Confidence            2 34566677777777777777777777765432     2222 3456677777788888888888888775542     


Q ss_pred             ---CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          213 ---KL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       213 ---~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                         .| ...++..+...+...|++++|...++++.+.
T Consensus       188 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  224 (311)
T 3nf1_A          188 GPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTR  224 (311)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence               23 2357778888888888888888888888763

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.94  E-value=3.3e-08  Score=98.30  Aligned_cols=170  Identities=8%  Similarity=-0.084  Sum_probs=141.4

Q ss_pred             cCCCchHHHHHHHHHHH--------HcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhC
Q 047393           57 LNPILLNVGTQAQAYMT--------KRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE---KNSLSWTFIISARVNH  125 (373)
Q Consensus        57 ~~~~~~~~a~~~~~~m~--------~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~  125 (373)
                      ...|++++|.+.+++..        +.. +.+...+..+...|.+.|++++|.+.|++..+   .+...|..+..+|...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc
Confidence            77899999999999987        332 45677888899999999999999999998763   4778899999999999


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHH
Q 047393          126 GHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEF  205 (373)
Q Consensus       126 g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  205 (373)
                      |++++|.+.|++..+.. +-+...+..+-.++.+.|++++ ...|++..+..  +-+...|..+..+|.+.|+.++|.+.
T Consensus       481 g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN--DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC--CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999998874 3356788899999999999999 99999987652  33678899999999999999999999


Q ss_pred             HHhhCCCCCC-HHHHHHHHHHHHHcCC
Q 047393          206 IKGIVPGKLC-PLIWRTLLLSSRVHGD  231 (373)
Q Consensus       206 ~~~~~~~~p~-~~~~~~li~~~~~~g~  231 (373)
                      |+++++..|+ ...|..+..++...|+
T Consensus       557 ~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HHhhcccCcccHHHHHHHHHHHHccCC
Confidence            9998888886 5678788888766555

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.94  E-value=3.6e-08  Score=82.77  Aligned_cols=177  Identities=10%  Similarity=-0.037  Sum_probs=110.6

Q ss_pred             HHHHHHHcCCCchHHHHHHHHHHHHcCCCCc-hhHHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCCh
Q 047393           50 CDILNSCLNPILLNVGTQAQAYMTKRGLISH-PAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHP  128 (373)
Q Consensus        50 ~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~  128 (373)
                      ......+.+.|++++|...|+..++..  |+ ...|...     ...+.          .......++.+...|.+.|++
T Consensus         8 ~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~-----~~~~~----------~~~~~~~~~~lg~~~~~~g~~   70 (208)
T 3urz_A            8 LQKVSAAIEAGQNGQAVSYFRQTIALN--IDRTEMYYWT-----NVDKN----------SEISSKLATELALAYKKNRNY   70 (208)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--HHHHHHHHHH-----HSCTT----------SHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC--CCChHHHHHh-----hhcch----------hhhhHHHHHHHHHHHHHCCCH
Confidence            334445567777777777777776643  32 2222210     00000          000122233477778888888


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCC--HHHHHHHH
Q 047393          129 SEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGM--FEEVLEFI  206 (373)
Q Consensus       129 ~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~--~~~A~~~~  206 (373)
                      ++|+..|++..+.. +-+...+..+...+...|++++|...|++..+..  +-+...+..+...|...|.  .+.+...+
T Consensus        71 ~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~~~~~~~~~~~~~  147 (208)
T 3urz_A           71 DKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE--ADNLAANIFLGNYYYLTAEQEKKKLETDY  147 (208)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            88888888887763 3357778888888888888888888888886642  3356777777777765543  44566666


Q ss_pred             HhhCCCCCCH--HHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          207 KGIVPGKLCP--LIWRTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       207 ~~~~~~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      .+.+  .|++  ..+..+..++...|++++|...|++.+++.|+
T Consensus       148 ~~~~--~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~  189 (208)
T 3urz_A          148 KKLS--SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPS  189 (208)
T ss_dssp             C-----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCC
T ss_pred             HHHh--CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            6633  3443  33444555666778888888888888887774

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.91  E-value=1.2e-07  Score=83.94  Aligned_cols=158  Identities=8%  Similarity=0.011  Sum_probs=65.3

Q ss_pred             HHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC--CChhHHHH-HHHHHHhC
Q 047393           49 ICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE--KNSLSWTF-IISARVNH  125 (373)
Q Consensus        49 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~d~~~~~~-li~~~~~~  125 (373)
                      +..+...+.+.|++++|...+++..+.. +-+...+..+...|.+.|++++|...|++...  |+...... ....+.+.
T Consensus       120 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~~~l~~~  198 (287)
T 3qou_A          120 XAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQIELLXQ  198 (287)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHHHHHHhh
Confidence            3344444444455555555555444432 22334444444445555555555555544432  22211111 11123333


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHH
Q 047393          126 GHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEF  205 (373)
Q Consensus       126 g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  205 (373)
                      ++.++|...+++..+.. +.+...+..+...+...|++++|...|+++.+...-..+...+..+...|...|+.++|...
T Consensus       199 ~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~a~~~  277 (287)
T 3qou_A          199 AADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDALASX  277 (287)
T ss_dssp             HTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             cccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCcHHHH
Confidence            44444444444444332 22334444444444444444444444444433310001133444444444444444444444


Q ss_pred             HHh
Q 047393          206 IKG  208 (373)
Q Consensus       206 ~~~  208 (373)
                      +++
T Consensus       278 ~r~  280 (287)
T 3qou_A          278 YRR  280 (287)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            433

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.90  E-value=9.1e-07  Score=78.64  Aligned_cols=223  Identities=11%  Similarity=-0.053  Sum_probs=174.4

Q ss_pred             HHHcCC-HhHHHHHHHHHHhcCCCCCHH-HHHHHHHHHcCCC--chHHHHHHHHHHHHcCCCCchhHHHHHHHHh----H
Q 047393           21 CIKAKD-YEMVHELLERIQLCCGFIDSY-SICDILNSCLNPI--LLNVGTQAQAYMTKRGLISHPAVGNCLININ----S   92 (373)
Q Consensus        21 ~~~~g~-~~~A~~l~~~m~~~g~~p~~~-~~~~ll~~~~~~~--~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~----~   92 (373)
                      ..+.|. .++|+++++++..  +.|+.. .|+.--.++...+  ++++++++++.++... +-+..+|+.--..+    .
T Consensus        42 ~~~~~e~s~~aL~~t~~~L~--~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~  118 (306)
T 3dra_A           42 LMKAEEYSERALHITELGIN--ELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIME  118 (306)
T ss_dssp             HHHTTCCSHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHHHHH--HCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHH
Confidence            344555 4689999999998  457654 4777777777788  9999999999998875 45566676544444    4


Q ss_pred             hc---CCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChH--HHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC--
Q 047393           93 RC---GKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPS--EALDLFKDKQWRYTSMNPTTFRSALKAYALMGL--  162 (373)
Q Consensus        93 ~~---g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~--~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~--  162 (373)
                      +.   +++++++++++.+.+   .+..+|+--.-.+.+.|.++  ++++.++++.+.. +-|...|+.--....+.|.  
T Consensus       119 ~l~~~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~  197 (306)
T 3dra_A          119 LNNNDFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLA  197 (306)
T ss_dssp             HTTTCCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGC
T ss_pred             hccccCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccc
Confidence            44   789999999998873   47778887777788889888  9999999999886 4477888877777777776  


Q ss_pred             ----HHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHH-HHHHHHhhCCC----CCCHHHHHHHHHHHHHcCCHH
Q 047393          163 ----VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEE-VLEFIKGIVPG----KLCPLIWRTLLLSSRVHGDMK  233 (373)
Q Consensus       163 ----~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~-A~~~~~~~~~~----~p~~~~~~~li~~~~~~g~~~  233 (373)
                          ++++.+.++.+....  +-|...|+.+-..+.+.|+..+ +.++.++....    ..++..+..+...+.+.|+.+
T Consensus       198 ~~~~~~eEl~~~~~aI~~~--p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~  275 (306)
T 3dra_A          198 TDNTIDEELNYVKDKIVKC--PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYN  275 (306)
T ss_dssp             CHHHHHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHH
T ss_pred             hhhhHHHHHHHHHHHHHhC--CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHH
Confidence                899999999987652  4578889888888888888544 55677774433    237789999999999999999


Q ss_pred             HHHHHHHHHhc-cCCCC
Q 047393          234 LAKYALDKLLE-LDPGM  249 (373)
Q Consensus       234 ~A~~~~~~m~~-~~P~~  249 (373)
                      +|.++++.+.+ .+|..
T Consensus       276 ~A~~~~~~l~~~~Dpir  292 (306)
T 3dra_A          276 ESRTVYDLLKSKYNPIR  292 (306)
T ss_dssp             HHHHHHHHHHHTTCGGG
T ss_pred             HHHHHHHHHHhccChHH
Confidence            99999999996 78754

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.90  E-value=7.8e-08  Score=83.46  Aligned_cols=99  Identities=6%  Similarity=-0.141  Sum_probs=73.4

Q ss_pred             CCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCC----HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCC--CCch
Q 047393            8 SDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFID----SYSICDILNSCLNPILLNVGTQAQAYMTKRGL--ISHP   81 (373)
Q Consensus         8 ~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~--~~~~   81 (373)
                      ..+...+......+.+.|++++|++.|+++.+..  |+    ...+..+..++.+.|++++|...|+..++...  +...
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~   89 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG--RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVP   89 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC--SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhH
Confidence            3456667777788888999999999999888743  43    45677777888888999999999988877631  1224


Q ss_pred             hHHHHHHHHhHh--------cCCHHHHHHHHccCC
Q 047393           82 AVGNCLININSR--------CGKIDDADLAFKSTP  108 (373)
Q Consensus        82 ~~~~~li~~~~~--------~g~~~~A~~~~~~m~  108 (373)
                      ..+..+..+|.+        .|++++|...|++..
T Consensus        90 ~a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l  124 (261)
T 3qky_A           90 QAEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFI  124 (261)
T ss_dssp             HHHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccccccchhHHHHHHHHHHHH
Confidence            456667777777        788888888887665

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.90  E-value=2.4e-08  Score=88.26  Aligned_cols=182  Identities=8%  Similarity=-0.045  Sum_probs=134.8

Q ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCC-CCchhHHHHHHHHhHhcCCHHHHHHHHccCC
Q 047393           30 VHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGL-ISHPAVGNCLININSRCGKIDDADLAFKSTP  108 (373)
Q Consensus        30 A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  108 (373)
                      |+..|++....+ .++..++..+..++...|++++|++++...+..|- .-+...+-.++..|.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            667777776654 56677777888899999999999999998876653 2367788888999999999999999999987


Q ss_pred             C--C-----ChhHHHHHHHH--HHh--CCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHc
Q 047393          109 E--K-----NSLSWTFIISA--RVN--HGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVY  177 (373)
Q Consensus       109 ~--~-----d~~~~~~li~~--~~~--~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~  177 (373)
                      +  |     +..+..-|..+  ...  .+++.+|..+|+++.+.  .|+..+-..++.++.+.|++++|...++.+.+.+
T Consensus       164 ~~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          164 NAIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             HHSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             hcCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            3  4     23455555555  222  34899999999998765  4664454555668999999999999999875432


Q ss_pred             C--------CCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH
Q 047393          178 H--------IEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP  216 (373)
Q Consensus       178 g--------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~  216 (373)
                      .        -+-|..+.-.+|......|+  +|.++++++....|+.
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~h  286 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEH  286 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCC
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCC
Confidence            1        13356666566666666776  8899999855567753

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.90  E-value=3.3e-08  Score=96.15  Aligned_cols=153  Identities=8%  Similarity=-0.046  Sum_probs=101.9

Q ss_pred             CCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHH
Q 047393           59 PILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLF  135 (373)
Q Consensus        59 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~  135 (373)
                      .|++++|.+.+++..+.. +.+...+..+...|.+.|++++|.+.|++..+   .+..+|..+...|...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            367788888888876653 34567788888888888888888888876543   35677888888888888888888888


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhc---CCHHHHHHHHHhhCCC
Q 047393          136 KDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRA---GMFEEVLEFIKGIVPG  212 (373)
Q Consensus       136 ~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~---g~~~~A~~~~~~~~~~  212 (373)
                      ++..+.. +.+...+..+..++.+.|++++|.+.+++..+..  +.+...+..+...+...   |+.++|.+.+++++..
T Consensus        81 ~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           81 QQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL--PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            8877763 3456778888888888888888888888876542  33567777788888888   8888888888886665


Q ss_pred             CCC
Q 047393          213 KLC  215 (373)
Q Consensus       213 ~p~  215 (373)
                      .|+
T Consensus       158 ~p~  160 (568)
T 2vsy_A          158 GVG  160 (568)
T ss_dssp             TCC
T ss_pred             CCc
Confidence            553

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.89  E-value=8.9e-08  Score=80.34  Aligned_cols=186  Identities=11%  Similarity=-0.063  Sum_probs=123.4

Q ss_pred             HHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHH-HHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHh
Q 047393           13 PWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSY-SICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININ   91 (373)
Q Consensus        13 ~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~   91 (373)
                      .+-.....+...|++++|++.|++..+.  .|+.. .+...  ...+  .               ........+.+...|
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~--~~~~--~---------------~~~~~~~~~~lg~~~   64 (208)
T 3urz_A            6 EMLQKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWT--NVDK--N---------------SEISSKLATELALAY   64 (208)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHH--HSCT--T---------------SHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHh--hhcc--h---------------hhhhHHHHHHHHHHH
Confidence            3444556678999999999999999874  45433 22210  1111  0               011223345577788


Q ss_pred             HhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC--HHHH
Q 047393           92 SRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGL--VGEA  166 (373)
Q Consensus        92 ~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~--~~~a  166 (373)
                      .+.|++++|...|++..   ..+...|..+...+...|++++|...|++..+.. +-+..++..+-..|...|.  .+.+
T Consensus        65 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~  143 (208)
T 3urz_A           65 KKNRNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKL  143 (208)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHH
Confidence            88899999998888765   2367888888999999999999999999988864 3456778777777765543  3444


Q ss_pred             HHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHH
Q 047393          167 YRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLL  223 (373)
Q Consensus       167 ~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li  223 (373)
                      ...++...   ...|....+.....++...|++++|...|++++...|+......+.
T Consensus       144 ~~~~~~~~---~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~~~~~~l~  197 (208)
T 3urz_A          144 ETDYKKLS---SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPSTEAQKTLD  197 (208)
T ss_dssp             HHHHC------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCHHHHHHHH
T ss_pred             HHHHHHHh---CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            55555442   2223333344445566678999999999999898889876544443

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.89  E-value=1.3e-07  Score=79.09  Aligned_cols=133  Identities=11%  Similarity=-0.126  Sum_probs=106.4

Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC
Q 047393           83 VGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGL  162 (373)
Q Consensus        83 ~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~  162 (373)
                      .+..+...+.+.|++++|.+.|++...++..+|..+...|.+.|++++|.+.|++..+.. +.+...+..+..++...|+
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~   86 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEK   86 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHccc
Confidence            345566778888999999999998888888889999999999999999999999888764 4567788888889999999


Q ss_pred             HHHHHHHHHHhHHHcCC-------------CC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH
Q 047393          163 VGEAYRLFLSMEEVYHI-------------EP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP  216 (373)
Q Consensus       163 ~~~a~~~~~~m~~~~g~-------------~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~  216 (373)
                      +++|...|+...+...-             .| ....+..+..+|.+.|++++|.+.|++++...|+.
T Consensus        87 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           87 YDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             HHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            99999999988653211             11 12677778888888888888888888877777754

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.88  E-value=2.4e-07  Score=91.34  Aligned_cols=233  Identities=7%  Similarity=0.004  Sum_probs=176.8

Q ss_pred             hHHHHHHHHHHHcC-------CHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHH-HHHHHHHHcCCCCchhH
Q 047393           12 IPWNLLLKACIKAK-------DYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGT-QAQAYMTKRGLISHPAV   83 (373)
Q Consensus        12 ~~~n~li~~~~~~g-------~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~-~~~~~m~~~g~~~~~~~   83 (373)
                      ..|...+.---..+       ..+.+..+|++.... ++-+...|.....-+.+.|+.++|. ++|++.... ++.+...
T Consensus       303 ~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~L  380 (679)
T 4e6h_A          303 LIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVL  380 (679)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHH
T ss_pred             HHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHH
Confidence            56777766433332       134466778888765 3336667777777777778888896 999999864 4667777


Q ss_pred             HHHHHHHhHhcCCHHHHHHHHccCCC-------------CC------------hhHHHHHHHHHHhCCChHHHHHHHHHH
Q 047393           84 GNCLININSRCGKIDDADLAFKSTPE-------------KN------------SLSWTFIISARVNHGHPSEALDLFKDK  138 (373)
Q Consensus        84 ~~~li~~~~~~g~~~~A~~~~~~m~~-------------~d------------~~~~~~li~~~~~~g~~~~A~~l~~~m  138 (373)
                      |-..+...-+.|+++.|.++|+++.+             |+            ...|-..+....+.|..+.|..+|.+.
T Consensus       381 wl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A  460 (679)
T 4e6h_A          381 AFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKC  460 (679)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            88888999999999999999987753             31            235888888888899999999999999


Q ss_pred             HHc-CCCCCHHHHHHHHHHHHcc-CCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC--
Q 047393          139 QWR-YTSMNPTTFRSALKAYALM-GLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL--  214 (373)
Q Consensus       139 ~~~-g~~p~~~t~~~ll~~~~~~-g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p--  214 (373)
                      .+. + .+....|...+..--+. ++.+.|..+|+...+.+  +-+...+...++.....|+.+.|..+|++++...|  
T Consensus       461 ~~~~~-~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~--p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~  537 (679)
T 4e6h_A          461 RRLKK-LVTPDIYLENAYIEYHISKDTKTACKVLELGLKYF--ATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDS  537 (679)
T ss_dssp             HHTGG-GSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSST
T ss_pred             HHhcC-CCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCH
Confidence            876 2 12233443333333333 55999999999998874  44666778889988899999999999999888555  


Q ss_pred             --CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          215 --CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       215 --~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                        ....|...+.--.+.|+.+.+.++.+++.+..|++
T Consensus       538 ~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~  574 (679)
T 4e6h_A          538 HLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEV  574 (679)
T ss_dssp             THHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence              34789999999999999999999999999988886

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.87  E-value=4.1e-08  Score=79.99  Aligned_cols=156  Identities=12%  Similarity=-0.011  Sum_probs=98.1

Q ss_pred             HHHHHHHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHc
Q 047393           84 GNCLININSRCGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKA-YAL  159 (373)
Q Consensus        84 ~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~-~~~  159 (373)
                      +..+...+.+.|++++|...|++..+   .+...|..+...+.+.|++++|...+++..+..  |+...+...... +..
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHh
Confidence            33444556667777777777776653   245666667777777777777777777665542  333322221111 112


Q ss_pred             cCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC---HHHHHHHHHHHHHcCCHHHH
Q 047393          160 MGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC---PLIWRTLLLSSRVHGDMKLA  235 (373)
Q Consensus       160 ~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~---~~~~~~li~~~~~~g~~~~A  235 (373)
                      .+...+|...+++..+.   .| +...+..+...+...|++++|...|++++...|+   ...+..+...+...|+.++|
T Consensus        87 ~~~~~~a~~~~~~al~~---~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           87 QAAESPELKRLEQELAA---NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHTSCHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             hcccchHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            12223456667766554   34 4677777777888888888888888877766664   45777777888888888888


Q ss_pred             HHHHHHHhc
Q 047393          236 KYALDKLLE  244 (373)
Q Consensus       236 ~~~~~~m~~  244 (373)
                      ...|++.+.
T Consensus       164 ~~~y~~al~  172 (176)
T 2r5s_A          164 ASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            877776653

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.87  E-value=4.8e-08  Score=87.26  Aligned_cols=211  Identities=10%  Similarity=-0.025  Sum_probs=131.5

Q ss_pred             cCCHhHHHHHHHHHHhc------CCCCCH----HHHHHHHHHHcCCCchHHHHHHHHHHHHc----CCCCc-hhHHHHHH
Q 047393           24 AKDYEMVHELLERIQLC------CGFIDS----YSICDILNSCLNPILLNVGTQAQAYMTKR----GLISH-PAVGNCLI   88 (373)
Q Consensus        24 ~g~~~~A~~l~~~m~~~------g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~~~-~~~~~~li   88 (373)
                      .|++++|.+++++..+.      ++.++.    ..|......+...|++++|...|.+..+.    |-.+. ..+|+.+.
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg   83 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKTSFMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAG   83 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCCSSSCSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccccccCCCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            56778888888776542      112332    24666666777778888888877776443    21111 34677777


Q ss_pred             HHhHhcCCHHHHHHHHccCC-------CC--ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC---C--CHHHHHHHH
Q 047393           89 NINSRCGKIDDADLAFKSTP-------EK--NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTS---M--NPTTFRSAL  154 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~-------~~--d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~---p--~~~t~~~ll  154 (373)
                      ..|.+.|++++|...|++..       .+  -..+++.+...|.. |++++|++.|++..+....   +  ...+++.+.
T Consensus        84 ~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg  162 (307)
T 2ifu_A           84 MMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKAS  162 (307)
T ss_dssp             HHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHH
Confidence            77888888777777665432       11  13566677777777 8888888888776543110   0  135677777


Q ss_pred             HHHHccCCHHHHHHHHHHhHHHc---CCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH------HHHHHHHH
Q 047393          155 KAYALMGLVGEAYRLFLSMEEVY---HIEPS-EEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP------LIWRTLLL  224 (373)
Q Consensus       155 ~~~~~~g~~~~a~~~~~~m~~~~---g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~li~  224 (373)
                      ..|.+.|++++|...|++..+..   +..+. ...+..+...+...|++++|...|++++ ..|+.      .....++.
T Consensus       163 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~~l~~l~~  241 (307)
T 2ifu_A          163 RLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-SIPGFSGSEDCAALEDLLQ  241 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-TSTTSTTSHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-CCCCCCCCHHHHHHHHHHH
Confidence            78888888888888888775432   11111 2255566666777788888888888877 56632      23444555


Q ss_pred             HHHHcCCHHHHHH
Q 047393          225 SSRVHGDMKLAKY  237 (373)
Q Consensus       225 ~~~~~g~~~~A~~  237 (373)
                      ++ ..|+.+.+..
T Consensus       242 ~~-~~~d~~~~~~  253 (307)
T 2ifu_A          242 AY-DEQDEEQLLR  253 (307)
T ss_dssp             HH-HTTCHHHHHH
T ss_pred             HH-HhcCHHHHHH
Confidence            54 5666665555

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.86  E-value=7.6e-08  Score=81.75  Aligned_cols=183  Identities=10%  Similarity=-0.036  Sum_probs=107.9

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCC-C-chhHHHHHHHHhHhcCCHHHHHHHHccCCC--CC-h---hHHHHH
Q 047393           47 YSICDILNSCLNPILLNVGTQAQAYMTKRGLI-S-HPAVGNCLININSRCGKIDDADLAFKSTPE--KN-S---LSWTFI  118 (373)
Q Consensus        47 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~-~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~d-~---~~~~~l  118 (373)
                      ..+..+...+.+.|++++|...|+.+++.... | ....+..+..+|.+.|++++|...|++..+  |+ .   .++..+
T Consensus         5 ~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~   84 (225)
T 2yhc_A            5 NEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMR   84 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHH
Confidence            34444555666677777777777777664311 1 124556666777777777777777766542  22 1   133333


Q ss_pred             HHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC-HhHH-----------
Q 047393          119 ISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS-EEHY-----------  186 (373)
Q Consensus       119 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-~~~~-----------  186 (373)
                      ..++.+.|..     .++            .|..+-..+...|+.++|...|+++.+.   .|+ ...+           
T Consensus        85 g~~~~~~~~~-----~~~------------~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~P~~~~a~~a~~~l~~~~~  144 (225)
T 2yhc_A           85 GLTNMALDDS-----ALQ------------GFFGVDRSDRDPQQARAAFSDFSKLVRG---YPNSQYTTDATKRLVFLKD  144 (225)
T ss_dssp             HHHHHHHHC-------------------------------CCHHHHHHHHHHHHHHTT---CTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHhhhhh-----hhh------------hhhccchhhcCcHHHHHHHHHHHHHHHH---CcCChhHHHHHHHHHHHHH
Confidence            3333331100     000            0011111222345555555555555433   222 1111           


Q ss_pred             ------HHHHHHHHhcCCHHHHHHHHHhhCCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          187 ------SIMVEALGRAGMFEEVLEFIKGIVPGKLCP----LIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       187 ------~~li~~~~~~g~~~~A~~~~~~~~~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                            ..+...|.+.|++++|...|+++++..|+.    ..+..+..++.+.|+.++|.+.++.+....|++
T Consensus       145 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~  217 (225)
T 2yhc_A          145 RLAKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNT  217 (225)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCC
T ss_pred             HHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCc
Confidence                  245667889999999999999977766652    578889999999999999999999999887765

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.86  E-value=2e-08  Score=79.66  Aligned_cols=140  Identities=10%  Similarity=0.057  Sum_probs=94.6

Q ss_pred             HHHHhHhcCCHHHHHHHHccCCCC---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCH
Q 047393           87 LININSRCGKIDDADLAFKSTPEK---NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLV  163 (373)
Q Consensus        87 li~~~~~~g~~~~A~~~~~~m~~~---d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~  163 (373)
                      |..++...|++++|++.+......   +...+..+...|.+.|++++|++.|++..+.. +-+..+|..+-..|.+.|++
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCch
Confidence            344556667777777777766543   34556667777888888888888888877663 33567777777888888888


Q ss_pred             HHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHH-HHhhCCCCC-CHHHHHHHHHHHHHcC
Q 047393          164 GEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEF-IKGIVPGKL-CPLIWRTLLLSSRVHG  230 (373)
Q Consensus       164 ~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~-~~~~~~~~p-~~~~~~~li~~~~~~g  230 (373)
                      ++|...|+...+.   .| +...+..+...|.+.|+.++|.+. ++++++..| ++..|......+...|
T Consensus        82 ~~A~~~~~~al~~---~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           82 DKAVECYRRSVEL---NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhC
Confidence            8888888877654   44 566777777788888887765554 466566666 4566666555555555

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=98.84  E-value=7.7e-08  Score=88.52  Aligned_cols=197  Identities=8%  Similarity=-0.078  Sum_probs=151.5

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcC--C---CC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHc----CCCC-
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCC--G---FI-DSYSICDILNSCLNPILLNVGTQAQAYMTKR----GLIS-   79 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g--~---~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~~-   79 (373)
                      ..+|+.+...|...|++++|++.+++..+.-  .   .| ...+++.+..++...|++++|...++...+.    +-.+ 
T Consensus       143 a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  222 (383)
T 3ulq_A          143 AEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQL  222 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHH
Confidence            4678999999999999999999999887631  1   11 1356888889999999999999999987653    2111 


Q ss_pred             chhHHHHHHHHhHhcCCHHHHHHHHccCCC--------C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHc----CCCCC
Q 047393           80 HPAVGNCLININSRCGKIDDADLAFKSTPE--------K-NSLSWTFIISARVNHGHPSEALDLFKDKQWR----YTSMN  146 (373)
Q Consensus        80 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--------~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~p~  146 (373)
                      ...+++.+...|.+.|++++|.+.|++..+        | ...++..+...|.+.|++++|.+.+++..+.    +-+..
T Consensus       223 ~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  302 (383)
T 3ulq_A          223 MGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIY  302 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            124788899999999999999999876543        2 3567888999999999999999999987653    21222


Q ss_pred             HHHHHHHHHHHHccCC---HHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCC
Q 047393          147 PTTFRSALKAYALMGL---VGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVP  211 (373)
Q Consensus       147 ~~t~~~ll~~~~~~g~---~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  211 (373)
                      ...+..+-..+...|+   +++|..+++..    +..| ....+..+...|.+.|++++|.+.|++++.
T Consensus       303 ~~~~~~l~~~~~~~~~~~~~~~al~~~~~~----~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          303 LSEFEFLKSLYLSGPDEEAIQGFFDFLESK----MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHHTSSCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHC----cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3345677778888998   77888888766    2233 345777889999999999999999988543

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.83  E-value=7.7e-08  Score=80.48  Aligned_cols=131  Identities=11%  Similarity=-0.027  Sum_probs=113.2

Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHH
Q 047393          112 SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE  191 (373)
Q Consensus       112 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  191 (373)
                      ...+..+...+...|++++|.+.|++..    .|+...+..+...+.+.|++++|...+++..+..  +.+...+..+..
T Consensus         6 ~~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~lg~   79 (213)
T 1hh8_A            6 AISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGM   79 (213)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHH
Confidence            3456667788899999999999998773    6788999999999999999999999999997652  446788999999


Q ss_pred             HHHhcCCHHHHHHHHHhhCCCCCC-----------------HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          192 ALGRAGMFEEVLEFIKGIVPGKLC-----------------PLIWRTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       192 ~~~~~g~~~~A~~~~~~~~~~~p~-----------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      +|.+.|++++|.+.|++++...|+                 ...|..+..++...|++++|...+++..+..|+
T Consensus        80 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  153 (213)
T 1hh8_A           80 LYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  153 (213)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcc
Confidence            999999999999999997664442                 278889999999999999999999999998874

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.82  E-value=6.9e-08  Score=96.01  Aligned_cols=181  Identities=9%  Similarity=-0.097  Sum_probs=148.1

Q ss_pred             HHcCCHhHHHHHHHHHHh------cCCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhc
Q 047393           22 IKAKDYEMVHELLERIQL------CCGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRC   94 (373)
Q Consensus        22 ~~~g~~~~A~~l~~~m~~------~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~   94 (373)
                      ...|++++|++.|++..+      ....| +...+..+..++.+.|++++|...+++.++.. +.+...|..+..+|.+.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            778999999999999881      01334 45678888899999999999999999998865 45678999999999999


Q ss_pred             CCHHHHHHHHccCC--CC-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 047393           95 GKIDDADLAFKSTP--EK-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFL  171 (373)
Q Consensus        95 g~~~~A~~~~~~m~--~~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~  171 (373)
                      |++++|.+.|++..  .| +...|..+..++.+.|++++ ++.|++..+.. +-+...|..+..++.+.|++++|...|+
T Consensus       481 g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~  558 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRTLD  558 (681)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999999875  23 67889999999999999999 99999998874 4467889999999999999999999999


Q ss_pred             HhHHHcCCCCC-HhHHHHHHHHHHhcCC--------HHHHHHHHHh
Q 047393          172 SMEEVYHIEPS-EEHYSIMVEALGRAGM--------FEEVLEFIKG  208 (373)
Q Consensus       172 ~m~~~~g~~p~-~~~~~~li~~~~~~g~--------~~~A~~~~~~  208 (373)
                      +..+   +.|+ ...+..+..++...|+        +++|.+.+..
T Consensus       559 ~al~---l~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~  601 (681)
T 2pzi_A          559 EVPP---TSRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEA  601 (681)
T ss_dssp             TSCT---TSTTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHT
T ss_pred             hhcc---cCcccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhh
Confidence            8853   4665 5677777777766444        7777888877

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.81  E-value=4.7e-08  Score=86.49  Aligned_cols=163  Identities=9%  Similarity=-0.048  Sum_probs=132.9

Q ss_pred             CCchhHHHHHHHHhHhcCCHHHHHHHHccCC--CC-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHH-
Q 047393           78 ISHPAVGNCLININSRCGKIDDADLAFKSTP--EK-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSA-  153 (373)
Q Consensus        78 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~--~~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~l-  153 (373)
                      +.+...+..+...+.+.|++++|...|++..  .| +...+..+...+.+.|++++|...+++....  .|+....... 
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~  191 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVA  191 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHH
Confidence            5566777888888999999999999999875  34 6788899999999999999999999998765  4555433322 


Q ss_pred             HHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC---HHHHHHHHHHHHHcC
Q 047393          154 LKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC---PLIWRTLLLSSRVHG  230 (373)
Q Consensus       154 l~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~---~~~~~~li~~~~~~g  230 (373)
                      ...+.+.++.++|...+++.....  +.+...+..+...|...|+.++|.+.|.+++...|+   ...+..+...+...|
T Consensus       192 ~~~l~~~~~~~~a~~~l~~al~~~--P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          192 QIELLXQAADTPEIQQLQQQVAEN--PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHTSCHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHhhcccCccHHHHHHHHhcC--CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            333667788888899998887652  446788999999999999999999999998776674   578999999999999


Q ss_pred             CHHHHHHHHHHHhc
Q 047393          231 DMKLAKYALDKLLE  244 (373)
Q Consensus       231 ~~~~A~~~~~~m~~  244 (373)
                      +.++|...+++...
T Consensus       270 ~~~~a~~~~r~al~  283 (287)
T 3qou_A          270 TGDALASXYRRQLY  283 (287)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            99999998887654

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.78  E-value=7e-08  Score=86.20  Aligned_cols=189  Identities=13%  Similarity=0.027  Sum_probs=139.7

Q ss_pred             CCchHHHHHHHHHHHHc------CCCCc----hhHHHHHHHHhHhcCCHHHHHHHHccCCC-------C--ChhHHHHHH
Q 047393           59 PILLNVGTQAQAYMTKR------GLISH----PAVGNCLININSRCGKIDDADLAFKSTPE-------K--NSLSWTFII  119 (373)
Q Consensus        59 ~~~~~~a~~~~~~m~~~------g~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~-------~--d~~~~~~li  119 (373)
                      .|++++|.+++++..+.      +..++    ...|+.....|...|++++|.+.|.+..+       +  -..+|+.+.
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg   83 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKTSFMKWKPDYDSAASEYAKAAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAG   83 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCCSSSCSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHccccccCCCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            35677777777766442      11233    23567777889999999999988876542       1  145788899


Q ss_pred             HHHHhCCChHHHHHHHHHHHHcC--C-CCC--HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC----CHhHHHHHH
Q 047393          120 SARVNHGHPSEALDLFKDKQWRY--T-SMN--PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP----SEEHYSIMV  190 (373)
Q Consensus       120 ~~~~~~g~~~~A~~l~~~m~~~g--~-~p~--~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p----~~~~~~~li  190 (373)
                      ..|.+.|++++|+..|++..+.-  . .|.  ..+++.+-..|.. |++++|...|++......-..    ...+++.+.
T Consensus        84 ~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg  162 (307)
T 2ifu_A           84 MMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKAS  162 (307)
T ss_dssp             HHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHH
Confidence            99999999999999999875431  1 121  3577888888888 999999999998865421111    146788889


Q ss_pred             HHHHhcCCHHHHHHHHHhhCCCCC---C----HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          191 EALGRAGMFEEVLEFIKGIVPGKL---C----PLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       191 ~~~~~~g~~~~A~~~~~~~~~~~p---~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ..|.+.|++++|.+.|++++...|   +    ...+..+...+...|++++|...|++.. ..|+.
T Consensus       163 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~p~~  227 (307)
T 2ifu_A          163 RLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-SIPGF  227 (307)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-TSTTS
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-CCCCC
Confidence            999999999999999998765222   1    2366777778888899999999999999 88754

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.76  E-value=1.9e-07  Score=76.01  Aligned_cols=156  Identities=12%  Similarity=0.020  Sum_probs=108.2

Q ss_pred             HHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC--CChhHHHHHHHH-HHhC
Q 047393           49 ICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE--KNSLSWTFIISA-RVNH  125 (373)
Q Consensus        49 ~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~d~~~~~~li~~-~~~~  125 (373)
                      +..+...+.+.|++++|...+++..+.. +.+...+..+...|.+.|++++|...|++..+  |+...+..+... +...
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~   87 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQDNSYKSLIAKLELHQQ   87 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChHHHHHHHHHHHHhh
Confidence            3445556667777777777777765543 34566777788888888888888888887763  333322222111 2222


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC---HhHHHHHHHHHHhcCCHHHH
Q 047393          126 GHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS---EEHYSIMVEALGRAGMFEEV  202 (373)
Q Consensus       126 g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~---~~~~~~li~~~~~~g~~~~A  202 (373)
                      +...+|...+++..+.. +-+...+..+...+...|++++|...|+++.+.   .|+   ...+..+...+...|+.++|
T Consensus        88 ~~~~~a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           88 AAESPELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKV---NLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HTSCHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT---CTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             cccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHh---CcccChHHHHHHHHHHHHHhCCCCcH
Confidence            33445778888877763 335788888888899999999999999988654   443   55788888999999999999


Q ss_pred             HHHHHhh
Q 047393          203 LEFIKGI  209 (373)
Q Consensus       203 ~~~~~~~  209 (373)
                      ...|++.
T Consensus       164 ~~~y~~a  170 (176)
T 2r5s_A          164 ASKYRRQ  170 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9888763

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.75  E-value=2.3e-06  Score=80.74  Aligned_cols=225  Identities=9%  Similarity=-0.064  Sum_probs=140.2

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCC---chHHHHHHHHHHHHcCCCCchhHHHHH
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPI---LLNVGTQAQAYMTKRGLISHPAVGNCL   87 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~---~~~~a~~~~~~m~~~g~~~~~~~~~~l   87 (373)
                      ...+..+...|...+.++++.+-...+.+.-...++..+..|...+.+.|   +.++|.+.|+...+.| +++...+..|
T Consensus       141 ~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~L  219 (452)
T 3e4b_A          141 PEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSV  219 (452)
T ss_dssp             TTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHH
Confidence            34455555556666644444433222222111223336666666676777   7788888888877777 4555555556


Q ss_pred             HHHhHhc----CCHHHHHHHHccCCCCChhHHHHHHHH-H--HhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc
Q 047393           88 ININSRC----GKIDDADLAFKSTPEKNSLSWTFIISA-R--VNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALM  160 (373)
Q Consensus        88 i~~~~~~----g~~~~A~~~~~~m~~~d~~~~~~li~~-~--~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~  160 (373)
                      ...|...    +++++|.+.|++....+...+..|... |  ...+++++|.+.|++..+.|   +...+..+-..|. .
T Consensus       220 g~~y~~g~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~  295 (452)
T 3e4b_A          220 ARVLGDATLGTPDEKTAQALLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-E  295 (452)
T ss_dssp             HHHHTCGGGSSCCHHHHHHHHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-H
T ss_pred             HHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-c
Confidence            6666544    678888888877663356666666665 3  45778888888888877766   5666666666665 4


Q ss_pred             C-----CHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH---
Q 047393          161 G-----LVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGR----AGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRV---  228 (373)
Q Consensus       161 g-----~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~---  228 (373)
                      |     ++++|..+|++..     +-+...+..|-..|..    ..+.++|.++|+++.. .-++.....|...|..   
T Consensus       296 G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~-~g~~~A~~~Lg~~y~~G~g  369 (452)
T 3e4b_A          296 GKWVPADAKAAEAHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAAR-NGQNSADFAIAQLFSQGKG  369 (452)
T ss_dssp             CSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHT-TTCTTHHHHHHHHHHSCTT
T ss_pred             CCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHh-hChHHHHHHHHHHHHhCCC
Confidence            4     7888888887663     3355566666666665    3377888888887555 3344455555555543   


Q ss_pred             -cCCHHHHHHHHHHHhccC
Q 047393          229 -HGDMKLAKYALDKLLELD  246 (373)
Q Consensus       229 -~g~~~~A~~~~~~m~~~~  246 (373)
                       ..+.++|...|+...+..
T Consensus       370 ~~~d~~~A~~~~~~A~~~g  388 (452)
T 3e4b_A          370 TKPDPLNAYVFSQLAKAQD  388 (452)
T ss_dssp             BCCCHHHHHHHHHHHHTTC
T ss_pred             CCCCHHHHHHHHHHHHHCC
Confidence             447788888887777644

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=98.75  E-value=2.8e-07  Score=84.65  Aligned_cols=196  Identities=10%  Similarity=-0.037  Sum_probs=150.1

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcC--C---CC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHc----CCCC-
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCC--G---FI-DSYSICDILNSCLNPILLNVGTQAQAYMTKR----GLIS-   79 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g--~---~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~~-   79 (373)
                      ..+|+.+...|...|++++|++.+++..+.-  .   .+ ...+++.+..++...|++++|.+.++...+.    +-++ 
T Consensus       141 a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~  220 (378)
T 3q15_A          141 AEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRF  220 (378)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            4578889999999999999999999877521  1   11 2456788889999999999999999987653    2111 


Q ss_pred             chhHHHHHHHHhHhcCCHHHHHHHHccCCC-----C---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcC----CCCCH
Q 047393           80 HPAVGNCLININSRCGKIDDADLAFKSTPE-----K---NSLSWTFIISARVNHGHPSEALDLFKDKQWRY----TSMNP  147 (373)
Q Consensus        80 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~---d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g----~~p~~  147 (373)
                      ...+++.+...|.+.|++++|.+.|++..+     .   ...++..+...|.+.|++++|.+.+++..+..    -+...
T Consensus       221 ~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  300 (378)
T 3q15_A          221 IAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYK  300 (378)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            235788899999999999999999987653     2   35677888899999999999999999987642    12223


Q ss_pred             HHHHHHHHHHHccCC---HHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhC
Q 047393          148 TTFRSALKAYALMGL---VGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIV  210 (373)
Q Consensus       148 ~t~~~ll~~~~~~g~---~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~  210 (373)
                      ..+..+-..+...|+   +++|..+++..    +..| ....+..+...|.+.|+.++|.+.|++++
T Consensus       301 ~~~~~l~~ly~~~~~~~~~~~al~~~~~~----~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al  363 (378)
T 3q15_A          301 ELFLFLQAVYKETVDERKIHDLLSYFEKK----NLHAYIEACARSAAAVFESSCHFEQAAAFYRKVL  363 (378)
T ss_dssp             HHHHHHHHHHSSSCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHhC----CChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            456666667777888   77888877764    2233 34566788899999999999999999854

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.73  E-value=3.7e-07  Score=76.77  Aligned_cols=157  Identities=9%  Similarity=-0.066  Sum_probs=80.2

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHccCCC-CChhHHHHHHHHHHhCC----ChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 047393           81 PAVGNCLININSRCGKIDDADLAFKSTPE-KNSLSWTFIISARVNHG----HPSEALDLFKDKQWRYTSMNPTTFRSALK  155 (373)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~d~~~~~~li~~~~~~g----~~~~A~~l~~~m~~~g~~p~~~t~~~ll~  155 (373)
                      ...+..|...|...+++++|.+.|++..+ .+..++..|...|.. +    ++++|.++|++..+.|   +...+..+-.
T Consensus        18 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg~   93 (212)
T 3rjv_A           18 RRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIVLAR   93 (212)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHH
Confidence            33444444444444445555444444332 234444444444444 3    5555555555554443   4445555555


Q ss_pred             HHHc----cCCHHHHHHHHHHhHHHcCCCCC---HhHHHHHHHHHHh----cCCHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 047393          156 AYAL----MGLVGEAYRLFLSMEEVYHIEPS---EEHYSIMVEALGR----AGMFEEVLEFIKGIVPGKLCPLIWRTLLL  224 (373)
Q Consensus       156 ~~~~----~g~~~~a~~~~~~m~~~~g~~p~---~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~li~  224 (373)
                      .|..    .+++++|..+|++..+.   .|+   ...+..|-..|..    .++.++|.+.|+++....+++..+..|..
T Consensus        94 ~y~~g~g~~~d~~~A~~~~~~A~~~---~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~a~~~Lg~  170 (212)
T 3rjv_A           94 VLVNRQAGATDVAHAITLLQDAARD---SESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLSRTGYAEYWAGM  170 (212)
T ss_dssp             HHTCGGGSSCCHHHHHHHHHHHTSS---TTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTSCTTHHHHHHHH
T ss_pred             HHHcCCCCccCHHHHHHHHHHHHHc---CCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence            5544    55666666666655322   221   4555555555655    55666666666664443234445555555


Q ss_pred             HHHHc-C-----CHHHHHHHHHHHhc
Q 047393          225 SSRVH-G-----DMKLAKYALDKLLE  244 (373)
Q Consensus       225 ~~~~~-g-----~~~~A~~~~~~m~~  244 (373)
                      .|... |     +.++|...|++..+
T Consensus       171 ~y~~g~gg~~~~d~~~A~~~~~~A~~  196 (212)
T 3rjv_A          171 MFQQGEKGFIEPNKQKALHWLNVSCL  196 (212)
T ss_dssp             HHHHCBTTTBCCCHHHHHHHHHHHHH
T ss_pred             HHHcCCCCCCCCCHHHHHHHHHHHHH
Confidence            55432 2     66666666666655

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.73  E-value=4.9e-07  Score=79.95  Aligned_cols=164  Identities=9%  Similarity=-0.098  Sum_probs=123.4

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHccCCC---CC------hhHHHHHHHHHHhCCChHHHHHHHHHHHHcC---CCCC--
Q 047393           81 PAVGNCLININSRCGKIDDADLAFKSTPE---KN------SLSWTFIISARVNHGHPSEALDLFKDKQWRY---TSMN--  146 (373)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g---~~p~--  146 (373)
                      ...+...+..+...|++++|.+.+++..+   ..      ...+..+...+...|++++|++.+++..+..   ..+.  
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            34555677888999999999998864431   11      1234456667788899999999999887532   1222  


Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC-----HhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC------
Q 047393          147 PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS-----EEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC------  215 (373)
Q Consensus       147 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~------  215 (373)
                      ..+|+.+...|...|++++|...+++..+.....|+     ..++..+...|.+.|++++|.+.+++++...++      
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~  234 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHH
Confidence            458889999999999999999999988632111222     258888999999999999999999987652222      


Q ss_pred             -HHHHHHHHHHHHHcCCHHHH-HHHHHHHhc
Q 047393          216 -PLIWRTLLLSSRVHGDMKLA-KYALDKLLE  244 (373)
Q Consensus       216 -~~~~~~li~~~~~~g~~~~A-~~~~~~m~~  244 (373)
                       ..+|..+...|.+.|+.++| ...+++...
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence             57889999999999999999 777888765

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.72  E-value=1.7e-07  Score=91.06  Aligned_cols=149  Identities=10%  Similarity=-0.065  Sum_probs=109.3

Q ss_pred             cCCHhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHH
Q 047393           24 AKDYEMVHELLERIQLCCGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADL  102 (373)
Q Consensus        24 ~g~~~~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  102 (373)
                      .|++++|++.|++..+.  .| +...+..+...+.+.|++++|.+.+++..+.. +.+...+..+...|.+.|++++|.+
T Consensus         2 ~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRH--RPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            47889999999888764  44 46678888888889999999999999988764 4457788889999999999999999


Q ss_pred             HHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc---CCHHHHHHHHHHhHHH
Q 047393          103 AFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALM---GLVGEAYRLFLSMEEV  176 (373)
Q Consensus       103 ~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~---g~~~~a~~~~~~m~~~  176 (373)
                      .|++..   ..+...|..+...|.+.|++++|.+.|++..+.. +.+...+..+...+...   |+.++|...+++..+.
T Consensus        79 ~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           79 LLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            998765   2367788889999999999999999999988764 34577888888888888   9999999999988765

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.71  E-value=6.3e-07  Score=75.97  Aligned_cols=186  Identities=12%  Similarity=-0.038  Sum_probs=114.3

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCC-CCC-HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCch---hHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCG-FID-SYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHP---AVG   84 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~-~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~---~~~   84 (373)
                      +...+..+...+.+.|++++|++.|+++.+... .|. ...+..+..++.+.|++++|...|+.+++... -+.   ..+
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P-~~~~~~~a~   81 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNP-THPNIDYVM   81 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCc-CCCcHHHHH
Confidence            344566677889999999999999999987532 121 34677788899999999999999999987642 122   234


Q ss_pred             HHHHHHhHh------------------cCCHHHHHHHHccCCC--CC-hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCC
Q 047393           85 NCLININSR------------------CGKIDDADLAFKSTPE--KN-SLSWTFIISARVNHGHPSEALDLFKDKQWRYT  143 (373)
Q Consensus        85 ~~li~~~~~------------------~g~~~~A~~~~~~m~~--~d-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~  143 (373)
                      ..+..+|.+                  .|++++|...|+++.+  |+ ..++.+....-          .+...+     
T Consensus        82 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~~~~a~~a~~~l~----------~~~~~~-----  146 (225)
T 2yhc_A           82 YMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPNSQYTTDATKRLV----------FLKDRL-----  146 (225)
T ss_dssp             HHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTTCTTHHHHHHHHH----------HHHHHH-----
T ss_pred             HHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcCChhHHHHHHHHH----------HHHHHH-----
Confidence            444444443                  3455566665555443  21 12221111000          000000     


Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC
Q 047393          144 SMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL  214 (373)
Q Consensus       144 ~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p  214 (373)
                         ......+...+.+.|++++|...|+.+.+.+.-.| ....+..+..+|.+.|+.++|.+.++.+....|
T Consensus       147 ---~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~  215 (225)
T 2yhc_A          147 ---AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSS  215 (225)
T ss_dssp             ---HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCS
T ss_pred             ---HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC
Confidence               00112345667778888888888888876631111 124577778888888888888888887433334

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.70  E-value=1.1e-08  Score=81.25  Aligned_cols=126  Identities=10%  Similarity=-0.081  Sum_probs=103.2

Q ss_pred             HHHHhCCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCC
Q 047393          120 SARVNHGHPSEALDLFKDKQWRYTSMN-PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGM  198 (373)
Q Consensus       120 ~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~  198 (373)
                      ..+...|++++|++.++.....  .|+ ...+..+-..|.+.|++++|...|++..+..  +-+...|..+...|.+.|+
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ--ERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCc
Confidence            4455668889999988877543  232 4456678889999999999999999997652  3377899999999999999


Q ss_pred             HHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHH-HHHHhccCCCC
Q 047393          199 FEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYA-LDKLLELDPGM  249 (373)
Q Consensus       199 ~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~-~~~m~~~~P~~  249 (373)
                      +++|...|+++++..| ++..|..+...|.+.|+.++|.+. +++..+++|++
T Consensus        81 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~  133 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGS  133 (150)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTC
T ss_pred             hHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCC
Confidence            9999999999888778 578999999999999998876654 68999999876

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.66  E-value=3.4e-06  Score=74.46  Aligned_cols=202  Identities=11%  Similarity=-0.038  Sum_probs=140.9

Q ss_pred             HHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhH---HHHHHHHhHhcCCHHHHHHHHccCCCC
Q 047393           34 LERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAV---GNCLININSRCGKIDDADLAFKSTPEK  110 (373)
Q Consensus        34 ~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~  110 (373)
                      +.++......|+..+...+...+.-.-+         .+.......+...   +...+..+.+.|++++|.+++++..+.
T Consensus        34 ~s~~e~g~~~~~~~~l~~i~~~l~~~~~---------~~~~~~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~~  104 (293)
T 3u3w_A           34 VSRIESGAVYPSMDILQGIAAKLQIPII---------HFYEVLIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELKK  104 (293)
T ss_dssp             HHHHHTTSCCCCHHHHHHHHHHHTCCTH---------HHHHTTTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHCCCCCCCHHHHHHHHHHhCcCHH---------HHhCCCCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhcc
Confidence            4444433356777777777766653221         1111111222332   333467789999999999999876531


Q ss_pred             -----C----hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCC-CC----HHHHHHHHHHHHccCCHHHHHHHHHHhHHH
Q 047393          111 -----N----SLSWTFIISARVNHGHPSEALDLFKDKQWRYTS-MN----PTTFRSALKAYALMGLVGEAYRLFLSMEEV  176 (373)
Q Consensus       111 -----d----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  176 (373)
                           +    ...+..+...+...|++++|++.|++..+.... ++    ..+++.+...|...|++++|..+|+++.+.
T Consensus       105 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~  184 (293)
T 3u3w_A          105 EEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFEQILKQ  184 (293)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence                 2    123445667777888999999999999874222 23    336899999999999999999999998642


Q ss_pred             c----CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCC------CCC-HHHHHHHHHHHHHcC-CHHHHHHHHHHHh
Q 047393          177 Y----HIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPG------KLC-PLIWRTLLLSSRVHG-DMKLAKYALDKLL  243 (373)
Q Consensus       177 ~----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~p~-~~~~~~li~~~~~~g-~~~~A~~~~~~m~  243 (373)
                      .    +..+ ...++..+...|.+.|++++|.+.+++++..      .+. ..+|..+..++.+.| +.++|...+++..
T Consensus       185 ~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          185 LEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            2    1122 2347888999999999999999999887641      122 578999999999999 5799999999887


Q ss_pred             c
Q 047393          244 E  244 (373)
Q Consensus       244 ~  244 (373)
                      .
T Consensus       265 ~  265 (293)
T 3u3w_A          265 F  265 (293)
T ss_dssp             H
T ss_pred             H
Confidence            6

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.66  E-value=3.9e-07  Score=69.87  Aligned_cols=99  Identities=14%  Similarity=0.031  Sum_probs=65.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHH
Q 047393          149 TFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSR  227 (373)
Q Consensus       149 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~  227 (373)
                      .+...-..|.+.|++++|...|++..+..  +.+...|..+..+|.+.|++++|.+.|+++++..| ++..|..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRD--PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            44455556666777777777777665441  33556666677777777777777777777666555 4566777777777


Q ss_pred             HcCCHHHHHHHHHHHhccCCCC
Q 047393          228 VHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       228 ~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ..|++++|.+.|++.++++|++
T Consensus        93 ~~~~~~~A~~~~~~al~l~P~~  114 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQVDPSN  114 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HCCCHHHHHHHHHHHHHHCcCC
Confidence            7777777777777777777655

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.63  E-value=6e-07  Score=71.21  Aligned_cols=100  Identities=8%  Similarity=-0.152  Sum_probs=83.0

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHH
Q 047393          147 PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLS  225 (373)
Q Consensus       147 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~  225 (373)
                      ...+..+-..+.+.|++++|...|+......  +.+...|..+..+|.+.|++++|.+.|++++...| ++..|..+..+
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~--P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~  113 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD--FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQC  113 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHH
Confidence            3466777778888999999999999887652  33678888888999999999999999998777777 56888888999


Q ss_pred             HHHcCCHHHHHHHHHHHhccCCC
Q 047393          226 SRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       226 ~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      |...|++++|...|++..++.|+
T Consensus       114 ~~~lg~~~eA~~~~~~al~l~~~  136 (151)
T 3gyz_A          114 QLRLKAPLKAKECFELVIQHSND  136 (151)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCC
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC
Confidence            99999999999999999887764

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.62  E-value=8.1e-06  Score=68.46  Aligned_cols=125  Identities=9%  Similarity=0.007  Sum_probs=60.5

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCC----chHHHHHHHHHHHHcCCCCchhHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPI----LLNVGTQAQAYMTKRGLISHPAVGN   85 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~----~~~~a~~~~~~m~~~g~~~~~~~~~   85 (373)
                      +..++..+-..|...+++++|++.|++..+.|   +...+..|-..|.. +    +.++|.++|+...+.|   +...+.
T Consensus        17 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~   89 (212)
T 3rjv_A           17 DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEI   89 (212)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            34444555555555555555555555555433   33344444444444 3    4555555555554433   233444


Q ss_pred             HHHHHhHh----cCCHHHHHHHHccCCCC-C----hhHHHHHHHHHHh----CCChHHHHHHHHHHHHc
Q 047393           86 CLININSR----CGKIDDADLAFKSTPEK-N----SLSWTFIISARVN----HGHPSEALDLFKDKQWR  141 (373)
Q Consensus        86 ~li~~~~~----~g~~~~A~~~~~~m~~~-d----~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~  141 (373)
                      .|...|..    .+++++|.+.|++..+. +    +.++..|...|..    .+++++|...|++..+.
T Consensus        90 ~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~  158 (212)
T 3rjv_A           90 VLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL  158 (212)
T ss_dssp             HHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc
Confidence            44444444    44555555555544432 1    3444455555544    44555555555554443

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.62  E-value=1.4e-06  Score=69.32  Aligned_cols=130  Identities=11%  Similarity=-0.075  Sum_probs=101.2

Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHH
Q 047393          112 SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE  191 (373)
Q Consensus       112 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  191 (373)
                      ...|..+...+...|++++|...|++..+.. +.+..++..+...+...|++++|...+++..+..  +.+...+..+..
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~   89 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHHHHH
Confidence            4567777788888899999999998887763 3467788888888889999999999999886652  446778888888


Q ss_pred             HHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHH--HHHHHHcCCHHHHHHHHHHHhc
Q 047393          192 ALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTL--LLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       192 ~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l--i~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      .+...|++++|.+.|++++...| +...+..+  ...+...|++++|...++...+
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            99999999999999988776555 44555333  3447778999999998887765

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.61  E-value=1.6e-06  Score=65.02  Aligned_cols=112  Identities=16%  Similarity=0.155  Sum_probs=61.1

Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHH
Q 047393          112 SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE  191 (373)
Q Consensus       112 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  191 (373)
                      ..+|..+...+...|++++|.+.++++.+.. +.+..++..+...+.+.|++++|..+++++.+..  +.+..++..+..
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~   85 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD--PNNAEAWYNLGN   85 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--CccHHHHHHHHH
Confidence            3445555556666666666666666655542 2345555556666666666666666666654431  234455556666


Q ss_pred             HHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHH
Q 047393          192 ALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSS  226 (373)
Q Consensus       192 ~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~  226 (373)
                      .+...|++++|.+.|++++...| ++..+..+...+
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  121 (125)
T 1na0_A           86 AYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAK  121 (125)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            66666666666666665444334 333444443333

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.60  E-value=2.8e-05  Score=69.94  Aligned_cols=228  Identities=13%  Similarity=-0.001  Sum_probs=165.4

Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHH-HHHHHHHHHcCCC-chHHHHHHHHHHHHcCCCCchhHHHHHHHHh
Q 047393           14 WNLLLKACIKAKDYEMVHELLERIQLCCGFIDSY-SICDILNSCLNPI-LLNVGTQAQAYMTKRGLISHPAVGNCLININ   91 (373)
Q Consensus        14 ~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-~~~~ll~~~~~~~-~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~   91 (373)
                      ++.+-....+.+..++|+++++++...  .|+.. +|+.--.++...+ .++++..+++.++... +-+..+|+.---.+
T Consensus        57 ~~~~r~~~~~~e~se~AL~lt~~~L~~--nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL  133 (349)
T 3q7a_A           57 MDYFRAIAAKEEKSERALELTEIIVRM--NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLL  133 (349)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            344333344455667899999999984  46544 4777666666677 5999999999998876 56778888777777


Q ss_pred             Hhc-C-CHHHHHHHHccCCCC---ChhHHHHHHHHHHhCCChH--------HHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 047393           92 SRC-G-KIDDADLAFKSTPEK---NSLSWTFIISARVNHGHPS--------EALDLFKDKQWRYTSMNPTTFRSALKAYA  158 (373)
Q Consensus        92 ~~~-g-~~~~A~~~~~~m~~~---d~~~~~~li~~~~~~g~~~--------~A~~l~~~m~~~g~~p~~~t~~~ll~~~~  158 (373)
                      .+. + ++++++++++.+.+.   |..+|+--.-.+.+.|.++        ++++.++++.+.. +-|...|+..-..+.
T Consensus       134 ~~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~  212 (349)
T 3q7a_A          134 DRISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRV  212 (349)
T ss_dssp             HHHCCSCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHT
T ss_pred             HHhcCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            666 6 889999999988864   5566665555555555555        8999999999875 448888988888888


Q ss_pred             ccCC-------HHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCH--------------------HHHHHHHHhhCC
Q 047393          159 LMGL-------VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMF--------------------EEVLEFIKGIVP  211 (373)
Q Consensus       159 ~~g~-------~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~--------------------~~A~~~~~~~~~  211 (373)
                      +.+.       ++++.+.+++.....  +-|...|+-+-..+.+.|+.                    .+..++..++..
T Consensus       213 ~l~~~~~~~~~~~eELe~~~~aI~~~--P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  290 (349)
T 3q7a_A          213 SRPGAETSSRSLQDELIYILKSIHLI--PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPS  290 (349)
T ss_dssp             TSTTCCCCHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC
T ss_pred             hccccccchHHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHh
Confidence            8776       788999998887652  44778888777777776654                    345555555333


Q ss_pred             C-------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHh-ccCC
Q 047393          212 G-------KLCPLIWRTLLLSSRVHGDMKLAKYALDKLL-ELDP  247 (373)
Q Consensus       212 ~-------~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~~P  247 (373)
                      .       .+.+..+..|...|...|+.++|.++++.+. +.+|
T Consensus       291 ~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dp  334 (349)
T 3q7a_A          291 DPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQ  334 (349)
T ss_dssp             -CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCG
T ss_pred             cccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhCh
Confidence            2       2577899999999999999999999999997 4665

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=98.60  E-value=1.4e-06  Score=82.27  Aligned_cols=139  Identities=13%  Similarity=0.106  Sum_probs=65.3

Q ss_pred             HHHHHHHHccCCCCChhHHHHHHHHHHhCC---ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcc----CCHHHHHHH
Q 047393           97 IDDADLAFKSTPEKNSLSWTFIISARVNHG---HPSEALDLFKDKQWRYTSMNPTTFRSALKAYALM----GLVGEAYRL  169 (373)
Q Consensus        97 ~~~A~~~~~~m~~~d~~~~~~li~~~~~~g---~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~----g~~~~a~~~  169 (373)
                      .++|..+++.....+..++..|...|...|   +.++|++.|++..+.| .++...+..+-..|...    ++.++|..+
T Consensus       161 ~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~  239 (452)
T 3e4b_A          161 LDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQAL  239 (452)
T ss_dssp             HHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHH
Confidence            333444444444444445555555565566   5566666666655554 33334333344444332    455555555


Q ss_pred             HHHhHHHcCCCCCHhHHHHHHHH-H--HhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcC-----CHHHHHHHHHH
Q 047393          170 FLSMEEVYHIEPSEEHYSIMVEA-L--GRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHG-----DMKLAKYALDK  241 (373)
Q Consensus       170 ~~~m~~~~g~~p~~~~~~~li~~-~--~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g-----~~~~A~~~~~~  241 (373)
                      |+...     +-+...+..|-.. |  ...|+.++|.+.|+++.. .-++..+..|...|. .|     +.++|...|++
T Consensus       240 ~~~aa-----~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~-~g~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~  312 (452)
T 3e4b_A          240 LEKIA-----PGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRA-ADQPRAELLLGKLYY-EGKWVPADAKAAEAHFEK  312 (452)
T ss_dssp             HHHHG-----GGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHH-TTCHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHT
T ss_pred             HHHHc-----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH-CCCHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHH
Confidence            55542     1223333333333 2  234555555555555333 224444444444444 23     55555555554


Q ss_pred             Hh
Q 047393          242 LL  243 (373)
Q Consensus       242 m~  243 (373)
                      ..
T Consensus       313 Aa  314 (452)
T 3e4b_A          313 AV  314 (452)
T ss_dssp             TT
T ss_pred             Hh
Confidence            44

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.60  E-value=4.7e-07  Score=73.41  Aligned_cols=124  Identities=11%  Similarity=0.085  Sum_probs=95.4

Q ss_pred             HhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHH-HHhcCCH--
Q 047393          123 VNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEA-LGRAGMF--  199 (373)
Q Consensus       123 ~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~-~~~~g~~--  199 (373)
                      ...|++++|...+++..+.. +.+...+..+...|...|++++|...|++..+..  +.+...+..+... +...|+.  
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcch
Confidence            34677888888888877663 4467788888888889999999999998886652  3466677777777 7788888  


Q ss_pred             HHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          200 EEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       200 ~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ++|...|++++...| +...|..+...+...|++++|...++++.+..|++
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~  148 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPR  148 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTT
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCC
Confidence            999999988776666 46788888889999999999999999999887754

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.59  E-value=2.2e-07  Score=73.47  Aligned_cols=101  Identities=11%  Similarity=-0.054  Sum_probs=71.2

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHH
Q 047393          147 PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLS  225 (373)
Q Consensus       147 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~  225 (373)
                      ...+..+...+.+.|++++|...|+......  +.+...|..+..+|.+.|++++|.+.|++++...| ++..|..+..+
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~   98 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCVLD--HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHHcC--cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHH
Confidence            3455556666777777777777777775541  33566677777777777888888888777666555 45677777777


Q ss_pred             HHHcCCHHHHHHHHHHHhccCCCC
Q 047393          226 SRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       226 ~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +...|++++|...|+...++.|++
T Consensus        99 ~~~~g~~~~A~~~~~~al~~~p~~  122 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQELIANX  122 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHTTC
T ss_pred             HHHcCCHHHHHHHHHHHHHHCcCC
Confidence            888888888888888877766543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.58  E-value=3.3e-06  Score=69.55  Aligned_cols=96  Identities=6%  Similarity=-0.107  Sum_probs=49.8

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHc----CCCC--CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC----
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWR----YTSM--NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS----  182 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~p--~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~----  182 (373)
                      .++..+...+...|++++|.+.+++..+.    +-.|  ....+..+...+...|++++|...+++......-..+    
T Consensus        67 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  146 (203)
T 3gw4_A           67 RALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAI  146 (203)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHH
Confidence            34444555555555555555555554332    1011  1234555556666667777776666665432111111    


Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHHh
Q 047393          183 EEHYSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       183 ~~~~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                      ..++..+...+...|++++|.+.+++
T Consensus       147 ~~~~~~la~~~~~~g~~~~A~~~~~~  172 (203)
T 3gw4_A          147 ACAFRGLGDLAQQEKNLLEAQQHWLR  172 (203)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            22345566666667777777766666

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.57  E-value=1e-06  Score=69.87  Aligned_cols=104  Identities=11%  Similarity=-0.129  Sum_probs=75.7

Q ss_pred             ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHH
Q 047393          111 NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMV  190 (373)
Q Consensus       111 d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li  190 (373)
                      +...+..+...+.+.|++++|...|++..+.. +-+...|..+-.+|...|++++|...|++..+..  +-+...|..+.
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~--P~~~~~~~~lg  111 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG--KNDYTPVFHTG  111 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--SSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC--CCCcHHHHHHH
Confidence            45566677777778888888888888877763 3456777777778888888888888888776542  23566777778


Q ss_pred             HHHHhcCCHHHHHHHHHhhCCCCCCHH
Q 047393          191 EALGRAGMFEEVLEFIKGIVPGKLCPL  217 (373)
Q Consensus       191 ~~~~~~g~~~~A~~~~~~~~~~~p~~~  217 (373)
                      .+|.+.|++++|.+.|++++...|+..
T Consensus       112 ~~~~~lg~~~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A          112 QCQLRLKAPLKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCCCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCHH
Confidence            888888888888888887666666654

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.56  E-value=1.8e-06  Score=66.09  Aligned_cols=106  Identities=7%  Similarity=-0.085  Sum_probs=69.8

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHH
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEA  192 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~  192 (373)
                      ..|......|.+.|++++|++.|++..+.. +.+..+|..+..++.+.|++++|...+++..+..  +.+...|..+..+
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~--p~~~~a~~~lg~~   90 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD--SKFIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh--hhhhHHHHHHHHH
Confidence            445566666777777777777777766653 3456677777777777777777777777765531  3345667777777


Q ss_pred             HHhcCCHHHHHHHHHhhCCCCCC-HHHHHH
Q 047393          193 LGRAGMFEEVLEFIKGIVPGKLC-PLIWRT  221 (373)
Q Consensus       193 ~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~  221 (373)
                      |...|++++|.+.|++++++.|+ ...+..
T Consensus        91 ~~~~~~~~~A~~~~~~al~l~P~~~~a~~~  120 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQVDPSNEEAREG  120 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCcCCHHHHHH
Confidence            77777777777777776666663 334433

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.55  E-value=1.4e-06  Score=71.83  Aligned_cols=153  Identities=12%  Similarity=-0.027  Sum_probs=110.9

Q ss_pred             HhcCCHHHHHH---HHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHccCCH
Q 047393           92 SRCGKIDDADL---AFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWR----YTSM-NPTTFRSALKAYALMGLV  163 (373)
Q Consensus        92 ~~~g~~~~A~~---~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~p-~~~t~~~ll~~~~~~g~~  163 (373)
                      ...|++++|.+   .+..-......++..+...+...|++++|...+++..+.    +..| ...++..+-..+...|++
T Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ----CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             cccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            34677777777   554433335667778888888888888888888877552    2222 345777888889999999


Q ss_pred             HHHHHHHHHhHHHcCCCC-----CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCC---CCCH----HHHHHHHHHHHHcCC
Q 047393          164 GEAYRLFLSMEEVYHIEP-----SEEHYSIMVEALGRAGMFEEVLEFIKGIVPG---KLCP----LIWRTLLLSSRVHGD  231 (373)
Q Consensus       164 ~~a~~~~~~m~~~~g~~p-----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~p~~----~~~~~li~~~~~~g~  231 (373)
                      ++|...+++..+...-.+     ....+..+...+...|++++|...+++++..   .++.    .++..+...+...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            999999998765421122     2356778888999999999999999886641   1222    456788889999999


Q ss_pred             HHHHHHHHHHHhc
Q 047393          232 MKLAKYALDKLLE  244 (373)
Q Consensus       232 ~~~A~~~~~~m~~  244 (373)
                      +++|...+++..+
T Consensus       163 ~~~A~~~~~~al~  175 (203)
T 3gw4_A          163 LLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999999887

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.54  E-value=4.8e-06  Score=73.48  Aligned_cols=158  Identities=11%  Similarity=-0.072  Sum_probs=74.2

Q ss_pred             HHHHHcCCCchHHHHHHHHHHHHcC-CCCc----hhHHHHHHHHhHhcCCHHHHHHHHccCCC-----CC----hhHHHH
Q 047393           52 ILNSCLNPILLNVGTQAQAYMTKRG-LISH----PAVGNCLININSRCGKIDDADLAFKSTPE-----KN----SLSWTF  117 (373)
Q Consensus        52 ll~~~~~~~~~~~a~~~~~~m~~~g-~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~d----~~~~~~  117 (373)
                      .+..+...|++++|..+++...+.. ..|+    ...+..+...|...|++++|...|++..+     ++    ..+|+.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            3334444455555555555444321 1111    11222344444444555555555543321     11    124555


Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHc-----CCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHhHHH---cCCCCC-HhHHH
Q 047393          118 IISARVNHGHPSEALDLFKDKQWR-----YTSMN-PTTFRSALKAYALMGLVGEAYRLFLSMEEV---YHIEPS-EEHYS  187 (373)
Q Consensus       118 li~~~~~~g~~~~A~~l~~~m~~~-----g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~---~g~~p~-~~~~~  187 (373)
                      +...|...|++++|...|++..+.     +..|. ..+|..+...|.+.|++++|...+++..+.   .+..+. ..+|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            555555566666665555555421     11111 125555666666666666666666654321   111222 34566


Q ss_pred             HHHHHHHhcCC-HHHHHHHHHhh
Q 047393          188 IMVEALGRAGM-FEEVLEFIKGI  209 (373)
Q Consensus       188 ~li~~~~~~g~-~~~A~~~~~~~  209 (373)
                      .+..+|.+.|+ .++|.+.++++
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~A  263 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKA  263 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHH
Confidence            66666666663 46666655554

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.52  E-value=2e-06  Score=65.01  Aligned_cols=117  Identities=12%  Similarity=0.010  Sum_probs=75.1

Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHH
Q 047393          112 SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE  191 (373)
Q Consensus       112 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  191 (373)
                      ...|..+...+...|++++|.+.|++..+.. +.+...+..+...+...|++++|...++...+..  +.+...+..+..
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~   88 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID--PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC--ccCHHHHHHHHH
Confidence            4455666666667777777777777766552 3355666666677777777777777777765431  334566666677


Q ss_pred             HHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCC
Q 047393          192 ALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGD  231 (373)
Q Consensus       192 ~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~  231 (373)
                      .+.+.|++++|.+.|++++...| +...+..+..++...|+
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTT
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhc
Confidence            77777777777777776555444 45566666666665554

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.50  E-value=2.1e-06  Score=67.00  Aligned_cols=98  Identities=11%  Similarity=-0.004  Sum_probs=62.9

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHH
Q 047393          149 TFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSR  227 (373)
Q Consensus       149 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~  227 (373)
                      .+..+...+.+.|++++|...|+......  +.+...|..+..+|.+.|++++|...|++++...| ++..|..+..++.
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLD--HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Confidence            34444555666677777777776665431  23556666666677777777777777776655445 4566666777777


Q ss_pred             HcCCHHHHHHHHHHHhccCCC
Q 047393          228 VHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       228 ~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      ..|++++|...|+...++.|+
T Consensus        98 ~~g~~~~A~~~~~~al~~~p~  118 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARALAAA  118 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHT
T ss_pred             HcCCHHHHHHHHHHHHHhCCC
Confidence            777777777777777765553

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.49  E-value=2.6e-06  Score=63.77  Aligned_cols=95  Identities=14%  Similarity=0.036  Sum_probs=55.8

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLINI   90 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~   90 (373)
                      ..+|..+...+...|++++|.+.|+++.+.. +.+..++..+...+.+.|++++|...++.+.+.. +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            4566667777777777777777777766542 2244555666666666666666666666665543 2344445555555


Q ss_pred             hHhcCCHHHHHHHHccC
Q 047393           91 NSRCGKIDDADLAFKST  107 (373)
Q Consensus        91 ~~~~g~~~~A~~~~~~m  107 (373)
                      |.+.|++++|...|+++
T Consensus        87 ~~~~~~~~~A~~~~~~~  103 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKA  103 (125)
T ss_dssp             HHHTTCHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHH
Confidence            55555555555554443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.49  E-value=2.6e-06  Score=64.83  Aligned_cols=117  Identities=9%  Similarity=0.002  Sum_probs=71.0

Q ss_pred             ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHH
Q 047393          111 NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMV  190 (373)
Q Consensus       111 d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li  190 (373)
                      +...|..+...+.+.|++++|...|++..+.. +.+...+..+...+...|++++|...+++..+..  +.+...+..+.
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la   91 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE--PTFIKGYTRKA   91 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCchHHHHHHH
Confidence            34556666666667777777777776666542 2355666666666667777777777777665431  23456666666


Q ss_pred             HHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcC
Q 047393          191 EALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHG  230 (373)
Q Consensus       191 ~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g  230 (373)
                      ..+.+.|++++|.+.|++++...| +...+..+...+...|
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhc
Confidence            667777777777777766555444 2345555555554443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.49  E-value=5.6e-06  Score=73.05  Aligned_cols=166  Identities=11%  Similarity=-0.087  Sum_probs=117.6

Q ss_pred             HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCc-----hhHHHHHHHHhHhcCCHHHHHHHHccCCC-----CC----
Q 047393           46 SYSICDILNSCLNPILLNVGTQAQAYMTKRGLISH-----PAVGNCLININSRCGKIDDADLAFKSTPE-----KN----  111 (373)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~d----  111 (373)
                      ...+...+..+...|++++|.+.+....+..-..+     ...+..+...|...|++++|...|++..+     .+    
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            34566667777888888888888887766532211     12344566677888899999888765431     11    


Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHc-CCCCC-----HHHHHHHHHHHHccCCHHHHHHHHHHhHHHc---CCCC-
Q 047393          112 SLSWTFIISARVNHGHPSEALDLFKDKQWR-YTSMN-----PTTFRSALKAYALMGLVGEAYRLFLSMEEVY---HIEP-  181 (373)
Q Consensus       112 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-g~~p~-----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~---g~~p-  181 (373)
                      ..+|+.+...|...|++++|...|++..+. ...|+     ..++..+...|.+.|++++|...+++..+..   +... 
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~  234 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHH
Confidence            447888889999999999999999887621 01222     2588888889999999999999998875431   1111 


Q ss_pred             CHhHHHHHHHHHHhcCCHHHH-HHHHHhhCC
Q 047393          182 SEEHYSIMVEALGRAGMFEEV-LEFIKGIVP  211 (373)
Q Consensus       182 ~~~~~~~li~~~~~~g~~~~A-~~~~~~~~~  211 (373)
                      -..+|..+...|.+.|+.++| ...+++++.
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            156788888999999999999 776776543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.48  E-value=2.9e-06  Score=73.94  Aligned_cols=187  Identities=10%  Similarity=-0.056  Sum_probs=106.0

Q ss_pred             HcCCHhHHHHHHHHHHhcCCCCC-HHHHHHHH-------HHHcCCCchHHHHHHHHHHHHcCCCCch-------------
Q 047393           23 KAKDYEMVHELLERIQLCCGFID-SYSICDIL-------NSCLNPILLNVGTQAQAYMTKRGLISHP-------------   81 (373)
Q Consensus        23 ~~g~~~~A~~l~~~m~~~g~~p~-~~~~~~ll-------~~~~~~~~~~~a~~~~~~m~~~g~~~~~-------------   81 (373)
                      +.++...|.+.|.+..+.  .|+ ...|+.++       ..+.+.++..++...+..  ..++.|+.             
T Consensus        18 ~~~d~~~A~~~F~~a~~~--dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~--~l~l~p~~l~a~~~~~g~y~~   93 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNY--DESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSG--SVQISMSTLNARIAIGGLYGD   93 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHH--TTTCCGGGGCCEEECCTTTCC
T ss_pred             cCCCHHHHHHHHHHHHHh--ChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHH--HhcCChhhhhhhhccCCcccc
Confidence            578888888888888874  453 34555552       222222222233222222  22322221             


Q ss_pred             ---------hHHHHHHHHhHhcCCHHHHHHHHccCCC--CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC--HH
Q 047393           82 ---------AVGNCLININSRCGKIDDADLAFKSTPE--KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMN--PT  148 (373)
Q Consensus        82 ---------~~~~~li~~~~~~g~~~~A~~~~~~m~~--~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--~~  148 (373)
                               ..+-.+...+...|++++|.++|+.+..  |+......+...+.+.+++++|+..|+...... .|.  ..
T Consensus        94 ~~~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~  172 (282)
T 4f3v_A           94 ITYPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGA  172 (282)
T ss_dssp             CEEECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHH
T ss_pred             cccccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHH
Confidence                     1223355667777888888888877763  433355555566777777777777776443321 111  23


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC--HhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC
Q 047393          149 TFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS--EEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC  215 (373)
Q Consensus       149 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  215 (373)
                      .+..+-.++...|++++|+..|++.... ...|.  .........++.+.|+.++|...|+++....|+
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g-~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~  240 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDS-PAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE  240 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTS-TTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcC-CCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc
Confidence            5566666777777777777777776421 22143  234445556666777777777777775555555

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.48  E-value=2.4e-06  Score=77.26  Aligned_cols=147  Identities=12%  Similarity=-0.045  Sum_probs=117.3

Q ss_pred             CHHHHHHHHccCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC--------------HHHHHHHHHHHH
Q 047393           96 KIDDADLAFKSTPE--K-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMN--------------PTTFRSALKAYA  158 (373)
Q Consensus        96 ~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--------------~~t~~~ll~~~~  158 (373)
                      ++++|.+.|+...+  | +...|..+...|.+.|++++|...|++..+......              ..+|..+..+|.
T Consensus       128 ~~~~A~~~~~~a~~~~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~  207 (336)
T 1p5q_A          128 SFEKAKESWEMNSEEKLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHL  207 (336)
T ss_dssp             EEECCCCGGGCCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ecccccchhcCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445544444332  2 466788888999999999999999999887642221              488999999999


Q ss_pred             ccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHH-H
Q 047393          159 LMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLA-K  236 (373)
Q Consensus       159 ~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A-~  236 (373)
                      +.|++++|...+++..+..  +.+...+..+..+|...|++++|...|++++...| +...+..+...+...|+.++| .
T Consensus       208 ~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~  285 (336)
T 1p5q_A          208 KLQAFSAAIESCNKALELD--SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREK  285 (336)
T ss_dssp             HTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999997652  44778899999999999999999999999887777 577888999999999999988 4


Q ss_pred             HHHHHHhc
Q 047393          237 YALDKLLE  244 (373)
Q Consensus       237 ~~~~~m~~  244 (373)
                      ..++.|..
T Consensus       286 ~~~~~~~~  293 (336)
T 1p5q_A          286 KLYANMFE  293 (336)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            57777764

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.46  E-value=3.8e-06  Score=66.69  Aligned_cols=123  Identities=10%  Similarity=-0.047  Sum_probs=69.0

Q ss_pred             HHHHHHHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 047393           83 VGNCLININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYAL  159 (373)
Q Consensus        83 ~~~~li~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~  159 (373)
                      .+..+...+.+.|++++|...|++..   ..+..+|..+...+...|++++|.+.+++..+.. +.+..++..+...+..
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~   93 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHH
Confidence            34444555555566666665555433   2245556666666666666666666666665542 3345566666666666


Q ss_pred             cCCHHHHHHHHHHhHHHcCCCCCHhHH--HHHHHHHHhcCCHHHHHHHHHh
Q 047393          160 MGLVGEAYRLFLSMEEVYHIEPSEEHY--SIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       160 ~g~~~~a~~~~~~m~~~~g~~p~~~~~--~~li~~~~~~g~~~~A~~~~~~  208 (373)
                      .|++++|...+++..+..  +.+...+  ......+.+.|++++|.+.+.+
T Consensus        94 ~~~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~  142 (166)
T 1a17_A           94 LGKFRAALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIAGDEH  142 (166)
T ss_dssp             TTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHHHcccc
Confidence            677777777776665432  1233333  2233335556666666666654

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.46  E-value=9.3e-07  Score=77.81  Aligned_cols=189  Identities=13%  Similarity=-0.006  Sum_probs=110.9

Q ss_pred             HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHH
Q 047393           46 SYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE---KNSLSWTFIISAR  122 (373)
Q Consensus        46 ~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~  122 (373)
                      ...+..+...+.+.|++++|...|+..++.. +.+...|..+..+|.+.|++++|...+++..+   .+...|..+..+|
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQ   82 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3445555555666666666666666665543 23566667777777777777777777766543   2566777777888


Q ss_pred             HhCCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHH
Q 047393          123 VNHGHPSEALDLFKDKQWRYTSMNP-TTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEE  201 (373)
Q Consensus       123 ~~~g~~~~A~~l~~~m~~~g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~  201 (373)
                      ...|++++|...|++..+..  |+. ..+...+....+   ...+.. +...... ..+.+......+.. + ..|+.++
T Consensus        83 ~~~g~~~~A~~~~~~al~l~--p~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~-~~~~~~~i~~~l~~-l-~~~~~~~  153 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSLA--KEQRLNFGDDIPSALR---IAKKKR-WNSIEER-RIHQESELHSYLTR-L-IAAERER  153 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH--HHTTCCCCSHHHHHHH---HHHHHH-HHHHHHT-CCCCCCHHHHHHHH-H-HHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHH---HHHHHH-HHHHHHH-HHhhhHHHHHHHHH-H-HHHHHHH
Confidence            88888888888887776542  110 011111111111   111111 1222122 33445544444433 2 3689999


Q ss_pred             HHHHHHhhCCCCCCHH-HHHHHHHHHHHc-CCHHHHHHHHHHHhc
Q 047393          202 VLEFIKGIVPGKLCPL-IWRTLLLSSRVH-GDMKLAKYALDKLLE  244 (373)
Q Consensus       202 A~~~~~~~~~~~p~~~-~~~~li~~~~~~-g~~~~A~~~~~~m~~  244 (373)
                      |.+.++++++..|+.. ....+-..+.+. +.+++|.++|+++.+
T Consensus       154 A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          154 ELEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            9999998788778654 334444444444 678899999998876

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.46  E-value=6.1e-07  Score=78.26  Aligned_cols=185  Identities=10%  Similarity=-0.075  Sum_probs=135.7

Q ss_pred             CCCchHHHHHHHHHHHHcCCCCchhHHHHH-------HHHhHhcCCHHHHHHHHccCCC--C-------C----------
Q 047393           58 NPILLNVGTQAQAYMTKRGLISHPAVGNCL-------ININSRCGKIDDADLAFKSTPE--K-------N----------  111 (373)
Q Consensus        58 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~--~-------d----------  111 (373)
                      +.++...|.+.|.+..+.. +-....|+.+       ...+.+.++..+++..+..-..  |       +          
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~   96 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITY   96 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEE
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCccccccc
Confidence            5799999999999998875 4457788877       4555555555555544443332  1       1          


Q ss_pred             -----hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC--Hh
Q 047393          112 -----SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS--EE  184 (373)
Q Consensus       112 -----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~--~~  184 (373)
                           ...+-.+...+...|++++|.++|+.+...+  |+......+-..+.+.+++++|+..|+...+. . .|.  ..
T Consensus        97 ~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~-~-d~~~~~~  172 (282)
T 4f3v_A           97 PVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW-P-DKFLAGA  172 (282)
T ss_dssp             ECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC-S-CHHHHHH
T ss_pred             ccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc-C-CcccHHH
Confidence                 1123446677889999999999999987754  65545556666888999999999999866221 1 121  23


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhhCCCC--CC--HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCC
Q 047393          185 HYSIMVEALGRAGMFEEVLEFIKGIVPGK--LC--PLIWRTLLLSSRVHGDMKLAKYALDKLLELDP  247 (373)
Q Consensus       185 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~--p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P  247 (373)
                      .+..+-.++.+.|++++|+..|+++..-.  |.  +..+.....++.+.|+.++|..+|+++...+|
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P  239 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHP  239 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            67778899999999999999999965422  43  34677778889999999999999999999876

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.43  E-value=3.3e-05  Score=69.11  Aligned_cols=232  Identities=13%  Similarity=-0.037  Sum_probs=161.1

Q ss_pred             hhHHHHHHHH---HHHcCCHh-HHHHHHHHHHhcCCCCCHHH-HHHHHHHHcCCCc----------hHHHHHHHHHHHHc
Q 047393           11 EIPWNLLLKA---CIKAKDYE-MVHELLERIQLCCGFIDSYS-ICDILNSCLNPIL----------LNVGTQAQAYMTKR   75 (373)
Q Consensus        11 ~~~~n~li~~---~~~~g~~~-~A~~l~~~m~~~g~~p~~~~-~~~ll~~~~~~~~----------~~~a~~~~~~m~~~   75 (373)
                      +..|..+.+.   ..+.|.+. +|+++++++..  +.|+..| |+.--..+...+.          ++++..+++.+...
T Consensus        26 i~~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~--~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~  103 (331)
T 3dss_A           26 LKLYQSATQAVFQKRQAGELDESVLELTSQILG--ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV  103 (331)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH--HCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHh
Confidence            3445555443   34567665 79999999987  4566543 5543222222222          67888999998876


Q ss_pred             CCCCchhHHHHHHHHhHhcC--CHHHHHHHHccCCC---CChhHHHHHHHHHHhCCC-hHHHHHHHHHHHHcCCCCCHHH
Q 047393           76 GLISHPAVGNCLININSRCG--KIDDADLAFKSTPE---KNSLSWTFIISARVNHGH-PSEALDLFKDKQWRYTSMNPTT  149 (373)
Q Consensus        76 g~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~-~~~A~~l~~~m~~~g~~p~~~t  149 (373)
                      . +-+..+|+.-.-.+.+.|  .+++++.+++.+.+   .|..+|+--.-.+...|. ++++++.++++.+.. +-|...
T Consensus       104 ~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SA  181 (331)
T 3dss_A          104 N-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSS  181 (331)
T ss_dssp             C-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHH
T ss_pred             C-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHH
Confidence            5 567888887777777777  48999999998874   477788777777778888 589999999999875 457777


Q ss_pred             HHHHHHHHHcc--------------CCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhc-----------CCHHHHHH
Q 047393          150 FRSALKAYALM--------------GLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRA-----------GMFEEVLE  204 (373)
Q Consensus       150 ~~~ll~~~~~~--------------g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~-----------g~~~~A~~  204 (373)
                      |+.....+.+.              +.++++.+.+.......  +-|...|+-+--.+.+.           +.++++++
T Consensus       182 W~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~--P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~  259 (331)
T 3dss_A          182 WHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD--PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELE  259 (331)
T ss_dssp             HHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHH
Confidence            77666555544              45788889888887652  34667776555555554           45788999


Q ss_pred             HHHhhCCCCCCHHHHHHHHHH-----HHHcCCHHHHHHHHHHHhccCCCC
Q 047393          205 FIKGIVPGKLCPLIWRTLLLS-----SRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       205 ~~~~~~~~~p~~~~~~~li~~-----~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .++++++..||. .|..+-.+     ....|..+++...++++.+++|..
T Consensus       260 ~~~elle~~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r  308 (331)
T 3dss_A          260 SCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMR  308 (331)
T ss_dssp             HHHHHHHHCTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGG
T ss_pred             HHHHHHhhCccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcch
Confidence            998877778865 34432222     224677888999999999988633

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.40  E-value=5e-06  Score=61.55  Aligned_cols=99  Identities=17%  Similarity=0.063  Sum_probs=53.4

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHH
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEA  192 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~  192 (373)
                      ..|..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...+++..+..  +.+...+..+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~   81 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK--PDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC--cccHHHHHHHHHH
Confidence            345555555666666666666666655542 2244555555555555666666666665554431  2234455555555


Q ss_pred             HHhcCCHHHHHHHHHhhCCCCC
Q 047393          193 LGRAGMFEEVLEFIKGIVPGKL  214 (373)
Q Consensus       193 ~~~~g~~~~A~~~~~~~~~~~p  214 (373)
                      +...|++++|.+.+++++...|
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~~~  103 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKHEA  103 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHHhhHHHHHHHHHHHHHcCC
Confidence            5555555555555555444444

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.38  E-value=2.7e-06  Score=68.05  Aligned_cols=101  Identities=19%  Similarity=0.064  Sum_probs=72.7

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHH
Q 047393          147 PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLS  225 (373)
Q Consensus       147 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~  225 (373)
                      ...+..+...+.+.|++++|...|++..+..  +-+...|..+..+|.+.|++++|...|++++...| +...|..+..+
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~   88 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIA--PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            4455666666777777777777777775542  23566777777777778888888888877666555 46777778888


Q ss_pred             HHHcCCHHHHHHHHHHHhccCCCC
Q 047393          226 SRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       226 ~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +...|++++|...|++.++++|++
T Consensus        89 ~~~~g~~~~A~~~~~~al~~~p~~  112 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEAEGNG  112 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHSSS
T ss_pred             HHHccCHHHHHHHHHHHHHhCCCc
Confidence            888888888888888888776654

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.37  E-value=7.1e-06  Score=62.30  Aligned_cols=115  Identities=5%  Similarity=-0.102  Sum_probs=82.6

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      .+...|..+...+.+.|++++|.+.|++..+.. +.+...+..+..++...|++++|.+.++...+.. +.+...+..+.
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la   91 (133)
T 2lni_A           14 DLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKA   91 (133)
T ss_dssp             CHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHH
Confidence            456778888888999999999999999887642 2256678888888888889999998888887764 34566777777


Q ss_pred             HHhHhcCCHHHHHHHHccCCC--C-ChhHHHHHHHHHHhC
Q 047393           89 NINSRCGKIDDADLAFKSTPE--K-NSLSWTFIISARVNH  125 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~  125 (373)
                      .+|.+.|++++|.+.|++..+  | +...+..+...+.+.
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  131 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQ  131 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHh
Confidence            777777777777777766542  2 334444444444433

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.37  E-value=2.1e-05  Score=58.00  Aligned_cols=100  Identities=12%  Similarity=0.041  Sum_probs=62.5

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHH
Q 047393          148 TTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSS  226 (373)
Q Consensus       148 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~  226 (373)
                      ..+..+...+...|++++|...++......  +.+...+..+...+.+.|++++|...+++++...| +...|..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            445555566666677777777666665431  23555666666666666777777776666555444 355666666666


Q ss_pred             HHcCCHHHHHHHHHHHhccCCCC
Q 047393          227 RVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       227 ~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ...|++++|...+++..+..|++
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~~~~  105 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHEANN  105 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTC
T ss_pred             HHHhhHHHHHHHHHHHHHcCCCC
Confidence            66677777777776666666655

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.37  E-value=2.7e-06  Score=62.51  Aligned_cols=98  Identities=13%  Similarity=0.005  Sum_probs=54.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC---HHHHHHHHHH
Q 047393          149 TFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC---PLIWRTLLLS  225 (373)
Q Consensus       149 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~---~~~~~~li~~  225 (373)
                      .+..+...+...|++++|...+++..+..  +.+...+..+...+...|++++|.+.|++++...|+   ...|..+...
T Consensus         8 ~~~~~~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            8 EYYLEGVLQYDAGNYTESIDLFEKAIQLD--PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             GGGGHHHHHHSSCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            33444444555555555555555554331  224445555555666666666666666655444443   5566666666


Q ss_pred             HHHc-CCHHHHHHHHHHHhccCCC
Q 047393          226 SRVH-GDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       226 ~~~~-g~~~~A~~~~~~m~~~~P~  248 (373)
                      +... |++++|.+.+++.....|+
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p~  109 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHHH  109 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhcccC
Confidence            6666 6666666666666665543

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.37  E-value=1.1e-06  Score=72.69  Aligned_cols=156  Identities=9%  Similarity=-0.055  Sum_probs=101.0

Q ss_pred             HHHHhHhcCCHHHHHHHHccCCCC---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCC-CC---C-----------HH
Q 047393           87 LININSRCGKIDDADLAFKSTPEK---NSLSWTFIISARVNHGHPSEALDLFKDKQWRYT-SM---N-----------PT  148 (373)
Q Consensus        87 li~~~~~~g~~~~A~~~~~~m~~~---d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-~p---~-----------~~  148 (373)
                      .+......|.+++|.+.++.-.+.   ....+..+...+.+.|++++|.+.|++..+..- .|   .           ..
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~   89 (198)
T 2fbn_A           10 HSSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEIS   89 (198)
T ss_dssp             ------------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHH
Confidence            334444556666666666543321   455677778888889999999999998876421 11   1           26


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHH
Q 047393          149 TFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSR  227 (373)
Q Consensus       149 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~  227 (373)
                      .+..+..+|.+.|++++|...++...+..  +.+...+..+..+|...|++++|.+.|++++...| +...+..+...+.
T Consensus        90 ~~~~la~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  167 (198)
T 2fbn_A           90 CNLNLATCYNKNKDYPKAIDHASKVLKID--KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVN  167 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHH
Confidence            78888888889999999999999886652  44677888888999999999999999998777666 5677777777777


Q ss_pred             HcCCHHHHH-HHHHHHhc
Q 047393          228 VHGDMKLAK-YALDKLLE  244 (373)
Q Consensus       228 ~~g~~~~A~-~~~~~m~~  244 (373)
                      ..++.+++. ..+..+..
T Consensus       168 ~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          168 KLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             HHHHHHC-----------
T ss_pred             HHHHHHHHHHHHHHHHhc
Confidence            777776666 45555544

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.36  E-value=3.8e-06  Score=67.98  Aligned_cols=115  Identities=9%  Similarity=-0.015  Sum_probs=56.0

Q ss_pred             CCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHH-HHhCCCh--HHHH
Q 047393           59 PILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE---KNSLSWTFIISA-RVNHGHP--SEAL  132 (373)
Q Consensus        59 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~-~~~~g~~--~~A~  132 (373)
                      .|++++|...++...+.. +.+...+..+...|...|++++|...|++..+   .+...|..+... +...|++  ++|.
T Consensus        23 ~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~A~  101 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQTR  101 (177)
T ss_dssp             ----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHHHH
T ss_pred             ccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHHHH
Confidence            344445555555444432 23344555555555555555555555544331   234444445444 4455555  5565


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHH
Q 047393          133 DLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEE  175 (373)
Q Consensus       133 ~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  175 (373)
                      ..+++..+.. +.+...+..+...+...|++++|...|+...+
T Consensus       102 ~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A          102 AMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            5555555442 22344555555555555666666666655543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.35  E-value=8.7e-06  Score=61.39  Aligned_cols=116  Identities=11%  Similarity=-0.064  Sum_probs=77.8

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 047393           81 PAVGNCLININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAY  157 (373)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~  157 (373)
                      ...+..+...+...|++++|...|++..   ..+...|..+...+...|++++|.+.+++..+.. +.+...+..+...+
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHH
Confidence            4455566666666777777777666543   2355667777777777778888887777776653 33466777777778


Q ss_pred             HccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCH
Q 047393          158 ALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMF  199 (373)
Q Consensus       158 ~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~  199 (373)
                      ...|++++|...+++..+..  +.+...+..+..++.+.|+.
T Consensus        91 ~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALELD--PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHhCCHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHHhcC
Confidence            88888888888888775541  23556666666666666653

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.35  E-value=2.9e-06  Score=64.47  Aligned_cols=95  Identities=16%  Similarity=0.026  Sum_probs=48.7

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHH
Q 047393          150 FRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRV  228 (373)
Q Consensus       150 ~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~  228 (373)
                      +...-..+.+.|++++|...|++..+..  +.+...|..+..+|.+.|++++|...|++++...| ++..|..+..++..
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~   84 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKRA--PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIA   84 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            3334444445555555555555544331  22344555555555555555555555555444444 34455555555555


Q ss_pred             cCCHHHHHHHHHHHhccC
Q 047393          229 HGDMKLAKYALDKLLELD  246 (373)
Q Consensus       229 ~g~~~~A~~~~~~m~~~~  246 (373)
                      .|++++|...+++..+++
T Consensus        85 ~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           85 VKEYASALETLDAARTKD  102 (126)
T ss_dssp             TTCHHHHHHHHHHHHHHH
T ss_pred             HhCHHHHHHHHHHHHHhC
Confidence            555555555555555544

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.34  E-value=5.1e-06  Score=62.78  Aligned_cols=112  Identities=12%  Similarity=0.066  Sum_probs=73.9

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCC-CCC----HhHHH
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHI-EPS----EEHYS  187 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~-~p~----~~~~~  187 (373)
                      ..|..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++...+...- .++    ..++.
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            456666677777777777777777776653 345666777777777777777777777776544211 111    55666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHH
Q 047393          188 IMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLS  225 (373)
Q Consensus       188 ~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~  225 (373)
                      .+...+.+.|++++|.+.|++++...|++..+..+...
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~l~~~  121 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAEHRTPDVLKKCQQA  121 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            77777777788888877777766655666555554443

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.34  E-value=3.4e-06  Score=63.99  Aligned_cols=94  Identities=12%  Similarity=-0.049  Sum_probs=59.2

Q ss_pred             HHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCC
Q 047393          153 ALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGD  231 (373)
Q Consensus       153 ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~  231 (373)
                      +...+.+.|++++|...+++..+..  +.+...|..+..++.+.|+.++|...|++++...| ++..|..+..++...|+
T Consensus        23 ~g~~~~~~g~~~~A~~~~~~al~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~g~  100 (121)
T 1hxi_A           23 EGLSMLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHN  100 (121)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            3445556677777777777665541  23556666666677777777777777777666555 45666677777777777


Q ss_pred             HHHHHHHHHHHhccCCC
Q 047393          232 MKLAKYALDKLLELDPG  248 (373)
Q Consensus       232 ~~~A~~~~~~m~~~~P~  248 (373)
                      +++|...+++.++.+|+
T Consensus       101 ~~~A~~~~~~al~~~P~  117 (121)
T 1hxi_A          101 ANAALASLRAWLLSQPQ  117 (121)
T ss_dssp             HHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHhCcC
Confidence            77777777777776664

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.34  E-value=1e-05  Score=61.76  Aligned_cols=107  Identities=10%  Similarity=-0.004  Sum_probs=66.1

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcC-CCCC----HhHHH
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYH-IEPS----EEHYS  187 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g-~~p~----~~~~~  187 (373)
                      .++.-+...+.+.|++++|++.|++..+.. +-+..+|+.+-.+|.+.|++++|...++...+... ..++    ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            355566667777777777777777766653 33456666777777777777777777776654310 0111    13455


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHH
Q 047393          188 IMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWR  220 (373)
Q Consensus       188 ~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  220 (373)
                      .+..++...|++++|.+.|++++...|++.+..
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~~~~~~~~~~  120 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLSEFRDPELVK  120 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSCCHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhCcCHHHHH
Confidence            566666677777777777776655556655443

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.31  E-value=4.6e-06  Score=64.07  Aligned_cols=102  Identities=9%  Similarity=-0.144  Sum_probs=68.9

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHH
Q 047393          145 MNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLL  223 (373)
Q Consensus       145 p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li  223 (373)
                      .+...+..+...+...|++++|...|+...+..  +.+...+..+...+...|++++|...+++++...| ++..|..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC--cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            345666666666777777777777777665441  33456666777777777777777777777655445 456777777


Q ss_pred             HHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          224 LSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       224 ~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      .++...|++++|...+++..+..|+
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHChh
Confidence            7777777777777777777775543

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.30  E-value=4.9e-06  Score=65.54  Aligned_cols=93  Identities=16%  Similarity=0.041  Sum_probs=47.5

Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 047393           82 AVGNCLININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYA  158 (373)
Q Consensus        82 ~~~~~li~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~  158 (373)
                      ..+..+...+.+.|++++|...|++..   ..+...|..+..+|...|++++|+..|++..+.. +.+...+..+..++.
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~  100 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECLL  100 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHH
Confidence            344444455555555555555555432   1244455555555555555555555555554442 223444555555555


Q ss_pred             ccCCHHHHHHHHHHhHH
Q 047393          159 LMGLVGEAYRLFLSMEE  175 (373)
Q Consensus       159 ~~g~~~~a~~~~~~m~~  175 (373)
                      ..|++++|...|+...+
T Consensus       101 ~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          101 QXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            55555555555555543

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.29  E-value=1.9e-05  Score=59.79  Aligned_cols=98  Identities=11%  Similarity=-0.045  Sum_probs=69.4

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHH
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEA  192 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~  192 (373)
                      ..|..+...+.+.|++++|+..|++..+.. +.+...|..+..++.+.|++++|...+++..+..  +.+...+..+..+
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~   81 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD--PNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCcHHHHHHHHHH
Confidence            455666677777777777777777776653 3456777777777777888888888887776541  3346677777777


Q ss_pred             HHhcCCHHHHHHHHHhhCCCC
Q 047393          193 LGRAGMFEEVLEFIKGIVPGK  213 (373)
Q Consensus       193 ~~~~g~~~~A~~~~~~~~~~~  213 (373)
                      +...|++++|.+.|++++...
T Consensus        82 ~~~~~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTKD  102 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHhC
Confidence            778888888888887766544

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.28  E-value=1e-05  Score=62.79  Aligned_cols=100  Identities=10%  Similarity=-0.067  Sum_probs=54.3

Q ss_pred             ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHH
Q 047393          111 NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMN----PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHY  186 (373)
Q Consensus       111 d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~  186 (373)
                      +...+..+...+...|++++|.+.|++..+.  .|+    ...+..+...+...|++++|...++...+..  +.+...+
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~  102 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD--GGDVKAL  102 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--SCCHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC--ccCHHHH
Confidence            4455555666666666666666666665553  344    3455555555555666666666665554331  2234455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhCCCCC
Q 047393          187 SIMVEALGRAGMFEEVLEFIKGIVPGKL  214 (373)
Q Consensus       187 ~~li~~~~~~g~~~~A~~~~~~~~~~~p  214 (373)
                      ..+..+|...|++++|.+.|++++...|
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~~p  130 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSLEP  130 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCC
Confidence            5555555555555555555555444334

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.28  E-value=6.3e-06  Score=74.45  Aligned_cols=92  Identities=12%  Similarity=-0.069  Sum_probs=55.1

Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 047393           82 AVGNCLININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYA  158 (373)
Q Consensus        82 ~~~~~li~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~  158 (373)
                      .+|..+..+|.+.|++++|...|++..   ..+..+|..+..+|...|++++|...|++..+.. +-+...+..+...+.
T Consensus       197 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~  275 (336)
T 1p5q_A          197 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY-PNNKAAKTQLAVCQQ  275 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHH
Confidence            455566666666666666666665543   2245566666666666667777766666666552 234556666666666


Q ss_pred             ccCCHHHH-HHHHHHhH
Q 047393          159 LMGLVGEA-YRLFLSME  174 (373)
Q Consensus       159 ~~g~~~~a-~~~~~~m~  174 (373)
                      +.|+.++| ..+|+.|.
T Consensus       276 ~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          276 RIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            66666666 33455443

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=98.27  E-value=2.9e-05  Score=76.55  Aligned_cols=210  Identities=9%  Similarity=-0.077  Sum_probs=153.8

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHH-HHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCC---------CC
Q 047393           10 VEIPWNLLLKACIKAKDYEMVH-ELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGL---------IS   79 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~-~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~---------~~   79 (373)
                      +...|-..+.-+.+.|+.++|. ++|++.... ++.+...+...+...-+.|+++.|.++|+.+++...         .|
T Consensus       342 ~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p  420 (679)
T 4e6h_A          342 APEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDP  420 (679)
T ss_dssp             CHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHST
T ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccC
Confidence            3455666677777889999997 999998864 444555677777788889999999999999876420         13


Q ss_pred             ------------chhHHHHHHHHhHhcCCHHHHHHHHccCCCC----ChhHHHHHHHHHHhC-CChHHHHHHHHHHHHcC
Q 047393           80 ------------HPAVGNCLININSRCGKIDDADLAFKSTPEK----NSLSWTFIISARVNH-GHPSEALDLFKDKQWRY  142 (373)
Q Consensus        80 ------------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----d~~~~~~li~~~~~~-g~~~~A~~l~~~m~~~g  142 (373)
                                  ...+|...+....+.|.++.|.++|.+..+.    ....|-..+..-.+. ++.+.|..+|+...+. 
T Consensus       421 ~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-  499 (679)
T 4e6h_A          421 TNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-  499 (679)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-
T ss_pred             cchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-
Confidence                        2346888888888899999999999877532    223333222222333 5599999999998876 


Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC---CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHH
Q 047393          143 TSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP---SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIW  219 (373)
Q Consensus       143 ~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  219 (373)
                      ++-+...+...++.....|+.+.|..+|+.....  .++   ....|...+..-.+.|..+.+.++.+++....|+....
T Consensus       500 ~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~--~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~~~  577 (679)
T 4e6h_A          500 FATDGEYINKYLDFLIYVNEESQVKSLFESSIDK--ISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVNKL  577 (679)
T ss_dssp             HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTT--SSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCCHH
T ss_pred             CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCcHH
Confidence            4446667778888888899999999999998653  221   34688888888889999999999999966556654333


Q ss_pred             HHHH
Q 047393          220 RTLL  223 (373)
Q Consensus       220 ~~li  223 (373)
                      ..++
T Consensus       578 ~~f~  581 (679)
T 4e6h_A          578 EEFT  581 (679)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            3333

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.25  E-value=5.8e-06  Score=63.20  Aligned_cols=99  Identities=12%  Similarity=-0.056  Sum_probs=82.8

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC--------HHHH
Q 047393          148 TTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC--------PLIW  219 (373)
Q Consensus       148 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~--------~~~~  219 (373)
                      .++..+-..+.+.|++++|...|++..+..  +-+...|+.+..+|.+.|++++|.+.+++++.+.|+        ..+|
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~--p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD--PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            456677788999999999999999987652  346788999999999999999999999997764332        2478


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          220 RTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       220 ~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      ..+..++...|++++|.+.|++.++..|+
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~~~~  115 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSEFRD  115 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCcC
Confidence            88888999999999999999999886654

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.22  E-value=1.7e-05  Score=58.04  Aligned_cols=101  Identities=16%  Similarity=0.052  Sum_probs=66.2

Q ss_pred             ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC--CHhHHHH
Q 047393          111 NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP--SEEHYSI  188 (373)
Q Consensus       111 d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p--~~~~~~~  188 (373)
                      +...|..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...+++..+..  +.  +...+..
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~   81 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI--EDEYNKDVWAA   81 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--CCTTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--cccchHHHHHH
Confidence            34555666666777777777777777766653 3355666667777777777777777777765431  22  4566677


Q ss_pred             HHHHHHhc-CCHHHHHHHHHhhCCCCC
Q 047393          189 MVEALGRA-GMFEEVLEFIKGIVPGKL  214 (373)
Q Consensus       189 li~~~~~~-g~~~~A~~~~~~~~~~~p  214 (373)
                      +...+.+. |++++|.+.+++++...|
T Consensus        82 l~~~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           82 KADALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHHHHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHhhccc
Confidence            77777777 777777777777554444

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.21  E-value=1.7e-05  Score=60.77  Aligned_cols=98  Identities=9%  Similarity=-0.038  Sum_probs=64.0

Q ss_pred             ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHH
Q 047393          111 NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMV  190 (373)
Q Consensus       111 d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li  190 (373)
                      +...|..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...++...+..  +.+...+..+.
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~   84 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD--GQSVKAHFFLG   84 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--chhHHHHHHHH
Confidence            45566666666777777777777777666553 3345666666667777777777777777665441  23456666677


Q ss_pred             HHHHhcCCHHHHHHHHHhhCC
Q 047393          191 EALGRAGMFEEVLEFIKGIVP  211 (373)
Q Consensus       191 ~~~~~~g~~~~A~~~~~~~~~  211 (373)
                      .+|...|++++|...|++++.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            777777777777777766544

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.21  E-value=3.8e-05  Score=59.39  Aligned_cols=93  Identities=10%  Similarity=-0.052  Sum_probs=42.9

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHccCCC--CC----hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 047393           81 PAVGNCLININSRCGKIDDADLAFKSTPE--KN----SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSAL  154 (373)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~d----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll  154 (373)
                      ...+..+...+.+.|++++|.+.|++..+  |+    ...|..+...|...|++++|...+++..+.. +.+...+..+.
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a  106 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYRRS  106 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHHHH
Confidence            33444444445555555555555544321  22    3344444444555555555555555444431 22344444444


Q ss_pred             HHHHccCCHHHHHHHHHHhH
Q 047393          155 KAYALMGLVGEAYRLFLSME  174 (373)
Q Consensus       155 ~~~~~~g~~~~a~~~~~~m~  174 (373)
                      .++...|++++|...|++..
T Consensus       107 ~~~~~~~~~~~A~~~~~~al  126 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRCV  126 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHH
Confidence            44555555555555555443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.20  E-value=7.3e-06  Score=74.12  Aligned_cols=134  Identities=8%  Similarity=-0.107  Sum_probs=74.5

Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHH------------------HHHHHHHHHHccCCHHHHHHHHHHh
Q 047393          112 SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPT------------------TFRSALKAYALMGLVGEAYRLFLSM  173 (373)
Q Consensus       112 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~------------------t~~~ll~~~~~~g~~~~a~~~~~~m  173 (373)
                      ...|..+...+.+.|++++|...|++..+.  .|+..                  .|..+..+|.+.|++++|...++..
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~l~~~~~~nla~~~~~~g~~~~A~~~~~~a  256 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFMFQLYGKYQDMALAVKNPCHLNIAACLIKLKRYDEAIGHCNIV  256 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHHHTCCHHHHHHHHHHHTHHHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchhhhhcccHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            344566666777777888888777776654  34433                  7788888899999999999999988


Q ss_pred             HHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-HHHHHHHHHHH-HHcCCHHHHHHHHHHHhccCCCC
Q 047393          174 EEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC-PLIWRTLLLSS-RVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       174 ~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~li~~~-~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .+..  +.+...|..+..+|...|++++|.+.|++++...|+ ...+..+.... ...+..+++...|..|.+..|++
T Consensus       257 l~~~--p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~~~~~~~l~~~p~~  332 (338)
T 2if4_A          257 LTEE--EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQKEMYKGIFKGKDEG  332 (338)
T ss_dssp             HHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----------------------------------------
T ss_pred             HHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCC
Confidence            7652  346788888999999999999999999997777774 44555555442 34567778888888888877643

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.20  E-value=1e-05  Score=61.13  Aligned_cols=99  Identities=9%  Similarity=-0.093  Sum_probs=84.7

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC----C----HHH
Q 047393          147 PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL----C----PLI  218 (373)
Q Consensus       147 ~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p----~----~~~  218 (373)
                      ...+..+...+...|++++|...+++..+..  +.+...+..+...|...|++++|...+++++...|    +    ..+
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   81 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD--PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKA   81 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC--CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHH
Confidence            3567778888899999999999999997652  44778888999999999999999999999766433    2    778


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhccCC
Q 047393          219 WRTLLLSSRVHGDMKLAKYALDKLLELDP  247 (373)
Q Consensus       219 ~~~li~~~~~~g~~~~A~~~~~~m~~~~P  247 (373)
                      |..+...+...|++++|...++++.+..|
T Consensus        82 ~~~la~~~~~~~~~~~A~~~~~~~~~~~~  110 (131)
T 1elr_A           82 YARIGNSYFKEEKYKDAIHFYNKSLAEHR  110 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            99999999999999999999999998765

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.19  E-value=1.7e-05  Score=60.02  Aligned_cols=92  Identities=21%  Similarity=0.130  Sum_probs=48.2

Q ss_pred             HHHccCCHHHHHHHHHHhHHHcCCCCCH---hHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC----HHHHHHHHHHHHH
Q 047393          156 AYALMGLVGEAYRLFLSMEEVYHIEPSE---EHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC----PLIWRTLLLSSRV  228 (373)
Q Consensus       156 ~~~~~g~~~~a~~~~~~m~~~~g~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~li~~~~~  228 (373)
                      .+...|++++|...|+...+..  +.+.   ..+..+...+.+.|++++|...|++++...|+    +..+..+..++..
T Consensus        11 ~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~~   88 (129)
T 2xev_A           11 DALKNGKYDDASQLFLSFLELY--PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQYG   88 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHC--CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHH
Confidence            3444555555555555554431  1111   24444555555556666666655554443332    3445555556666


Q ss_pred             cCCHHHHHHHHHHHhccCCCC
Q 047393          229 HGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       229 ~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .|++++|...++++.+..|++
T Consensus        89 ~g~~~~A~~~~~~~~~~~p~~  109 (129)
T 2xev_A           89 EGKNTEAQQTLQQVATQYPGS  109 (129)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTS
T ss_pred             cCCHHHHHHHHHHHHHHCCCC
Confidence            666666666666666655543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.16  E-value=1.5e-05  Score=62.03  Aligned_cols=100  Identities=9%  Similarity=-0.085  Sum_probs=63.9

Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHH
Q 047393          112 SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE  191 (373)
Q Consensus       112 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  191 (373)
                      ...+..+...+.+.|++++|...|++..... +.+...|..+-.++.+.|++++|...|+......  +.+...+..+..
T Consensus        18 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~   94 (142)
T 2xcb_A           18 LEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD--INEPRFPFHAAE   94 (142)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCCcHHHHHHHH
Confidence            3444555566667777777777777766653 3355666666667777777777777777765441  234556666677


Q ss_pred             HHHhcCCHHHHHHHHHhhCCCCC
Q 047393          192 ALGRAGMFEEVLEFIKGIVPGKL  214 (373)
Q Consensus       192 ~~~~~g~~~~A~~~~~~~~~~~p  214 (373)
                      +|...|++++|.+.|++++...|
T Consensus        95 ~~~~~g~~~~A~~~~~~al~~~p  117 (142)
T 2xcb_A           95 CHLQLGDLDGAESGFYSARALAA  117 (142)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCC
Confidence            77777777777777776554333

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.16  E-value=5.4e-05  Score=70.26  Aligned_cols=193  Identities=7%  Similarity=-0.032  Sum_probs=136.6

Q ss_pred             HHHHHHcCCHhHHHHHHHHHHhcCCCC-C---------------HHHHHHHHHHHcCCCchHHHHHHHHHHHHc--CCCC
Q 047393           18 LKACIKAKDYEMVHELLERIQLCCGFI-D---------------SYSICDILNSCLNPILLNVGTQAQAYMTKR--GLIS   79 (373)
Q Consensus        18 i~~~~~~g~~~~A~~l~~~m~~~g~~p-~---------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~--g~~~   79 (373)
                      ...+.+.|++++|++.|.++.+..-.. +               ...+..+...|...|++++|.+.+..+.+.  .+..
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            356788999999999999998743211 1               123677888999999999999999887542  2211


Q ss_pred             c---hhHHHHHHHHhHhcCCHHHHHHHHccCCC--------C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHc--CC--
Q 047393           80 H---PAVGNCLININSRCGKIDDADLAFKSTPE--------K-NSLSWTFIISARVNHGHPSEALDLFKDKQWR--YT--  143 (373)
Q Consensus        80 ~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~--------~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~--g~--  143 (373)
                      .   ..+.+.+-..+...|+++.|.++++....        + -..++..+...|...|++++|..++++....  +.  
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            1   12344445556677899999888865431        1 2457788899999999999999999887543  11  


Q ss_pred             CCC-HHHHHHHHHHHHccCCHHHHHHHHHHhHHHc---CCCCC--HhHHHHHHHHHHhcCCHHHHHHHHHhhC
Q 047393          144 SMN-PTTFRSALKAYALMGLVGEAYRLFLSMEEVY---HIEPS--EEHYSIMVEALGRAGMFEEVLEFIKGIV  210 (373)
Q Consensus       144 ~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~---g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~  210 (373)
                      .|. ..++..+...|...|++++|..+++......   +.+|.  ...+..+...+...|++++|...|.+++
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            222 4578888899999999999999998875432   11221  2456667777778899999988876654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.15  E-value=2.6e-05  Score=60.97  Aligned_cols=131  Identities=10%  Similarity=0.001  Sum_probs=80.0

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC----Hh
Q 047393          114 SWTFIISARVNHGHPSEALDLFKDKQWRYT-SMN----PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS----EE  184 (373)
Q Consensus       114 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~----~~  184 (373)
                      ++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|...+++..+...-.++    ..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            455555566666666666666665543210 011    135566666667777777777777765432111111    34


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhhCCC---CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          185 HYSIMVEALGRAGMFEEVLEFIKGIVPG---KLC----PLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       185 ~~~~li~~~~~~g~~~~A~~~~~~~~~~---~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      .+..+...+...|++++|.+.+++++..   ..+    ..++..+...+...|++++|.+.+++..+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            5666667777778888887777765431   111    35677777888888888888888888765

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.14  E-value=4.7e-05  Score=60.63  Aligned_cols=96  Identities=16%  Similarity=0.004  Sum_probs=46.7

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHH
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEA  192 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~  192 (373)
                      ..|..+...+.+.|++++|++.|++..+.. +-+...|..+..+|.+.|++++|...+++..+..  +.+...|..+..+
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~lg~~   88 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD--PKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHHHHHH
Confidence            344444445555555555555555544432 2234445555555555555555555555554331  2234445555555


Q ss_pred             HHhcCCHHHHHHHHHhhCC
Q 047393          193 LGRAGMFEEVLEFIKGIVP  211 (373)
Q Consensus       193 ~~~~g~~~~A~~~~~~~~~  211 (373)
                      |.+.|++++|.+.|++++.
T Consensus        89 ~~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHH
Confidence            5555555555555555443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.12  E-value=0.00011  Score=68.27  Aligned_cols=191  Identities=8%  Similarity=-0.115  Sum_probs=140.0

Q ss_pred             HHHcCCCchHHHHHHHHHHHHcCCCCc----------------hhHHHHHHHHhHhcCCHHHHHHHHccCCC-----CCh
Q 047393           54 NSCLNPILLNVGTQAQAYMTKRGLISH----------------PAVGNCLININSRCGKIDDADLAFKSTPE-----KNS  112 (373)
Q Consensus        54 ~~~~~~~~~~~a~~~~~~m~~~g~~~~----------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~d~  112 (373)
                      ..+.+.|++++|.+.|..+++..-...                ...+..|...|.+.|++++|.+.+....+     ++.
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            445677999999999999987542211                12467789999999999999999987752     121


Q ss_pred             ----hHHHHHHHHHHhCCChHHHHHHHHHHHH----cCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC--
Q 047393          113 ----LSWTFIISARVNHGHPSEALDLFKDKQW----RYTSMN-PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP--  181 (373)
Q Consensus       113 ----~~~~~li~~~~~~g~~~~A~~l~~~m~~----~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p--  181 (373)
                          .+.+.+-..+...|++++|.++++....    .+..+. ..++..+...+...|++++|..++++......-..  
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~  171 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK  171 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCS
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccc
Confidence                2333344445567899999999988753    333443 45778889999999999999999998865432221  


Q ss_pred             --CHhHHHHHHHHHHhcCCHHHHHHHHHhhCC----C-CCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          182 --SEEHYSIMVEALGRAGMFEEVLEFIKGIVP----G-KLC---PLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       182 --~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~-~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                        ...++..++..|...|++++|..+++++..    . .|.   ...+..+...+...|++++|...|.+..+
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence              246788899999999999999999987543    1 221   24666777777889999999998888765

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.11  E-value=3.3e-05  Score=67.75  Aligned_cols=97  Identities=9%  Similarity=-0.145  Sum_probs=43.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHH
Q 047393          149 TFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSR  227 (373)
Q Consensus       149 t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~  227 (373)
                      .+..+...+.+.|++++|...|++..+..  +.+...|..+...|.+.|++++|.+.+++++...| +...+..+..++.
T Consensus         6 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (281)
T 2c2l_A            6 ELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQL   83 (281)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            33334444444444444444444443321  11334444444444444555555555544444333 2344444444444


Q ss_pred             HcCCHHHHHHHHHHHhccCC
Q 047393          228 VHGDMKLAKYALDKLLELDP  247 (373)
Q Consensus       228 ~~g~~~~A~~~~~~m~~~~P  247 (373)
                      ..|++++|...+++..+++|
T Consensus        84 ~~g~~~~A~~~~~~al~l~p  103 (281)
T 2c2l_A           84 EMESYDEAIANLQRAYSLAK  103 (281)
T ss_dssp             HTTCHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCc
Confidence            55555555555544444433

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.09  E-value=4e-05  Score=57.93  Aligned_cols=98  Identities=10%  Similarity=-0.077  Sum_probs=69.6

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHH
Q 047393          114 SWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEA  192 (373)
Q Consensus       114 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~  192 (373)
                      .+..+...+.+.|++++|...|++..+.. +.+...+..+-.++...|++++|...|++..+.   .| +...+..+..+
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l---~P~~~~~~~~la~~   94 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARML---DPKDIAVHAALAVS   94 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHH
Confidence            34556667777888888888888877763 336677777777788888888888888877654   34 56677777788


Q ss_pred             HHhcCCHHHHHHHHHhhCCCCCC
Q 047393          193 LGRAGMFEEVLEFIKGIVPGKLC  215 (373)
Q Consensus       193 ~~~~g~~~~A~~~~~~~~~~~p~  215 (373)
                      |.+.|+.++|...+++++...|+
T Consensus        95 ~~~~g~~~~A~~~~~~al~~~P~  117 (121)
T 1hxi_A           95 HTNEHNANAALASLRAWLLSQPQ  117 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHC----
T ss_pred             HHHcCCHHHHHHHHHHHHHhCcC
Confidence            88888888888888876665554

>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=98.09  E-value=4.8e-05  Score=71.71  Aligned_cols=132  Identities=8%  Similarity=-0.082  Sum_probs=105.5

Q ss_pred             ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC--------------HHHHHHHHHHHHccCCHHHHHHHHHHhHHH
Q 047393          111 NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMN--------------PTTFRSALKAYALMGLVGEAYRLFLSMEEV  176 (373)
Q Consensus       111 d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--------------~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  176 (373)
                      ....|..+...+.+.|++++|+..|++..+..-...              ...|..+..+|.+.|++++|...+++..+.
T Consensus       267 ~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  346 (457)
T 1kt0_A          267 QAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL  346 (457)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            355788888899999999999999999877531111              578889999999999999999999999765


Q ss_pred             cCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHH-HHHHHHhc
Q 047393          177 YHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAK-YALDKLLE  244 (373)
Q Consensus       177 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~-~~~~~m~~  244 (373)
                      .  +.+...|..+..+|...|++++|...|++++++.| +...+..+..++.+.|+.++|. .++..|..
T Consensus       347 ~--p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          347 D--SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKKAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             S--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             C--CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            2  44678899999999999999999999999888888 4568888888899999888876 45666654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.08  E-value=1.9e-05  Score=62.82  Aligned_cols=66  Identities=15%  Similarity=0.033  Sum_probs=47.5

Q ss_pred             HhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          183 EEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       183 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      ...|..+..+|.+.|++++|...+++++...| ++..|..+..++...|++++|...|++..+++|+
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~  129 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPA  129 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGG
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCC
Confidence            35666677777777777777777777666555 4667777777777777777777777777776653

>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=98.06  E-value=5e-06  Score=78.91  Aligned_cols=116  Identities=12%  Similarity=-0.058  Sum_probs=54.1

Q ss_pred             HHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHH
Q 047393          122 RVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEE  201 (373)
Q Consensus       122 ~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~  201 (373)
                      +.+.|++++|.+.|++..+.. +-+..+|..+..+|.+.|++++|...+++..+.  -+.+...+..+..+|.+.|++++
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~lg~~~~~~g~~~e   92 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASNMALGKFRA   92 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHH
Confidence            334455555555555554442 223455555555555555555555555555332  12234455555555555555555


Q ss_pred             HHHHHHhhCCCCC-CHHHHHHHHHH--HHHcCCHHHHHHHHH
Q 047393          202 VLEFIKGIVPGKL-CPLIWRTLLLS--SRVHGDMKLAKYALD  240 (373)
Q Consensus       202 A~~~~~~~~~~~p-~~~~~~~li~~--~~~~g~~~~A~~~~~  240 (373)
                      |.+.|+++++..| +...+..+..+  +.+.|++++|.+.++
T Consensus        93 A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           93 ALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            5555555444333 22233333333  445555555555555

>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=98.05  E-value=4.1e-05  Score=72.59  Aligned_cols=152  Identities=11%  Similarity=-0.020  Sum_probs=85.4

Q ss_pred             HhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHH
Q 047393           90 INSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEA  166 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a  166 (373)
                      .|.+.|++++|.+.|++..   ..+..+|..+..+|.+.|++++|++.+++..+.. +-+..++..+..+|.+.|++++|
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~eA   93 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAA   93 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence            3445556666666555443   2245666667777777777777777777766653 33456677777777777777777


Q ss_pred             HHHHHHhHHHcCCCCCHhHHHHHHHH--HHhcCCHHHHHHHHH-----------hhCCCCC------------CHHHHHH
Q 047393          167 YRLFLSMEEVYHIEPSEEHYSIMVEA--LGRAGMFEEVLEFIK-----------GIVPGKL------------CPLIWRT  221 (373)
Q Consensus       167 ~~~~~~m~~~~g~~p~~~~~~~li~~--~~~~g~~~~A~~~~~-----------~~~~~~p------------~~~~~~~  221 (373)
                      ...|++..+..  +.+...+..+..+  +.+.|++++|.+.++           +.+...|            .......
T Consensus        94 ~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~itl~~l~~  171 (477)
T 1wao_1           94 LRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRSVVDSLDIESMTIEDEYSGPKLEDGKVTISFMKE  171 (477)
T ss_dssp             HHHHHHHHHHS--TTCTTHHHHHHHHHHHHHHHHHCCC------CCSTTTCCTTSSCCCCTTCCSCCCGGGSCCHHHHHH
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHhccccccchhHhhhhhhhccccccccccccccccccHHHHHH
Confidence            77777775542  1123344444444  666777777777777           4333222            2345666


Q ss_pred             HHHHHHHcCCH--HHHHHHHHHHhc
Q 047393          222 LLLSSRVHGDM--KLAKYALDKLLE  244 (373)
Q Consensus       222 li~~~~~~g~~--~~A~~~~~~m~~  244 (373)
                      ++..+.+.+.+  +.+..++.+..+
T Consensus       172 lie~l~~~~~l~e~~v~~L~~~a~e  196 (477)
T 1wao_1          172 LMQWYKDQKKLHRKCAYQILVQVKE  196 (477)
T ss_dssp             HHHHHHTCCCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            67776665543  334445555443

>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=98.03  E-value=2e-05  Score=62.31  Aligned_cols=93  Identities=17%  Similarity=0.071  Sum_probs=67.3

Q ss_pred             HHHHHccCCHHHHHHHHHHhHHHcCCCCC-------------HhHHHHHHHHHHhcCCHHHHHHHHHhhCCC-------C
Q 047393          154 LKAYALMGLVGEAYRLFLSMEEVYHIEPS-------------EEHYSIMVEALGRAGMFEEVLEFIKGIVPG-------K  213 (373)
Q Consensus       154 l~~~~~~g~~~~a~~~~~~m~~~~g~~p~-------------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-------~  213 (373)
                      -..+.+.|++++|...|+...+-   .|+             ...|+.+..++.+.|++++|+..+++++.+       .
T Consensus        18 G~~l~~~g~~eeAi~~Y~kAL~l---~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~   94 (159)
T 2hr2_A           18 AQRQLVAGEYDEAAANCRRAMEI---SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN   94 (159)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH---HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhh---CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCC
Confidence            34445556666666666555433   222             226777777777788887777777776665       8


Q ss_pred             CC-HHHH----HHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          214 LC-PLIW----RTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       214 p~-~~~~----~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      |+ ...|    .....++...|++++|...|++.++++|++
T Consensus        95 pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d  135 (159)
T 2hr2_A           95 QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEER  135 (159)
T ss_dssp             STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHC
T ss_pred             CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            86 4688    899999999999999999999999988755

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.00  E-value=5.4e-05  Score=62.35  Aligned_cols=126  Identities=11%  Similarity=-0.094  Sum_probs=72.0

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCC-C--------------chhHHHHHHHHhHhcCCHHHHHHHHccCC---
Q 047393           47 YSICDILNSCLNPILLNVGTQAQAYMTKRGLI-S--------------HPAVGNCLININSRCGKIDDADLAFKSTP---  108 (373)
Q Consensus        47 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~-~--------------~~~~~~~li~~~~~~g~~~~A~~~~~~m~---  108 (373)
                      ..+..+...+.+.|++++|...|.+.++..-. |              ...++..+..+|.+.|++++|...+++..   
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~  118 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID  118 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            34444455555555555555555555443210 0              02566667777777777777777776554   


Q ss_pred             CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHH-HHHHHh
Q 047393          109 EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAY-RLFLSM  173 (373)
Q Consensus       109 ~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~-~~~~~m  173 (373)
                      ..+..+|..+..+|...|++++|.+.|++..+.. +-+...+..+...+...++.+++. ..+..+
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~  183 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCVNKLKEARKKDKLTFGGM  183 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHC---------
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            2356667777777777777888877777776653 234556666666666666666655 444444

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.00  E-value=0.00055  Score=61.18  Aligned_cols=188  Identities=11%  Similarity=-0.029  Sum_probs=138.8

Q ss_pred             CCCch-HHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCC----------HHHHHHHHccCCC---CChhHHHHHHHHHH
Q 047393           58 NPILL-NVGTQAQAYMTKRGLISHPAVGNCLININSRCGK----------IDDADLAFKSTPE---KNSLSWTFIISARV  123 (373)
Q Consensus        58 ~~~~~-~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~---~d~~~~~~li~~~~  123 (373)
                      +.|.. ++|..+.+.++... +-+..+||.--..+...+.          +++++.+++.+..   .+..+|+--.-.+.
T Consensus        41 ~~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~  119 (331)
T 3dss_A           41 QAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLS  119 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHh
Confidence            44554 57899999998765 3445566653333332222          6788888887763   46778887777777


Q ss_pred             hCCC--hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC-HHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhc----
Q 047393          124 NHGH--PSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGL-VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRA----  196 (373)
Q Consensus       124 ~~g~--~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~-~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~----  196 (373)
                      +.|+  +++++++++++.+.. +-|..+|+.---...+.|. ++++.+.++.+.+..  +-|...|+.....+.+.    
T Consensus       120 ~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~--p~N~SAW~~R~~ll~~l~~~~  196 (331)
T 3dss_A          120 RLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN--FSNYSSWHYRSCLLPQLHPQP  196 (331)
T ss_dssp             HCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHHSCCC
T ss_pred             ccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHhhhcc
Confidence            7774  899999999999875 4578888887777778888 699999999998763  45777787766666554    


Q ss_pred             ----------CCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHc-----------CCHHHHHHHHHHHhccCCCC
Q 047393          197 ----------GMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVH-----------GDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       197 ----------g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~-----------g~~~~A~~~~~~m~~~~P~~  249 (373)
                                +.++++++.+.+++...| |...|+-+-..+.+.           +.++++.+.++++.+.+|++
T Consensus       197 ~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~  271 (331)
T 3dss_A          197 DSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEPEN  271 (331)
T ss_dssp             ------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             ccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCccc
Confidence                      457899999999887777 677787555555444           45889999999999999988

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=97.99  E-value=0.00058  Score=60.47  Aligned_cols=210  Identities=11%  Similarity=-0.021  Sum_probs=156.0

Q ss_pred             ChhHHHHHHHHHHHcC--CHhHHHHHHHHHHhcCCCCC-HHHHHHHHHHH----cCC---CchHHHHHHHHHHHHcCCCC
Q 047393           10 VEIPWNLLLKACIKAK--DYEMVHELLERIQLCCGFID-SYSICDILNSC----LNP---ILLNVGTQAQAYMTKRGLIS   79 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g--~~~~A~~l~~~m~~~g~~p~-~~~~~~ll~~~----~~~---~~~~~a~~~~~~m~~~g~~~   79 (373)
                      +...||.--..+...|  +++++++.++.+...+  |. ..+|+.--..+    ...   ++++++..+++.+.+.. +.
T Consensus        66 ~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n--Pk~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~-pk  142 (306)
T 3dra_A           66 HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN--EKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSD-PK  142 (306)
T ss_dssp             CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC--TTCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC--cccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhC-CC
Confidence            4456888777788888  9999999999998853  43 33455433333    333   78999999999998876 66


Q ss_pred             chhHHHHHHHHhHhcCCHH--HHHHHHccCCC---CChhHHHHHHHHHHhCCC------hHHHHHHHHHHHHcCCCCCHH
Q 047393           80 HPAVGNCLININSRCGKID--DADLAFKSTPE---KNSLSWTFIISARVNHGH------PSEALDLFKDKQWRYTSMNPT  148 (373)
Q Consensus        80 ~~~~~~~li~~~~~~g~~~--~A~~~~~~m~~---~d~~~~~~li~~~~~~g~------~~~A~~l~~~m~~~g~~p~~~  148 (373)
                      |..+|+.-.-++.+.|.++  ++++.++++.+   .|..+|+--...+.+.|+      ++++++.++++.... +-|..
T Consensus       143 ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~-p~n~S  221 (306)
T 3dra_A          143 NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKC-PQNPS  221 (306)
T ss_dssp             CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHC-SSCHH
T ss_pred             CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhC-CCCcc
Confidence            8888888877788888888  99999988874   467778776666677776      889999999988875 45788


Q ss_pred             HHHHHHHHHHccCCHHH-HHHHHHHhHHHc-CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCC-CCCC-HHHHHHHH
Q 047393          149 TFRSALKAYALMGLVGE-AYRLFLSMEEVY-HIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVP-GKLC-PLIWRTLL  223 (373)
Q Consensus       149 t~~~ll~~~~~~g~~~~-a~~~~~~m~~~~-g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~p~-~~~~~~li  223 (373)
                      .|+..-..+.+.|+... +..+..+..+.. .-+.+...+..+.+.|.+.|+.++|.++++.+.. ..|. ...|+-..
T Consensus       222 aW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~~~Dpir~~yW~~~~  300 (306)
T 3dra_A          222 TWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKSKYNPIRSNFWDYQI  300 (306)
T ss_dssp             HHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHhccChHHHHHHHHHH
Confidence            89888888888887444 445665543220 1134678888999999999999999999999654 5663 45555443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.98  E-value=9.8e-05  Score=55.74  Aligned_cols=96  Identities=11%  Similarity=-0.006  Sum_probs=56.3

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHcCCCCCH---HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC---HhHHHHHH
Q 047393          117 FIISARVNHGHPSEALDLFKDKQWRYTSMNP---TTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS---EEHYSIMV  190 (373)
Q Consensus       117 ~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~---~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~---~~~~~~li  190 (373)
                      .+...+...|++++|...|++..+... .+.   ..+..+..++.+.|++++|...|+...+..  +.+   ...+..+.
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~~la   83 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYP-NGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCS-SSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCC-CCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHHHHH
Confidence            344555666677777777766665421 112   355556666666777777777777665542  112   44555666


Q ss_pred             HHHHhcCCHHHHHHHHHhhCCCCCC
Q 047393          191 EALGRAGMFEEVLEFIKGIVPGKLC  215 (373)
Q Consensus       191 ~~~~~~g~~~~A~~~~~~~~~~~p~  215 (373)
                      .++.+.|+.++|...|++++...|+
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~~p~  108 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQYPG  108 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCC
Confidence            6666777777777777665544453

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.97  E-value=4.4e-06  Score=62.74  Aligned_cols=85  Identities=11%  Similarity=0.108  Sum_probs=37.5

Q ss_pred             CCChHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHH
Q 047393          125 HGHPSEALDLFKDKQWRYT--SMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEV  202 (373)
Q Consensus       125 ~g~~~~A~~l~~~m~~~g~--~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A  202 (373)
                      .|++++|+..|++..+.+.  +-+...+..+...|...|++++|...+++..+..  +-+...+..+..++.+.|++++|
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF--PNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHHcCCHHHH
Confidence            3455555555555554321  1122344444445555555555555555554331  22334444444555555555555


Q ss_pred             HHHHHhhCC
Q 047393          203 LEFIKGIVP  211 (373)
Q Consensus       203 ~~~~~~~~~  211 (373)
                      .+.|++++.
T Consensus        81 ~~~~~~al~   89 (117)
T 3k9i_A           81 VELLLKIIA   89 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555554333

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.95  E-value=2.8e-05  Score=60.87  Aligned_cols=137  Identities=11%  Similarity=-0.059  Sum_probs=73.7

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCC-CC----HHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCC-CchhHHH
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCGF-ID----SYSICDILNSCLNPILLNVGTQAQAYMTKRGLI-SHPAVGN   85 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~-p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~-~~~~~~~   85 (373)
                      .+|+.+...+...|++++|++.+++..+..-. ++    ..++..+...+...|++++|...++...+..-. ++..   
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~---   86 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRA---   86 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH---
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcH---
Confidence            45677777777888888888888776642100 11    124455555555666666666665554332100 0000   


Q ss_pred             HHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHcc
Q 047393           86 CLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWR----YTSM-NPTTFRSALKAYALM  160 (373)
Q Consensus        86 ~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~p-~~~t~~~ll~~~~~~  160 (373)
                                              ....++..+...+...|++++|.+.+++..+.    +..+ ...++..+...+...
T Consensus        87 ------------------------~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~  142 (164)
T 3ro3_A           87 ------------------------VEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTAL  142 (164)
T ss_dssp             ------------------------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             ------------------------HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHc
Confidence                                    01233444555555556666665555554322    1111 134556666677777


Q ss_pred             CCHHHHHHHHHHhHH
Q 047393          161 GLVGEAYRLFLSMEE  175 (373)
Q Consensus       161 g~~~~a~~~~~~m~~  175 (373)
                      |++++|...+++..+
T Consensus       143 g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A          143 GNHDQAMHFAEKHLE  157 (164)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHH
Confidence            777777777776644

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.88  E-value=0.00013  Score=57.80  Aligned_cols=102  Identities=17%  Similarity=0.046  Sum_probs=72.5

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHc-------CC----------CCCHHHHHHHHHHHHccCCHHHHHHHHHHhHH
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWR-------YT----------SMNPTTFRSALKAYALMGLVGEAYRLFLSMEE  175 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~-------g~----------~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  175 (373)
                      ..+......+.+.|++++|+..|.+..+.       .-          +-+...|..+..+|.+.|++++|...++...+
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~   91 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLK   91 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            34555556666666666666666665543       00          11235777888888889999999999888866


Q ss_pred             HcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH
Q 047393          176 VYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP  216 (373)
Q Consensus       176 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~  216 (373)
                      ..  +.+...|..+..+|...|++++|...|++++...|+.
T Consensus        92 ~~--p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~  130 (162)
T 3rkv_A           92 RE--ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAA  130 (162)
T ss_dssp             HS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGG
T ss_pred             cC--CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCC
Confidence            42  3467788888888899999999999998877777754

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=97.86  E-value=0.0022  Score=60.96  Aligned_cols=239  Identities=10%  Similarity=-0.036  Sum_probs=155.0

Q ss_pred             hHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHH-HHHHcc
Q 047393           28 EMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDA-DLAFKS  106 (373)
Q Consensus        28 ~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A-~~~~~~  106 (373)
                      +.+..+|+++... .+-+...|...+.-+.+.|+++.|..++++.++.  +.+...+..    |+...+.++. ..+.+.
T Consensus       196 ~Rv~~~ye~al~~-~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~~~~l~~~  268 (493)
T 2uy1_A          196 SRMHFIHNYILDS-FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAVYGDLKRK  268 (493)
T ss_dssp             HHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHHHHHHHHH
Confidence            4567788888774 3345667777777778899999999999999887  444433332    2222111111 112221


Q ss_pred             CC--C-------C---ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc-cCCHHHHHHHHHHh
Q 047393          107 TP--E-------K---NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYAL-MGLVGEAYRLFLSM  173 (373)
Q Consensus       107 m~--~-------~---d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~-~g~~~~a~~~~~~m  173 (373)
                      ..  +       +   ....|-..+....+.+..+.|..+|++. +.. ..+...|......-.. .++.+.|..+|+..
T Consensus       269 ~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~a  346 (493)
T 2uy1_A          269 YSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSSG  346 (493)
T ss_dssp             TC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHH
T ss_pred             HHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence            10  0       1   2245667777777788899999999998 321 2344555432222222 34799999999999


Q ss_pred             HHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhc-c------C
Q 047393          174 EEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLE-L------D  246 (373)
Q Consensus       174 ~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~------~  246 (373)
                      .+.++-  ++..+...++...+.|+.+.|..+|++ ..  .....|...+.-=...|+.+.+..+++++.+ +      +
T Consensus       347 l~~~~~--~~~~~~~yid~e~~~~~~~~aR~l~er-~~--k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~~~~~~~~~~  421 (493)
T 2uy1_A          347 LLKHPD--STLLKEEFFLFLLRIGDEENARALFKR-LE--KTSRMWDSMIEYEFMVGSMELFRELVDQKMDAIKADAILP  421 (493)
T ss_dssp             HHHCTT--CHHHHHHHHHHHHHHTCHHHHHHHHHH-SC--CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHTTCCBC
T ss_pred             HHHCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHH-HH--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhcccccCC
Confidence            876432  345567788888899999999999999 42  3678899999888889999999999998875 1      1


Q ss_pred             CCCccchhheecceEEEEecCCcchHHHHHHHHHHHHHHHHCCCccCC
Q 047393          247 PGMYVGCWIEIQNKIYEFVSNEELTSEVSDKLAEIEENMKELGFVLNR  294 (373)
Q Consensus       247 P~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~g~~p~~  294 (373)
                      |......|              ...++..+.+..+++.-.-..+.|..
T Consensus       422 ~~~~~~~~--------------~~fe~~~g~l~~~~~~~~~~~~~~~~  455 (493)
T 2uy1_A          422 PLPPREHN--------------VQMEGILGRYHCFLDSFNFLDLKIRD  455 (493)
T ss_dssp             CCCCC--C--------------CCCCHHHHHHHHHHHHHCBTTBCCCC
T ss_pred             cccccccH--------------HHHHHHhhhHHHHHHHhhhhccccCC
Confidence            21100011              22234456677777776666666666

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.85  E-value=9.7e-05  Score=67.58  Aligned_cols=122  Identities=11%  Similarity=-0.068  Sum_probs=85.1

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHc--------------CCC-CCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHc
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWR--------------YTS-MNPTTFRSALKAYALMGLVGEAYRLFLSMEEVY  177 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~--------------g~~-p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~  177 (373)
                      ..|..+...+.+.|++++|++.|++..+.              ... -+..+|..+..+|.+.|++++|...+++..+. 
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~-  302 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI-  302 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-
Confidence            34677777888888888888888887651              011 23456777777777888888888888877543 


Q ss_pred             CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHH
Q 047393          178 HIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKY  237 (373)
Q Consensus       178 g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~  237 (373)
                        .| +...+..+..+|.+.|++++|.+.|+++++..| +...+..+...+...++.+++.+
T Consensus       303 --~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          303 --DPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             --CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --CchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence              34 566777777788888888888888887666566 45666666666666666665543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.79  E-value=2.3e-05  Score=58.71  Aligned_cols=81  Identities=10%  Similarity=-0.018  Sum_probs=39.1

Q ss_pred             CCHHHHHHHHccCCCC------ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 047393           95 GKIDDADLAFKSTPEK------NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYR  168 (373)
Q Consensus        95 g~~~~A~~~~~~m~~~------d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~  168 (373)
                      |++++|+..|++..+.      +..+|..+...|...|++++|...|++..+.. +-+..++..+..++.+.|++++|..
T Consensus         4 g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            4 GLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ---CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHHH
Confidence            4455555555443321      23444555555555555555555555555442 2234455555555555555555555


Q ss_pred             HHHHhHHH
Q 047393          169 LFLSMEEV  176 (373)
Q Consensus       169 ~~~~m~~~  176 (373)
                      .+++....
T Consensus        83 ~~~~al~~   90 (117)
T 3k9i_A           83 LLLKIIAE   90 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            55555443

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.78  E-value=0.00016  Score=68.04  Aligned_cols=92  Identities=7%  Similarity=-0.137  Sum_probs=47.1

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCC----------------HHHHHHHHHHHcCCCchHHHHHHHHHHHHc
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCGFID----------------SYSICDILNSCLNPILLNVGTQAQAYMTKR   75 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~----------------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~   75 (373)
                      ..|+.+-..|.+.|++++|+..|++..+.  .|+                ...|..+..++.+.|++++|...++..++.
T Consensus       269 ~~~~~~G~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  346 (457)
T 1kt0_A          269 AIVKEKGTVYFKGGKYMQAVIQYGKIVSW--LEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGL  346 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            45666777777777777777777777653  222                233444444444444444444444444443


Q ss_pred             CCCCchhHHHHHHHHhHhcCCHHHHHHHHcc
Q 047393           76 GLISHPAVGNCLININSRCGKIDDADLAFKS  106 (373)
Q Consensus        76 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  106 (373)
                      . +.+...|..+..+|.+.|++++|...|++
T Consensus       347 ~-p~~~~a~~~~g~a~~~~g~~~~A~~~~~~  376 (457)
T 1kt0_A          347 D-SANEKGLYRRGEAQLLMNEFESAKGDFEK  376 (457)
T ss_dssp             S-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             C-CccHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            2 22333444444444444444444444443

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=97.73  E-value=0.00024  Score=64.91  Aligned_cols=102  Identities=7%  Similarity=-0.057  Sum_probs=86.5

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHhHHHc-------------CCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCC
Q 047393          148 TTFRSALKAYALMGLVGEAYRLFLSMEEVY-------------HIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGK  213 (373)
Q Consensus       148 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~-------------g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  213 (373)
                      ..+..+-..+.+.|++++|...|++..+..             ...| +...|..+..+|.+.|++++|.+.+++++...
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            346677788899999999999999886511             0123 45788899999999999999999999988877


Q ss_pred             C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          214 L-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       214 p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      | +...|..+..+|...|++++|...|++..+++|++
T Consensus       304 p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~  340 (370)
T 1ihg_A          304 PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPED  340 (370)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCC
Confidence            7 57899999999999999999999999999988765

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.71  E-value=0.00016  Score=68.56  Aligned_cols=124  Identities=12%  Similarity=-0.011  Sum_probs=96.6

Q ss_pred             HHHhCCChHHHHHHHHHHHHc---CCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHhHHH----cCC-CCC-HhHHH
Q 047393          121 ARVNHGHPSEALDLFKDKQWR---YTSMN----PTTFRSALKAYALMGLVGEAYRLFLSMEEV----YHI-EPS-EEHYS  187 (373)
Q Consensus       121 ~~~~~g~~~~A~~l~~~m~~~---g~~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~----~g~-~p~-~~~~~  187 (373)
                      .+...|++++|+.++++.++.   -+.|+    ..+++.+...|...|++++|..++++....    +|- .|+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            466789999999999887653   12333    458899999999999999999999887532    221 233 47889


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhCC-----CCCC---H-HHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          188 IMVEALGRAGMFEEVLEFIKGIVP-----GKLC---P-LIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       188 ~li~~~~~~g~~~~A~~~~~~~~~-----~~p~---~-~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      .|...|...|++++|..++++++.     ..|+   + .+.+.+-.++...+.+++|+.+|.++.+
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999988764     3343   3 4556666778889999999999999876

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.68  E-value=0.00015  Score=65.32  Aligned_cols=142  Identities=13%  Similarity=-0.048  Sum_probs=65.9

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHh
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININ   91 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~   91 (373)
                      ..|..+-..+.+.|++++|+..|++....  .|+...       +...++..++...+          ....|+.+..+|
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l----------~~~~~~nla~~~  240 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV----------KNPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH----------HTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH----------HHHHHHHHHHHH
Confidence            44666666677778888888888877653  344331       12222332222111          012566666677


Q ss_pred             HhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHH-HHccCCHHHH
Q 047393           92 SRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMN-PTTFRSALKA-YALMGLVGEA  166 (373)
Q Consensus        92 ~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~~-~~~~g~~~~a  166 (373)
                      .+.|++++|...|++..   ..+...|..+..+|...|++++|...|++..+.  .|+ ...+..+... ....+..+.+
T Consensus       241 ~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            77777777777776554   235566777777777777777777777776544  233 2333333333 2234556666


Q ss_pred             HHHHHHhH
Q 047393          167 YRLFLSME  174 (373)
Q Consensus       167 ~~~~~~m~  174 (373)
                      ..+|..|.
T Consensus       319 ~~~~~~~l  326 (338)
T 2if4_A          319 KEMYKGIF  326 (338)
T ss_dssp             --------
T ss_pred             HHHHHHhh
Confidence            67777664

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.62  E-value=0.00027  Score=66.99  Aligned_cols=95  Identities=6%  Similarity=-0.065  Sum_probs=56.0

Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHccCC-------C---C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHc---CCCCC-
Q 047393           82 AVGNCLININSRCGKIDDADLAFKSTP-------E---K-NSLSWTFIISARVNHGHPSEALDLFKDKQWR---YTSMN-  146 (373)
Q Consensus        82 ~~~~~li~~~~~~g~~~~A~~~~~~m~-------~---~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~---g~~p~-  146 (373)
                      .+++.|..+|...|++++|+.++++..       -   | ...+++.|...|...|++++|+.++++..+.   -+.|| 
T Consensus       352 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~H  431 (490)
T 3n71_A          352 RLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSH  431 (490)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTS
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCC
Confidence            355556666666666666655554432       1   1 2355666777777777777777766665431   12233 


Q ss_pred             ---HHHHHHHHHHHHccCCHHHHHHHHHHhHHH
Q 047393          147 ---PTTFRSALKAYALMGLVGEAYRLFLSMEEV  176 (373)
Q Consensus       147 ---~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  176 (373)
                         ..+.+.+-.++...+.+++|+.+|+.+++.
T Consensus       432 p~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          432 PITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence               234455556666777788888888877553

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.62  E-value=5.7e-05  Score=55.30  Aligned_cols=59  Identities=14%  Similarity=0.072  Sum_probs=26.3

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHh
Q 047393          114 SWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSM  173 (373)
Q Consensus       114 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m  173 (373)
                      .|..+...+...|++++|.+.|++..+.. +.+...+..+..++.+.|++++|...+++.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~a   64 (111)
T 2l6j_A            6 KQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQG   64 (111)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            34444444444444444444444444431 223344444444444444444444444444

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.59  E-value=0.0039  Score=60.26  Aligned_cols=150  Identities=9%  Similarity=-0.044  Sum_probs=116.2

Q ss_pred             HHHHHHHHccCCC--C-ChhHHHHHHHHHHhCCC----------hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC--
Q 047393           97 IDDADLAFKSTPE--K-NSLSWTFIISARVNHGH----------PSEALDLFKDKQWRYTSMNPTTFRSALKAYALMG--  161 (373)
Q Consensus        97 ~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~----------~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g--  161 (373)
                      -++|++.++.+.+  | +..+|+.--..+...|+          ++++++.++++.+.. +-+..+|+.---.+.+.|  
T Consensus        45 ~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~~  123 (567)
T 1dce_A           45 DESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEP  123 (567)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSC
T ss_pred             CHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccc
Confidence            3566777766652  3 45566655555555555          888999999988774 447778888877888888  


Q ss_pred             CHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcC-CHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHc----------
Q 047393          162 LVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAG-MFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVH----------  229 (373)
Q Consensus       162 ~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~----------  229 (373)
                      +++++...++.+.+..  +-+...|+.-.-.+.+.| ..+++++.++++++..| |...|+.....+.+.          
T Consensus       124 ~~~~el~~~~k~l~~d--~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~~  201 (567)
T 1dce_A          124 NWARELELCARFLEAD--ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQG  201 (567)
T ss_dssp             CHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             cHHHHHHHHHHHHhhc--cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccccc
Confidence            7799999999997762  447788887777778888 89999999999888777 678898888887763          


Q ss_pred             ----CCHHHHHHHHHHHhccCCCC
Q 047393          230 ----GDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       230 ----g~~~~A~~~~~~m~~~~P~~  249 (373)
                          +.++++.+.+++++..+|++
T Consensus       202 ~~~~~~~~eel~~~~~ai~~~P~~  225 (567)
T 1dce_A          202 RLPENVLLKELELVQNAFFTDPND  225 (567)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHCSSC
T ss_pred             cccHHHHHHHHHHHHHHHhhCCCC
Confidence                56799999999999999998

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.54  E-value=0.00013  Score=53.31  Aligned_cols=97  Identities=7%  Similarity=-0.089  Sum_probs=69.8

Q ss_pred             CChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCc-------h
Q 047393            9 DVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISH-------P   81 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~-------~   81 (373)
                      ++...|..+...+...|++++|++.|++..+.. +.+...+..+..++.+.|++++|...++..++..  |+       .
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~   78 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT--STAEHVAIRS   78 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC--SSTTSHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCccHHHHHH
Confidence            345677888888888999999999998887742 2356677788888888889999988888887653  43       4


Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHccCC
Q 047393           82 AVGNCLININSRCGKIDDADLAFKSTP  108 (373)
Q Consensus        82 ~~~~~li~~~~~~g~~~~A~~~~~~m~  108 (373)
                      ..+..+..++...|+.+.|...|++++
T Consensus        79 ~~~~~~~~~~~~~~~~~~a~~~~~~~~  105 (111)
T 2l6j_A           79 KLQYRLELAQGAVGSVQIPVVEVDELP  105 (111)
T ss_dssp             HHHHHHHHHHHHHHCCCCCSSSSSSCS
T ss_pred             HHHHHHHHHHHHHHhHhhhHhHHHHhH
Confidence            455556666666666666666555543

>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=97.51  E-value=9.5e-05  Score=58.31  Aligned_cols=89  Identities=7%  Similarity=-0.069  Sum_probs=66.5

Q ss_pred             ccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCC----------HHHHHHHHHhhCCCCC-CHHHHHHHHHHHH
Q 047393          159 LMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGM----------FEEVLEFIKGIVPGKL-CPLIWRTLLLSSR  227 (373)
Q Consensus       159 ~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~----------~~~A~~~~~~~~~~~p-~~~~~~~li~~~~  227 (373)
                      +.+.+++|.+.++...+..  +-+...|+.+-.++...++          +++|...|++++++.| +...|..+..+|.
T Consensus        14 r~~~feeA~~~~~~Ai~l~--P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~   91 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHH
Confidence            4455666777777665542  3355666666666666654          4589999999888888 4678999999998


Q ss_pred             HcC-----------CHHHHHHHHHHHhccCCCC
Q 047393          228 VHG-----------DMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       228 ~~g-----------~~~~A~~~~~~m~~~~P~~  249 (373)
                      ..|           ++++|.+.|++.++++|++
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~  124 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVDEQPDN  124 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHHhCCCC
Confidence            764           8999999999999999876

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=97.48  E-value=0.001  Score=52.50  Aligned_cols=102  Identities=12%  Similarity=0.002  Sum_probs=58.8

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCC--------H-----HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCC
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLCCGFID--------S-----YSICDILNSCLNPILLNVGTQAQAYMTKRGLI   78 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~--------~-----~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~   78 (373)
                      ..+...-..+.+.|++++|++.|++..+.  .|+        .     ..|+.+..++.+.|++++|...++..++.   
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l--~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l---   86 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAMEI--SHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHY---   86 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---
Confidence            34556667778888999999988888763  333        1     14555555555555555555555544432   


Q ss_pred             CchhHHHHHHHHhHhcCCHHHHHHHHccCCCCChhHH----HHHHHHHHhCCChHHHHHHHHHHHH
Q 047393           79 SHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSW----TFIISARVNHGHPSEALDLFKDKQW  140 (373)
Q Consensus        79 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~----~~li~~~~~~g~~~~A~~l~~~m~~  140 (373)
                                  |-+.+          ++...+...|    .....++...|++++|+..|++..+
T Consensus        87 ------------~n~~~----------e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           87 ------------FNRRG----------ELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             ------------HHHHC----------CTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ------------hhccc----------cCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence                        00000          0111234455    6666777777777777777777654

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=97.46  E-value=0.0082  Score=53.88  Aligned_cols=170  Identities=9%  Similarity=0.001  Sum_probs=113.1

Q ss_pred             CCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcC-CHHHHHHHHccCCC---CChhHHHHHHHHHHhC-C-ChHHH
Q 047393           58 NPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCG-KIDDADLAFKSTPE---KNSLSWTFIISARVNH-G-HPSEA  131 (373)
Q Consensus        58 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~-g-~~~~A  131 (373)
                      +...-++|.++++.++... +-+..+|+.--..+...| .+++++++++.+..   .+..+|+--...+.+. + +++++
T Consensus        66 ~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~E  144 (349)
T 3q7a_A           66 KEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSE  144 (349)
T ss_dssp             TTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHH
T ss_pred             hCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHH
Confidence            3344567888888888765 445667777666666677 48888888887763   3566677666666555 6 78888


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHH--------HHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCC-----
Q 047393          132 LDLFKDKQWRYTSMNPTTFRSALKAYALMGLVG--------EAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGM-----  198 (373)
Q Consensus       132 ~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~--------~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~-----  198 (373)
                      +++++++.+.. +-|..+|+.-.-...+.|.++        ++++.++++.+..  +-|...|+.-...+.+.++     
T Consensus       145 L~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d--p~N~SAW~~R~~lL~~l~~~~~~~  221 (349)
T 3q7a_A          145 IEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD--GRNNSAWGWRWYLRVSRPGAETSS  221 (349)
T ss_dssp             HHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHTTSTTCCCCH
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhccccccch
Confidence            88888887764 346667765555544444444        7777777776652  3466677766666666665     


Q ss_pred             --HHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCC
Q 047393          199 --FEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGD  231 (373)
Q Consensus       199 --~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~  231 (373)
                        ++++++.+++++...| |...|+-+-..+.+.|+
T Consensus       222 ~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          222 RSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCC
Confidence              5677777777666556 56667665555555554

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.41  E-value=0.00094  Score=51.52  Aligned_cols=110  Identities=7%  Similarity=-0.107  Sum_probs=59.2

Q ss_pred             CCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHh----cCCHHHH
Q 047393           25 KDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSR----CGKIDDA  100 (373)
Q Consensus        25 g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A  100 (373)
                      +++++|++.|++..+.| .|+..    |-..|...+.+++|.++|+...+.|   +...+..|-..|.+    .+++++|
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            45667777777776665 23322    4455556666666777777666654   34455555555555    4555555


Q ss_pred             HHHHccCCC-CChhHHHHHHHHHHh----CCChHHHHHHHHHHHHcC
Q 047393          101 DLAFKSTPE-KNSLSWTFIISARVN----HGHPSEALDLFKDKQWRY  142 (373)
Q Consensus       101 ~~~~~~m~~-~d~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g  142 (373)
                      .+.|++..+ .++.++..|...|..    .+++++|.+.|++..+.|
T Consensus        81 ~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           81 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            555544332 244444444444444    445555555555444443

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=97.36  E-value=0.0047  Score=59.67  Aligned_cols=168  Identities=9%  Similarity=-0.061  Sum_probs=109.1

Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCC----------HHHHHHHHccCCC---CChhHHHHHHHHHHhCC--C
Q 047393           63 NVGTQAQAYMTKRGLISHPAVGNCLININSRCGK----------IDDADLAFKSTPE---KNSLSWTFIISARVNHG--H  127 (373)
Q Consensus        63 ~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g--~  127 (373)
                      ++|.+.++.+++.. +-+..+|+.--..+.+.|+          ++++++.++.+.+   .+..+|+--.-.+.+.|  +
T Consensus        46 eeal~~~~~~l~~n-P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK~y~aW~hR~w~l~~l~~~~  124 (567)
T 1dce_A           46 ESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPN  124 (567)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCC
T ss_pred             HHHHHHHHHHHHHC-chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHccccc
Confidence            45566666665544 2334455544444444444          6677777766652   35566666666666677  5


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC-CHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhc----------
Q 047393          128 PSEALDLFKDKQWRYTSMNPTTFRSALKAYALMG-LVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRA----------  196 (373)
Q Consensus       128 ~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g-~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~----------  196 (373)
                      ++++++.++++.+.. +-|..+|+.--....+.| ..+++.+.++++.+..  +-|...|+.....+.+.          
T Consensus       125 ~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~--p~n~saW~~r~~ll~~l~~~~~~~~~~  201 (567)
T 1dce_A          125 WARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN--FSNYSSWHYRSCLLPQLHPQPDSGPQG  201 (567)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT--CCCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             HHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC--CCCccHHHHHHHHHHhhcccccccccc
Confidence            588888888887764 346777777766667777 7788888887775431  33666777666665553          


Q ss_pred             ----CCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHH
Q 047393          197 ----GMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKL  234 (373)
Q Consensus       197 ----g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~  234 (373)
                          +.+++|.+.+++++...| |...|+-+-..+.+.++.++
T Consensus       202 ~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          202 RLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                557889999988887777 56788887777777776444

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.36  E-value=0.0005  Score=50.85  Aligned_cols=64  Identities=14%  Similarity=0.121  Sum_probs=33.5

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          182 SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       182 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      +...+..+...|.+.|++++|...|++++...| +...|..+..++...|++++|...|++..++
T Consensus        18 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~   82 (115)
T 2kat_A           18 NMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAA   82 (115)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            344455555555555555555555555444333 3445555555555555555555555555543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.30  E-value=0.0015  Score=48.17  Aligned_cols=79  Identities=9%  Similarity=-0.087  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhh
Q 047393          130 EALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGI  209 (373)
Q Consensus       130 ~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  209 (373)
                      +|++.|++..+.. +.+...+..+...+...|++++|...+++..+..  +.+...|..+..+|...|+.++|...|+++
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD--PTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            4555666665542 3356666677777777777777777777775541  234566677777777777777777777774


Q ss_pred             CC
Q 047393          210 VP  211 (373)
Q Consensus       210 ~~  211 (373)
                      +.
T Consensus        80 l~   81 (115)
T 2kat_A           80 LA   81 (115)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.29  E-value=0.0026  Score=44.21  Aligned_cols=83  Identities=12%  Similarity=0.016  Sum_probs=60.8

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      +...|..+...+...|++++|++.|++..+.. +.+...+..+..++.+.|++++|...+++..+.. +.+...+..+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~   85 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            45677888888888999999999998887642 2255677778888888888888888888887754 344566666666


Q ss_pred             HhHhc
Q 047393           90 INSRC   94 (373)
Q Consensus        90 ~~~~~   94 (373)
                      ++.+.
T Consensus        86 ~~~~~   90 (91)
T 1na3_A           86 AKQKQ   90 (91)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            55443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.24  E-value=0.0057  Score=42.36  Aligned_cols=60  Identities=18%  Similarity=0.200  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhH
Q 047393          114 SWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSME  174 (373)
Q Consensus       114 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~  174 (373)
                      .|..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++++|...+++..
T Consensus        11 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~   70 (91)
T 1na3_A           11 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKAL   70 (91)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            34444444445555555555555444432 2233444444444555555555555555443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.19  E-value=0.0022  Score=46.17  Aligned_cols=62  Identities=16%  Similarity=0.142  Sum_probs=31.7

Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhH
Q 047393          112 SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSME  174 (373)
Q Consensus       112 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~  174 (373)
                      ...|..+...|.+.|++++|+..|++..+.. +.+...|..+-.+|...|++++|...|++..
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4445555555555555555555555554442 2233445555555555555555555555443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.16  E-value=0.00056  Score=49.40  Aligned_cols=64  Identities=8%  Similarity=-0.094  Sum_probs=37.0

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          182 SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       182 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      +...+..+...|.+.|++++|.+.|++++...| ++..|..+..+|...|++++|...+++.+++
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            344555555566666666666666665554444 3455566666666666666666666665553

>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=97.16  E-value=0.0059  Score=56.79  Aligned_cols=93  Identities=9%  Similarity=-0.006  Sum_probs=74.0

Q ss_pred             HHHHHHHccCCHHHHHHHHHHhHHHcC--CCC----CHhHHHHHHHHHHhcCCHHHHHHHHHhhCC--------CCCCH-
Q 047393          152 SALKAYALMGLVGEAYRLFLSMEEVYH--IEP----SEEHYSIMVEALGRAGMFEEVLEFIKGIVP--------GKLCP-  216 (373)
Q Consensus       152 ~ll~~~~~~g~~~~a~~~~~~m~~~~g--~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--------~~p~~-  216 (373)
                      ..+..+.+.|++++|..++++......  +.|    ...+++.+..+|...|++++|+.++++++.        ..|++ 
T Consensus       292 ~~ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a  371 (429)
T 3qwp_A          292 KKIEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRG  371 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHH
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHH
Confidence            345556778999999999998864321  222    246889999999999999999999988654        23333 


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          217 LIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       217 ~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      .+++.|...|...|++++|..++++..+
T Consensus       372 ~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          372 VQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            6899999999999999999999999886

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.08  E-value=0.0099  Score=45.62  Aligned_cols=109  Identities=7%  Similarity=-0.139  Sum_probs=80.0

Q ss_pred             CchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCC-CCChhHHHHHHHHHHh----CCChHHHHHH
Q 047393           60 ILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTP-EKNSLSWTFIISARVN----HGHPSEALDL  134 (373)
Q Consensus        60 ~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~d~~~~~~li~~~~~----~g~~~~A~~l  134 (373)
                      ++.++|.++|+...+.| .|+..    |-..|...+.+++|.+.|++.. ..+..++..|-..|..    .+++++|.++
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~   83 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQY   83 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHH
Confidence            46788899999888887 33333    6677777778888888887654 3467777777777777    7788888888


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHhHHH
Q 047393          135 FKDKQWRYTSMNPTTFRSALKAYAL----MGLVGEAYRLFLSMEEV  176 (373)
Q Consensus       135 ~~~m~~~g~~p~~~t~~~ll~~~~~----~g~~~~a~~~~~~m~~~  176 (373)
                      |++..+.|   +...+..+-..|..    .++.++|..+|+...+.
T Consensus        84 ~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           84 YSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHC
Confidence            88877765   56666777777766    67888888888877543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=97.05  E-value=0.034  Score=52.64  Aligned_cols=183  Identities=11%  Similarity=0.039  Sum_probs=122.4

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcC---------CCC--
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRG---------LIS--   79 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g---------~~~--   79 (373)
                      ...|-..+.-+.+.|++++|.++|++....   |.....-.....+.+.++   .   ++.+.+.-         ..+  
T Consensus       213 ~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~~l~~~y~~~~e~~~---~---~~~l~~~~~~~~~~~~~~~~~~  283 (493)
T 2uy1_A          213 EEVYFFYSEYLIGIGQKEKAKKVVERGIEM---SDGMFLSLYYGLVMDEEA---V---YGDLKRKYSMGEAESAEKVFSK  283 (493)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHTTCTH---H---HHHHHHHTC----------CHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCcHHHHHHHHhhcchhH---H---HHHHHHHHHhhccchhhhhccc
Confidence            566777788888999999999999999987   544332221111112221   1   22222210         011  


Q ss_pred             -chhHHHHHHHHhHhcCCHHHHHHHHccCCCCC--hhHHH--HHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 047393           80 -HPAVGNCLININSRCGKIDDADLAFKSTPEKN--SLSWT--FIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSAL  154 (373)
Q Consensus        80 -~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d--~~~~~--~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll  154 (373)
                       ...+|-..+....+.+.++.|..+|++...|.  ...|-  +.+... ..++.+.|..+|+...+.- +-+...+...+
T Consensus       284 ~~~~lw~~y~~~~~r~~~~~~AR~i~~~A~~~~~~~~v~i~~A~lE~~-~~~d~~~ar~ife~al~~~-~~~~~~~~~yi  361 (493)
T 2uy1_A          284 ELDLLRINHLNYVLKKRGLELFRKLFIELGNEGVGPHVFIYCAFIEYY-ATGSRATPYNIFSSGLLKH-PDSTLLKEEFF  361 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHCHHHHHHHHHHHTTSCCCHHHHHHHHHHHHH-HHCCSHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHhhCCCCChHHHHHHHHHHHH-HCCChHHHHHHHHHHHHHC-CCCHHHHHHHH
Confidence             13456777777777889999999998874343  23332  222222 2346999999999988763 22344556677


Q ss_pred             HHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhC
Q 047393          155 KAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIV  210 (373)
Q Consensus       155 ~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  210 (373)
                      +...+.|+.+.|..+|+.+.      .....|...++.-.+.|+.+.+..++++++
T Consensus       362 d~e~~~~~~~~aR~l~er~~------k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~  411 (493)
T 2uy1_A          362 LFLLRIGDEENARALFKRLE------KTSRMWDSMIEYEFMVGSMELFRELVDQKM  411 (493)
T ss_dssp             HHHHHHTCHHHHHHHHHHSC------CBHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHH------HHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            77788999999999999872      257788888888888899999999998855

>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=97.00  E-value=0.022  Score=51.27  Aligned_cols=138  Identities=14%  Similarity=0.001  Sum_probs=87.2

Q ss_pred             CChhHHHHHHHHHH--hCCC---hHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHH----ccC-CHHHHH---HHHHHhHH
Q 047393          110 KNSLSWTFIISARV--NHGH---PSEALDLFKDKQWRYTSMN-PTTFRSALKAYA----LMG-LVGEAY---RLFLSMEE  175 (373)
Q Consensus       110 ~d~~~~~~li~~~~--~~g~---~~~A~~l~~~m~~~g~~p~-~~t~~~ll~~~~----~~g-~~~~a~---~~~~~m~~  175 (373)
                      .+..+|...+.+..  ..+.   ..+|..+|++..+.  .|+ ...|..+.-+|.    ..+ ......   ..++....
T Consensus       192 ~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          192 HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            35666666665543  2222   36777788877765  454 233333222221    110 111111   11211111


Q ss_pred             HcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          176 VYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       176 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ....+.+..+|.++...+...|++++|...+++++...|+...|..+-..+.-.|++++|...+++...++|..
T Consensus       270 ~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~  343 (372)
T 3ly7_A          270 LPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGA  343 (372)
T ss_dssp             CGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSH
T ss_pred             cccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc
Confidence            11225577888888777777899999999999988877888888888888889999999999999999988865

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=96.96  E-value=0.0013  Score=51.68  Aligned_cols=97  Identities=10%  Similarity=-0.010  Sum_probs=63.5

Q ss_pred             hCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC----------HHHHHHHHHHhHHHcCCCC-CHhHHHHHHHH
Q 047393          124 NHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGL----------VGEAYRLFLSMEEVYHIEP-SEEHYSIMVEA  192 (373)
Q Consensus       124 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~----------~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~  192 (373)
                      +.+++++|.+.+++..+.. +-+...|+.+-.++...++          +++|+..|++..+.   .| +...|..+-.+
T Consensus        14 r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~l---dP~~~~A~~~LG~a   89 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI---DPKKDEAVWCIGNA   89 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHh---CcCcHHHHHHHHHH
Confidence            3445666666666666553 3355566655555555544          45777778777654   45 45677777777


Q ss_pred             HHhc-----------CCHHHHHHHHHhhCCCCCCHHHHHHHHH
Q 047393          193 LGRA-----------GMFEEVLEFIKGIVPGKLCPLIWRTLLL  224 (373)
Q Consensus       193 ~~~~-----------g~~~~A~~~~~~~~~~~p~~~~~~~li~  224 (373)
                      |...           |++++|.+.|++++.+.|+...|...+.
T Consensus        90 y~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y~~al~  132 (158)
T 1zu2_A           90 YTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHhcccCcchhhhhccHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            7766           4788899999888888887666554443

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.95  E-value=0.004  Score=57.95  Aligned_cols=86  Identities=14%  Similarity=0.008  Sum_probs=69.7

Q ss_pred             ccCCHHHHHHHHHHhHHHcC--CCC---C-HhHHHHHHHHHHhcCCHHHHHHHHHhhCC--------CCCCH-HHHHHHH
Q 047393          159 LMGLVGEAYRLFLSMEEVYH--IEP---S-EEHYSIMVEALGRAGMFEEVLEFIKGIVP--------GKLCP-LIWRTLL  223 (373)
Q Consensus       159 ~~g~~~~a~~~~~~m~~~~g--~~p---~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~--------~~p~~-~~~~~li  223 (373)
                      ..|++++|..++++..+...  +.|   + ..+++.|..+|...|++++|..++++++.        ..|++ .+++.|.
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            45789999999988765321  222   2 47889999999999999999999988764        23443 6899999


Q ss_pred             HHHHHcCCHHHHHHHHHHHhc
Q 047393          224 LSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       224 ~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      ..|...|++++|..++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999999886

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.83  E-value=0.0012  Score=47.19  Aligned_cols=53  Identities=17%  Similarity=0.157  Sum_probs=24.3

Q ss_pred             HHHhCCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHHccCCHHHHHHHHHHhH
Q 047393          121 ARVNHGHPSEALDLFKDKQWRYTSMNPT-TFRSALKAYALMGLVGEAYRLFLSME  174 (373)
Q Consensus       121 ~~~~~g~~~~A~~l~~~m~~~g~~p~~~-t~~~ll~~~~~~g~~~~a~~~~~~m~  174 (373)
                      .+.+.|++++|.+.|++..+.. +.+.. .+..+-.++...|++++|...|++..
T Consensus         9 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al   62 (99)
T 2kc7_A            9 ELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAI   62 (99)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444455555555555544432 11233 44444444444555555555555443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.70  E-value=0.12  Score=51.66  Aligned_cols=154  Identities=11%  Similarity=0.066  Sum_probs=100.6

Q ss_pred             HHHHHcCCHhHHHH-HHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCH
Q 047393           19 KACIKAKDYEMVHE-LLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKI   97 (373)
Q Consensus        19 ~~~~~~g~~~~A~~-l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~   97 (373)
                      ......+++++|.+ ++..     + |+......++..+.+.|.+++|.++.+.       |.     .-.....+.|++
T Consensus       607 ~~~~~~~~~~~a~~~~l~~-----i-~~~~~~~~~~~~l~~~~~~~~a~~~~~~-------~~-----~~f~~~l~~~~~  668 (814)
T 3mkq_A          607 QTLTLRGEIEEAIENVLPN-----V-EGKDSLTKIARFLEGQEYYEEALNISPD-------QD-----QKFELALKVGQL  668 (814)
T ss_dssp             HHHHHTTCHHHHHHHTGGG-----C-CCHHHHHHHHHHHHHTTCHHHHHHHCCC-------HH-----HHHHHHHHHTCH
T ss_pred             hHHHHhCCHHHHHHHHHhc-----C-CchHHHHHHHHHHHhCCChHHheecCCC-------cc-----hheehhhhcCCH
Confidence            33456889999877 4422     1 2122336677778888888888866632       11     113345678999


Q ss_pred             HHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHc
Q 047393           98 DDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVY  177 (373)
Q Consensus        98 ~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~  177 (373)
                      ++|.++.+.+.  +...|..+...+.+.|+++.|.+.|.++..         |..+...+...|+.+...++-+..... 
T Consensus       669 ~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~-  736 (814)
T 3mkq_A          669 TLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETT-  736 (814)
T ss_dssp             HHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHT-
T ss_pred             HHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHc-
Confidence            99999988874  668999999999999999999999998753         233444444566666555554444222 


Q ss_pred             CCCCCHhHHHHHHHHHHhcCCHHHHHHHHHh
Q 047393          178 HIEPSEEHYSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       178 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                      |      -++....+|.+.|++++|.+++.+
T Consensus       737 ~------~~~~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          737 G------KFNLAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             T------CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             C------chHHHHHHHHHcCCHHHHHHHHHH
Confidence            1      123344456666777777777666

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.68  E-value=0.0033  Score=44.74  Aligned_cols=59  Identities=14%  Similarity=0.175  Sum_probs=34.2

Q ss_pred             HHHHHccCCHHHHHHHHHHhHHHcCCCCCHh-HHHHHHHHHHhcCCHHHHHHHHHhhCCCCC
Q 047393          154 LKAYALMGLVGEAYRLFLSMEEVYHIEPSEE-HYSIMVEALGRAGMFEEVLEFIKGIVPGKL  214 (373)
Q Consensus       154 l~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~~p  214 (373)
                      ...+.+.|++++|...++...+..  +.+.. .+..+..+|...|++++|.+.|++++...|
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p   66 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE--PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNP   66 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC--SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            344555666666666666665431  22344 556666666666666666666666555444

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.61  E-value=0.009  Score=42.46  Aligned_cols=69  Identities=9%  Similarity=-0.069  Sum_probs=50.4

Q ss_pred             CCCHhHHHHHHHHHHhcCC---HHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          180 EPSEEHYSIMVEALGRAGM---FEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       180 ~p~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      +.|...+..+..++...+.   .++|..++++++...| ++.....+...+.+.|++++|...|+++.+.+|.
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            3456666667766654443   6788888888777666 4667777777888888888888888888887764

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=96.58  E-value=0.012  Score=54.76  Aligned_cols=93  Identities=15%  Similarity=0.071  Sum_probs=73.8

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHc---CCCCC----HHHHHHHHHHHHccCCHHHHHHHHHHhHHH----cC-CCCC-HhH
Q 047393          119 ISARVNHGHPSEALDLFKDKQWR---YTSMN----PTTFRSALKAYALMGLVGEAYRLFLSMEEV----YH-IEPS-EEH  185 (373)
Q Consensus       119 i~~~~~~g~~~~A~~l~~~m~~~---g~~p~----~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~----~g-~~p~-~~~  185 (373)
                      +..+.+.|++++|++++++..+.   -+.|+    ..+++.+..+|...|++++|+.++++....    +| -.|+ ..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            55677889999999999998753   23343    358899999999999999999999987642    22 1233 467


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhCC
Q 047393          186 YSIMVEALGRAGMFEEVLEFIKGIVP  211 (373)
Q Consensus       186 ~~~li~~~~~~g~~~~A~~~~~~~~~  211 (373)
                      ++.|...|...|++++|..++++++.
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            88999999999999999999998764

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.43  E-value=0.11  Score=46.63  Aligned_cols=75  Identities=12%  Similarity=0.025  Sum_probs=47.6

Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHH
Q 047393          144 SMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRT  221 (373)
Q Consensus       144 ~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  221 (373)
                      +.+..+|..+...+...|++++|...+++....   .|+...|..+-..+.-.|+.++|.+.|++++...|...+|.-
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~L---n~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~t~~~  348 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDL---EMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGANTLYW  348 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcChHHH
Confidence            445566666655555567777777777776544   366666656666666677777777777766666666655443

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.30  E-value=0.045  Score=42.53  Aligned_cols=85  Identities=13%  Similarity=0.014  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcC---CHHHHHHHHHhhCCCC-C--CHHHHHHHHHHHHHcCCHHHHH
Q 047393          163 VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAG---MFEEVLEFIKGIVPGK-L--CPLIWRTLLLSSRVHGDMKLAK  236 (373)
Q Consensus       163 ~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~~~-p--~~~~~~~li~~~~~~g~~~~A~  236 (373)
                      +..+.+-|.+.... | .++..+.-.+.-++++.+   +++++..+|++.++.. |  +...+..|.-++.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~-~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHT-T-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHH
Confidence            34455555554332 2 356667767777777777   5557887777755544 5  3456666777889999999999


Q ss_pred             HHHHHHhccCCCC
Q 047393          237 YALDKLLELDPGM  249 (373)
Q Consensus       237 ~~~~~m~~~~P~~  249 (373)
                      +.++.+++++|++
T Consensus        92 ~y~~~lL~ieP~n  104 (152)
T 1pc2_A           92 KYVRGLLQTEPQN  104 (152)
T ss_dssp             HHHHHHHHHCTTC
T ss_pred             HHHHHHHhcCCCC
Confidence            9999999988865

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=96.30  E-value=0.0095  Score=55.37  Aligned_cols=64  Identities=6%  Similarity=-0.126  Sum_probs=41.1

Q ss_pred             hhHHHHHHHHHHhCCChHHHHHHHHHHHHc---CCC---CC-HHHHHHHHHHHHccCCHHHHHHHHHHhHH
Q 047393          112 SLSWTFIISARVNHGHPSEALDLFKDKQWR---YTS---MN-PTTFRSALKAYALMGLVGEAYRLFLSMEE  175 (373)
Q Consensus       112 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~---g~~---p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  175 (373)
                      ..+++.|..+|...|++++|+.++++.++.   -..   |+ ..+++.+...|...|++++|..++++..+
T Consensus       340 a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          340 LHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            356666777777777777777777665432   112   22 34677777777777777777777776543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.87  E-value=0.021  Score=41.36  Aligned_cols=66  Identities=18%  Similarity=0.106  Sum_probs=38.0

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhhCCC--------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          184 EHYSIMVEALGRAGMFEEVLEFIKGIVPG--------KLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       184 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~--------~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .-+..|...+.+.|+++.|...|+.++..        .+....+..|..++.+.|++++|...++++.+++|++
T Consensus         6 ~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~   79 (104)
T 2v5f_A            6 EDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEH   79 (104)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCC
Confidence            33444555555555555555555554330        1234566666667777777777777777777666654

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.69  E-value=0.13  Score=51.53  Aligned_cols=154  Identities=12%  Similarity=-0.041  Sum_probs=99.8

Q ss_pred             cCCCchHHHHH-HHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHH
Q 047393           57 LNPILLNVGTQ-AQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLF  135 (373)
Q Consensus        57 ~~~~~~~~a~~-~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~  135 (373)
                      ...+++++|.+ ++..     + |+......++..+.+.|.+++|.++.+.-    .    .-.......|++++|+++.
T Consensus       610 ~~~~~~~~a~~~~l~~-----i-~~~~~~~~~~~~l~~~~~~~~a~~~~~~~----~----~~f~~~l~~~~~~~A~~~~  675 (814)
T 3mkq_A          610 TLRGEIEEAIENVLPN-----V-EGKDSLTKIARFLEGQEYYEEALNISPDQ----D----QKFELALKVGQLTLARDLL  675 (814)
T ss_dssp             HHTTCHHHHHHHTGGG-----C-CCHHHHHHHHHHHHHTTCHHHHHHHCCCH----H----HHHHHHHHHTCHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHhc-----C-CchHHHHHHHHHHHhCCChHHheecCCCc----c----hheehhhhcCCHHHHHHHH
Confidence            34677888766 4411     1 21222377888889999999999877431    1    1123346789999999886


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC
Q 047393          136 KDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC  215 (373)
Q Consensus       136 ~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  215 (373)
                      +.+      .+...|..+...+.+.|+++.|.+.|..+ +.         |..+...|...|+.+...++-+.++. ..+
T Consensus       676 ~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~-~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~-~~~  738 (814)
T 3mkq_A          676 TDE------SAEMKWRALGDASLQRFNFKLAIEAFTNA-HD---------LESLFLLHSSFNNKEGLVTLAKDAET-TGK  738 (814)
T ss_dssp             TTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHH-TC---------HHHHHHHHHHTTCHHHHHHHHHHHHH-TTC
T ss_pred             Hhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHc-cC---------hhhhHHHHHHcCCHHHHHHHHHHHHH-cCc
Confidence            543      47889999999999999999999999987 32         33455555556666655444443222 111


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          216 PLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       216 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                         ++....++.+.|++++|.+++.++.+
T Consensus       739 ---~~~A~~~~~~~g~~~~a~~~~~~~~~  764 (814)
T 3mkq_A          739 ---FNLAFNAYWIAGDIQGAKDLLIKSQR  764 (814)
T ss_dssp             ---HHHHHHHHHHHTCHHHHHHHHHHTTC
T ss_pred             ---hHHHHHHHHHcCCHHHHHHHHHHcCC
Confidence               23344455667777777777766554

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.29  E-value=0.16  Score=39.36  Aligned_cols=85  Identities=8%  Similarity=0.027  Sum_probs=64.1

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC---CHHHHHHHHHHhHHHcCCCC--CHhHHHHHHHHHHhcCCHHHHH
Q 047393          129 SEALDLFKDKQWRYTSMNPTTFRSALKAYALMG---LVGEAYRLFLSMEEVYHIEP--SEEHYSIMVEALGRAGMFEEVL  203 (373)
Q Consensus       129 ~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g---~~~~a~~~~~~m~~~~g~~p--~~~~~~~li~~~~~~g~~~~A~  203 (373)
                      ..+.+-|.+..+.|. ++..+-..+.-++++++   +++++..+++...+. . .|  ....+-.|--+|.+.|++++|.
T Consensus        15 ~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~-~-~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           15 LKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPK-G-SKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHH-S-CHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-C-CccchHHHHHHHHHHHHHccCHHHHH
Confidence            445566666666553 78888888888888888   666999999998776 2 35  3445556677889999999999


Q ss_pred             HHHHhhCCCCCCH
Q 047393          204 EFIKGIVPGKLCP  216 (373)
Q Consensus       204 ~~~~~~~~~~p~~  216 (373)
                      +.++.+++++|+.
T Consensus        92 ~y~~~lL~ieP~n  104 (152)
T 1pc2_A           92 KYVRGLLQTEPQN  104 (152)
T ss_dssp             HHHHHHHHHCTTC
T ss_pred             HHHHHHHhcCCCC
Confidence            9999988888843

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.15  E-value=0.086  Score=37.96  Aligned_cols=59  Identities=8%  Similarity=-0.115  Sum_probs=27.4

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHcC------CCCCHHHHHHHHHHHHccCCHHHHHHHHHHh
Q 047393          115 WTFIISARVNHGHPSEALDLFKDKQWRY------TSMNPTTFRSALKAYALMGLVGEAYRLFLSM  173 (373)
Q Consensus       115 ~~~li~~~~~~g~~~~A~~l~~~m~~~g------~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m  173 (373)
                      +..|...+.+.|++..|...|+...+.-      -.+....+..+..++.+.|+++.|..++++.
T Consensus         8 c~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~a   72 (104)
T 2v5f_A            8 CFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKL   72 (104)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            3344555555555555555555543320      0122334444444444445555554444444

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.90  E-value=0.29  Score=36.53  Aligned_cols=87  Identities=13%  Similarity=0.003  Sum_probs=58.2

Q ss_pred             CCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHH---HHHHHHhhCCCC-C--CHHHHHHHHHHHHHcCCHHH
Q 047393          161 GLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEE---VLEFIKGIVPGK-L--CPLIWRTLLLSSRVHGDMKL  234 (373)
Q Consensus       161 g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~---A~~~~~~~~~~~-p--~~~~~~~li~~~~~~g~~~~  234 (373)
                      ..+..+.+-|...... | .|+..+--.+.-++.+.....+   +..+++...+.. |  .......|.-++.+.|++++
T Consensus        15 ~~l~~~~~~y~~e~~~-~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~   92 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEK   92 (126)
T ss_dssp             HHHHHHHHHHHHHHHH-S-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHH
Confidence            3444555555554333 3 2666666666667777766655   777888766644 4  23455556678889999999


Q ss_pred             HHHHHHHHhccCCCC
Q 047393          235 AKYALDKLLELDPGM  249 (373)
Q Consensus       235 A~~~~~~m~~~~P~~  249 (373)
                      |.+.++.+++.+|++
T Consensus        93 A~~~~~~lL~~eP~n  107 (126)
T 1nzn_A           93 ALKYVRGLLQTEPQN  107 (126)
T ss_dssp             HHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHHhCCCC
Confidence            999999999988865

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=94.50  E-value=0.22  Score=35.01  Aligned_cols=64  Identities=8%  Similarity=-0.061  Sum_probs=33.3

Q ss_pred             ChhHHHHHHHHHHhCCC---hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHH
Q 047393          111 NSLSWTFIISARVNHGH---PSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEE  175 (373)
Q Consensus       111 d~~~~~~li~~~~~~g~---~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~  175 (373)
                      |...+..+..++...++   .++|..++++..+.. +-+..+...+-..+.+.|++++|...|+.+.+
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLD   71 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34445555555443332   456666666655542 22344455555555566666666666666543

>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=93.81  E-value=0.14  Score=44.32  Aligned_cols=65  Identities=17%  Similarity=0.138  Sum_probs=40.2

Q ss_pred             HhHHHHHHHHHHhc-----CCHHHHHHHHHhhCCCCCC--HHHHHHHHHHHHHc-CCHHHHHHHHHHHhccCC
Q 047393          183 EEHYSIMVEALGRA-----GMFEEVLEFIKGIVPGKLC--PLIWRTLLLSSRVH-GDMKLAKYALDKLLELDP  247 (373)
Q Consensus       183 ~~~~~~li~~~~~~-----g~~~~A~~~~~~~~~~~p~--~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~~P  247 (373)
                      ...|..+...|.+.     |+.++|.+.|++++.+.|+  ..++......+++. |+.++|.+.+++.+..+|
T Consensus       199 GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p  271 (301)
T 3u64_A          199 GAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDP  271 (301)
T ss_dssp             HHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCG
T ss_pred             CHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCC
Confidence            34566666666663     6666666666666666662  55666666666653 666666666666666443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=93.75  E-value=1.5  Score=34.84  Aligned_cols=126  Identities=16%  Similarity=0.161  Sum_probs=59.1

Q ss_pred             HhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 047393           92 SRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFL  171 (373)
Q Consensus        92 ~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~  171 (373)
                      .+.|+++.|.++.+++  .+...|..|.....+.|+++-|.+.|.+...         |..+.-.|.-.|+.+.-.++-+
T Consensus        16 L~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kla~   84 (177)
T 3mkq_B           16 LEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKMQN   84 (177)
T ss_dssp             HHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHHHH
Confidence            3445555555555444  2445555555555555665555555554432         1222333333455544444433


Q ss_pred             HhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047393          172 SMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKL  242 (373)
Q Consensus       172 ~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  242 (373)
                      ....+ |   +   ++.-...+.-.|+++++.++|.+ ....|..      .-.....|..+.|.++.+.+
T Consensus        85 iA~~~-g---~---~n~af~~~l~lGdv~~~i~lL~~-~~r~~eA------~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           85 IAQTR-E---D---FGSMLLNTFYNNSTKERSSIFAE-GGSLPLA------YAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHT-T---C---HHHHHHHHHHHTCHHHHHHHHHH-TTCHHHH------HHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHC-c---c---HHHHHHHHHHcCCHHHHHHHHHH-CCChHHH------HHHHHHcCcHHHHHHHHHHh
Confidence            33222 1   1   23333444455666666666666 3321111      11112245666666666554

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=93.73  E-value=2.1  Score=33.99  Aligned_cols=126  Identities=13%  Similarity=0.052  Sum_probs=87.1

Q ss_pred             HcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHH
Q 047393           56 CLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLF  135 (373)
Q Consensus        56 ~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~  135 (373)
                      ..+.|+++.|.++.+.+      .+...|..|.+...+.|+++-|++.|.+...     +..+.-.|.-.|+.++-..+-
T Consensus        15 AL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D-----~~~L~~Ly~~tg~~e~L~kla   83 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS-----FDKLSFLYLVTGDVNKLSKMQ   83 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC-----HHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC-----HHHHHHHHHHhCCHHHHHHHH
Confidence            34678999999887765      4678899999999999999999999988763     444555566677777665554


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHh
Q 047393          136 KDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKG  208 (373)
Q Consensus       136 ~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  208 (373)
                      +.....|      -++.....+...|+++++.++|.+.    |.-|....      .....|..+.|.++.+.
T Consensus        84 ~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~----~r~~eA~~------~A~t~g~~~~a~~~~~~  140 (177)
T 3mkq_B           84 NIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG----GSLPLAYA------VAKANGDEAAASAFLEQ  140 (177)
T ss_dssp             HHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT----TCHHHHHH------HHHHTTCHHHHHHHHHH
T ss_pred             HHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC----CChHHHHH------HHHHcCcHHHHHHHHHH
Confidence            4444443      2455556667789999999998765    32232211      11225777788888877

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=92.22  E-value=2.2  Score=32.86  Aligned_cols=102  Identities=8%  Similarity=0.020  Sum_probs=53.7

Q ss_pred             CChhHHHHHHHHHHhCCCh------HHHHHHHHHHHHcCCCCCHH----HHHHHHH---HHHccCCHHHHHHHHHHhHHH
Q 047393          110 KNSLSWTFIISARVNHGHP------SEALDLFKDKQWRYTSMNPT----TFRSALK---AYALMGLVGEAYRLFLSMEEV  176 (373)
Q Consensus       110 ~d~~~~~~li~~~~~~g~~------~~A~~l~~~m~~~g~~p~~~----t~~~ll~---~~~~~g~~~~a~~~~~~m~~~  176 (373)
                      .|..+|-..+...-+.|++      ++..++|++.... ++|+..    .|.-+.-   .+...+++++|.++|+.+.+.
T Consensus        11 ~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            3566666666666666776      6666666665553 444321    1111100   012235666667777666443


Q ss_pred             cCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC
Q 047393          177 YHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL  214 (373)
Q Consensus       177 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p  214 (373)
                       +-.- ...|.....--.+.|++.+|.+++.+++...|
T Consensus        90 -hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~  125 (161)
T 4h7y_A           90 -CKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGA  125 (161)
T ss_dssp             -CTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             -hHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCC
Confidence             1111 45555555555566666666666666554333

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=91.81  E-value=3.3  Score=31.35  Aligned_cols=119  Identities=12%  Similarity=0.079  Sum_probs=81.5

Q ss_pred             hCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCC----------------CCCHhHHH
Q 047393          124 NHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHI----------------EPSEEHYS  187 (373)
Q Consensus       124 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~----------------~p~~~~~~  187 (373)
                      -.|..++..++..+.....   +..-||-+|.-...+-+-+-..++++.+-+-+.+                ..+...++
T Consensus        19 ldG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis~C~NlKrVi~C~~~~n~~se~vd   95 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEHVN   95 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHHHH
T ss_pred             HhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhhcCcHhhhcHHHHHHHHHHhcchHHHHH
Confidence            4566666666666665542   4555555555555555555555555544222211                12345566


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          188 IMVEALGRAGMFEEVLEFIKGIVP-GKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       188 ~li~~~~~~g~~~~A~~~~~~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      ..++.+...|+-++-.++....+. ..|++...-.+..||.+.|+..+|.+++.++-+.
T Consensus        96 ~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k  154 (172)
T 1wy6_A           96 KALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKK  154 (172)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence            777888889999999999888433 6788999999999999999999999999998774

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=91.76  E-value=3.3  Score=31.32  Aligned_cols=139  Identities=8%  Similarity=-0.038  Sum_probs=85.7

Q ss_pred             HHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHH
Q 047393           22 IKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDAD  101 (373)
Q Consensus        22 ~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~  101 (373)
                      .-.|.+++..++..+....   .+..-||-++.-....-+.+-..++++..-+   -.|          ...+|++....
T Consensus        18 ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGk---iFD----------is~C~NlKrVi   81 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGS---YFD----------LDKCQNLKSVV   81 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGG---GSC----------GGGCSCTHHHH
T ss_pred             HHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhh---hcC----------cHhhhcHHHHH
Confidence            3456777777777666653   2334455555444444444444444443321   112          23455555555


Q ss_pred             HHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCC
Q 047393          102 LAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHI  179 (373)
Q Consensus       102 ~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~  179 (373)
                      ..+-.+.. +....+.-++.....|+-++-.+++..+.. +.+|+......+.+||.+.|+..+|.+++.+..+. |+
T Consensus        82 ~C~~~~n~-~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k-G~  156 (172)
T 1wy6_A           82 ECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKK-GE  156 (172)
T ss_dssp             HHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHhcc-hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh-hh
Confidence            55544432 334456667788888888888888888544 34778888888889999999999998888888665 54

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=91.35  E-value=0.54  Score=35.08  Aligned_cols=85  Identities=8%  Similarity=0.030  Sum_probs=59.0

Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH---HHHHHHHhHHHcCCCC--CHhHHHHHHHHHHhcCCHHHH
Q 047393          128 PSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGE---AYRLFLSMEEVYHIEP--SEEHYSIMVEALGRAGMFEEV  202 (373)
Q Consensus       128 ~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~---a~~~~~~m~~~~g~~p--~~~~~~~li~~~~~~g~~~~A  202 (373)
                      ...+.+-|.+....|. |+..+-..+.-++.++.+...   +..+++.+.+. + .|  .....-.|.-++.+.|++++|
T Consensus        17 l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~-~-~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           17 LLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPK-G-SKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTT-S-CHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-C-CcchHHHHHHHHHHHHHHhhhHHHH
Confidence            3445555665555553 777777777778888887766   88888887553 1 24  223333566788899999999


Q ss_pred             HHHHHhhCCCCCC
Q 047393          203 LEFIKGIVPGKLC  215 (373)
Q Consensus       203 ~~~~~~~~~~~p~  215 (373)
                      .+.++.+++..|+
T Consensus        94 ~~~~~~lL~~eP~  106 (126)
T 1nzn_A           94 LKYVRGLLQTEPQ  106 (126)
T ss_dssp             HHHHHHHHHHCTT
T ss_pred             HHHHHHHHHhCCC
Confidence            9999997777774

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=91.16  E-value=1.4  Score=40.14  Aligned_cols=67  Identities=13%  Similarity=0.208  Sum_probs=38.4

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHH----HcCCCCCHhH
Q 047393          118 IISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEE----VYHIEPSEEH  185 (373)
Q Consensus       118 li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~----~~g~~p~~~~  185 (373)
                      ++..+...|++++|...+..+.... +-+...+..+|.++.+.|+..+|.+.|+...+    +.|+.|+..+
T Consensus       177 ~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          177 KAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            3444555666666666666555442 44566666666666666666666666665432    3466665543

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=91.03  E-value=1.1  Score=38.67  Aligned_cols=78  Identities=10%  Similarity=-0.099  Sum_probs=34.9

Q ss_pred             hHHHHHHHHHHhcCCCCC---HHHHHHHHHHHcC-----CCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhc-CCHH
Q 047393           28 EMVHELLERIQLCCGFID---SYSICDILNSCLN-----PILLNVGTQAQAYMTKRGLISHPAVGNCLININSRC-GKID   98 (373)
Q Consensus        28 ~~A~~l~~~m~~~g~~p~---~~~~~~ll~~~~~-----~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~-g~~~   98 (373)
                      ..|..++++..+  +.|+   ...|..+...|.+     .|+.+.|.+.|++.++.+-.-+..++......+++. |+.+
T Consensus       180 ~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          180 HAAVMMLERACD--LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             HHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            344444444444  3344   2344444444544     255555555555555443111244444444444442 4444


Q ss_pred             HHHHHHccC
Q 047393           99 DADLAFKST  107 (373)
Q Consensus        99 ~A~~~~~~m  107 (373)
                      +|.+.+++.
T Consensus       258 ~a~~~L~kA  266 (301)
T 3u64_A          258 GFDEALDRA  266 (301)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            444444443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=90.93  E-value=3.1  Score=29.38  Aligned_cols=89  Identities=10%  Similarity=0.005  Sum_probs=65.4

Q ss_pred             CCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHH
Q 047393           59 PILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDK  138 (373)
Q Consensus        59 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m  138 (373)
                      ....++|..+-+.+...+.  ...+--+-+..+...|++++|..+.+.+.-||...|-+|-.  .+.|..+++...+.++
T Consensus        19 ~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~l   94 (115)
T 2uwj_G           19 QHCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGL   94 (115)
T ss_dssp             TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHH
Confidence            3457888888888877653  33333334556788999999999999999999999987764  5778888888888788


Q ss_pred             HHcCCCCCHHHHHH
Q 047393          139 QWRYTSMNPTTFRS  152 (373)
Q Consensus       139 ~~~g~~p~~~t~~~  152 (373)
                      ..+| .|....|..
T Consensus        95 a~sg-~p~~q~Fa~  107 (115)
T 2uwj_G           95 GGSS-DPALADFAA  107 (115)
T ss_dssp             HTCS-SHHHHHHHH
T ss_pred             HhCC-CHHHHHHHH
Confidence            7776 455555543

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=90.68  E-value=3.3  Score=29.29  Aligned_cols=89  Identities=11%  Similarity=-0.000  Sum_probs=64.4

Q ss_pred             CCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHH
Q 047393           59 PILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDK  138 (373)
Q Consensus        59 ~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m  138 (373)
                      ....++|..+-+.+...|.  ...+--+-+..+...|++++|..+.+.+.-||...|-+|-.  .+.|..+++...+.++
T Consensus        20 ~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~l   95 (116)
T 2p58_C           20 NHYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRL   95 (116)
T ss_dssp             TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHH
Confidence            3457888888888877653  33333334556788999999999999999999999988765  4667788888877777


Q ss_pred             HHcCCCCCHHHHHH
Q 047393          139 QWRYTSMNPTTFRS  152 (373)
Q Consensus       139 ~~~g~~p~~~t~~~  152 (373)
                      ..+| .|....|..
T Consensus        96 a~sg-~p~~q~Fa~  108 (116)
T 2p58_C           96 ARSQ-DPRIQTFVN  108 (116)
T ss_dssp             TTCC-CHHHHHHHH
T ss_pred             HhCC-CHHHHHHHH
Confidence            7776 455555543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=89.44  E-value=3.5  Score=40.80  Aligned_cols=47  Identities=17%  Similarity=0.163  Sum_probs=21.7

Q ss_pred             hcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 047393          195 RAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDK  241 (373)
Q Consensus       195 ~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~  241 (373)
                      ..|+++-|+++-+++....| +-.+|..|..+|...|+++.|.-.+.-
T Consensus       349 ~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNS  396 (754)
T 4gns_B          349 NRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINS  396 (754)
T ss_dssp             HTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhc
Confidence            34444444444444443334 234455555555555555554444443

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=89.31  E-value=2  Score=33.05  Aligned_cols=102  Identities=14%  Similarity=0.134  Sum_probs=71.2

Q ss_pred             CHHHHHHHHHHHHccCCH------HHHHHHHHHhHHHcCCCCCH-hHHHHHHH------HHHhcCCHHHHHHHHHhhCCC
Q 047393          146 NPTTFRSALKAYALMGLV------GEAYRLFLSMEEVYHIEPSE-EHYSIMVE------ALGRAGMFEEVLEFIKGIVPG  212 (373)
Q Consensus       146 ~~~t~~~ll~~~~~~g~~------~~a~~~~~~m~~~~g~~p~~-~~~~~li~------~~~~~g~~~~A~~~~~~~~~~  212 (373)
                      |..+|-..+...-+.|++      +...++|++...  .++|+. ..|...|.      .+...+++++|.++|+.+...
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia--~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE--ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH--HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH--cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            566777777777777777      788888888865  457753 12222222      123358999999999986441


Q ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          213 -KLCPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       213 -~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                       +.=...|-....-=.+.|++..|.+++...+++.|..
T Consensus        90 hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           90 CKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             CTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             hHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence             1126677777777789999999999999999977643

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=88.72  E-value=2.1  Score=30.42  Aligned_cols=61  Identities=16%  Similarity=0.156  Sum_probs=45.4

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHH
Q 047393          129 SEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE  191 (373)
Q Consensus       129 ~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  191 (373)
                      -+..+-++.+....+.|+.....+.+.||.+.+++..|.++++.++.+.  .+...+|..+++
T Consensus        27 ~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~--~~~~~iY~~~lq   87 (109)
T 1v54_E           27 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA--GPHKEIYPYVIQ   87 (109)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TTCTTHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh--cCchhhHHHHHH
Confidence            3455556666666788999999999999999999999999998886543  444556777664

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=87.89  E-value=1.8  Score=30.73  Aligned_cols=63  Identities=10%  Similarity=-0.006  Sum_probs=44.7

Q ss_pred             CHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           26 DYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        26 ~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      +.-++.+-++.+....+.|++....+.+++|.|.+++..|.++++-.+.. +.....+|..++.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHH
Confidence            34455666666666778888888888888888888888888888877443 2334556766654

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=87.52  E-value=17  Score=33.42  Aligned_cols=186  Identities=12%  Similarity=0.066  Sum_probs=119.6

Q ss_pred             CCHhHHHHHHHHHHhc-----CCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHH-HcCCCCchhHH--HHHHHHhHhcCC
Q 047393           25 KDYEMVHELLERIQLC-----CGFIDSYSICDILNSCLNPILLNVGTQAQAYMT-KRGLISHPAVG--NCLININSRCGK   96 (373)
Q Consensus        25 g~~~~A~~l~~~m~~~-----g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~-~~g~~~~~~~~--~~li~~~~~~g~   96 (373)
                      |+++.|++.+..+.+.     ...-.......++..|...++++...+.+..+. ++|..+...+.  +.++........
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~  109 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKS  109 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCc
Confidence            6788888877666542     133345567888999999999999888777664 44543333221  223333333333


Q ss_pred             HH--HHHHHHccCC---CC-------ChhHHHHHHHHHHhCCChHHHHHHHHHHHHc--CCCCC---HHHHHHHHHHHHc
Q 047393           97 ID--DADLAFKSTP---EK-------NSLSWTFIISARVNHGHPSEALDLFKDKQWR--YTSMN---PTTFRSALKAYAL  159 (373)
Q Consensus        97 ~~--~A~~~~~~m~---~~-------d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~--g~~p~---~~t~~~ll~~~~~  159 (373)
                      .+  .-..+.+...   +.       .......|...|...|++.+|.+++.++...  |..+.   ...+..-++.|..
T Consensus       110 ~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~  189 (445)
T 4b4t_P          110 LDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSIL  189 (445)
T ss_dssp             THHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH
Confidence            32  2333444332   11       1233456788899999999999999998542  32222   2466777888999


Q ss_pred             cCCHHHHHHHHHHhHHH-cC--CCCC--HhHHHHHHHHHHhcCCHHHHHHHHHhhC
Q 047393          160 MGLVGEAYRLFLSMEEV-YH--IEPS--EEHYSIMVEALGRAGMFEEVLEFIKGIV  210 (373)
Q Consensus       160 ~g~~~~a~~~~~~m~~~-~g--~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~  210 (373)
                      .+++..|..++..+... ..  ..|+  ...+...+..+...+++.+|.+.|.++.
T Consensus       190 ~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          190 KGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            99999999999887421 11  2222  3566777888888899999988887743

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=87.47  E-value=3.2  Score=37.67  Aligned_cols=57  Identities=11%  Similarity=-0.087  Sum_probs=33.9

Q ss_pred             HHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccC
Q 047393           50 CDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKST  107 (373)
Q Consensus        50 ~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  107 (373)
                      ..++.++...|+.+++...+..+.... +.+...|..+|.+|.+.|+..+|++.|++.
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~  231 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRV  231 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            334455556666666666666655443 345556666666666666666666666544

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=86.78  E-value=19  Score=33.14  Aligned_cols=185  Identities=11%  Similarity=0.049  Sum_probs=115.5

Q ss_pred             CchHHHHHHHHHHHHc-----CCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCC---ChhHHHHHHHH----HHhCCC
Q 047393           60 ILLNVGTQAQAYMTKR-----GLISHPAVGNCLININSRCGKIDDADLAFKSTPEK---NSLSWTFIISA----RVNHGH  127 (373)
Q Consensus        60 ~~~~~a~~~~~~m~~~-----g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---d~~~~~~li~~----~~~~g~  127 (373)
                      +++++|.+.+-.+.+.     ...........++..+.+.|+++...+.+..+.+.   -..+-..++..    ......
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~  109 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKS  109 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCc
Confidence            6778887777666543     23445667888999999999999887766544322   11222233332    222333


Q ss_pred             hHHH--HHHHHHHH--HcC-CCC---CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHc-CCCCC---HhHHHHHHHHHHh
Q 047393          128 PSEA--LDLFKDKQ--WRY-TSM---NPTTFRSALKAYALMGLVGEAYRLFLSMEEVY-HIEPS---EEHYSIMVEALGR  195 (373)
Q Consensus       128 ~~~A--~~l~~~m~--~~g-~~p---~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~-g~~p~---~~~~~~li~~~~~  195 (373)
                      .+..  ..+.+...  ..| +-.   .......+...+-..|++.+|..++..+.... |..+.   +..+...+..|..
T Consensus       110 ~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~  189 (445)
T 4b4t_P          110 LDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSIL  189 (445)
T ss_dssp             THHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHH
Confidence            3221  11221111  011 111   12233567778889999999999999986543 22222   3567778889999


Q ss_pred             cCCHHHHHHHHHhhC----CCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          196 AGMFEEVLEFIKGIV----PGKLCP----LIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       196 ~g~~~~A~~~~~~~~----~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      .+++.+|..++.++-    ...+++    ..+..++..+...+++.+|.+.|.++.+
T Consensus       190 ~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          190 KGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            999999999988731    122322    5667777788889999999988887765

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=86.64  E-value=16  Score=38.33  Aligned_cols=118  Identities=14%  Similarity=0.052  Sum_probs=64.5

Q ss_pred             chhHHHHHHHHhHhcCCHHHHHHHHccCCCC--------------------------ChhHHHHHHHHHHhCCChHHHHH
Q 047393           80 HPAVGNCLININSRCGKIDDADLAFKSTPEK--------------------------NSLSWTFIISARVNHGHPSEALD  133 (373)
Q Consensus        80 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--------------------------d~~~~~~li~~~~~~g~~~~A~~  133 (373)
                      +...--.+..+|..+|++++|.+.|.+....                          -..-|.-++..|-+.|.++.+.+
T Consensus       841 ~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~  920 (1139)
T 4fhn_B          841 DPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALE  920 (1139)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHH
T ss_pred             CcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccccccccHHHHHHHHHHHHHHcCCHHHHHH
Confidence            3333334455677777787877777654310                          01124556666667777777766


Q ss_pred             HHHHHHHcCCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHH
Q 047393          134 LFKDKQWRYTSMNP----TTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFE  200 (373)
Q Consensus       134 l~~~m~~~g~~p~~----~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~  200 (373)
                      +-+...+..-.-+.    ..|..++.++...|++++|...+-.+...   ..-......||..+|..|..+
T Consensus       921 fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~---~~r~~cLr~LV~~lce~~~~~  988 (1139)
T 4fhn_B          921 FSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTT---PLKKSCLLDFVNQLTKQGKIN  988 (1139)
T ss_dssp             HHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHS---SSCHHHHHHHHHHHHHHCCHH
T ss_pred             HHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCH---HHHHHHHHHHHHHHHhCCChh
Confidence            65554443211111    14566677777777777777766665322   222344455565556555444

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=86.10  E-value=5.5  Score=29.84  Aligned_cols=69  Identities=13%  Similarity=0.028  Sum_probs=36.0

Q ss_pred             CCHhHHHHHHHHHHhcCCH---HHHHHHHHhhCCCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          181 PSEEHYSIMVEALGRAGMF---EEVLEFIKGIVPGKL--CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       181 p~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      |+..+--.+.-++.+....   .++..++++..+..|  ....+.-|.-|+.+.|++++|.+..+.+.+.+|++
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N  111 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNN  111 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTC
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCC
Confidence            3443333344444444333   234555544333234  13445555566667777777777777777766654

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=83.17  E-value=11  Score=29.42  Aligned_cols=122  Identities=9%  Similarity=0.012  Sum_probs=55.3

Q ss_pred             cCCCCchhHHH--HHHHHhHhcCCHHHHHHHHccCC-----CCCh-------hHHHHHHHHHHhCCChHHHHHHHHHHHH
Q 047393           75 RGLISHPAVGN--CLININSRCGKIDDADLAFKSTP-----EKNS-------LSWTFIISARVNHGHPSEALDLFKDKQW  140 (373)
Q Consensus        75 ~g~~~~~~~~~--~li~~~~~~g~~~~A~~~~~~m~-----~~d~-------~~~~~li~~~~~~g~~~~A~~l~~~m~~  140 (373)
                      .|+.|....|+  .-+..+...|.++.|+-+.+.+.     .+++       .+...+.+++...|++..|...|++.++
T Consensus        12 ~~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           12 SGLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             ---------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            45555444333  23555666777777766655433     2221       2445556667777777777777776533


Q ss_pred             c-CCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCC
Q 047393          141 R-YTSMNP-TTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVP  211 (373)
Q Consensus       141 ~-g~~p~~-~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  211 (373)
                      . ..-|.. .+..++-   .....+           ......++...---+-.+|.+.|+.++|+.+++. ++
T Consensus        92 ~~k~l~k~~s~~~~~~---~~ss~p-----------~s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~-Ip  149 (167)
T 3ffl_A           92 QKKALSKTSKVRPSTG---NSASTP-----------QSQCLPSEIEVKYKLAECYTVLKQDKDAIAILDG-IP  149 (167)
T ss_dssp             HHHCC----------------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHT-SC
T ss_pred             HHHHHhcCCCcccccc---ccCCCc-----------ccccccchHHHHHHHHHHHHHHCCHHHHHHHHhc-CC
Confidence            2 111111 1111110   000000           0011223334444566777788888888888888 65

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=82.67  E-value=7.9  Score=29.10  Aligned_cols=61  Identities=16%  Similarity=0.182  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHH
Q 047393          130 EALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEA  192 (373)
Q Consensus       130 ~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~  192 (373)
                      +...-++.+....+.|+.....+.+.+|.+.+++..|.++++-++.+  +.+...+|..+++-
T Consensus        71 ElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K--~~~~~~iY~y~lqE  131 (152)
T 2y69_E           71 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVIQE  131 (152)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--cCCchhhHHHHHHH
Confidence            44455556666678899999999999999999999999999998654  44556677777653

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=80.31  E-value=41  Score=33.26  Aligned_cols=123  Identities=12%  Similarity=0.031  Sum_probs=72.8

Q ss_pred             HHHHHHHHcCCCc-hHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCC-HHHHHHHHc-----------cCCCCChhH-
Q 047393           49 ICDILNSCLNPIL-LNVGTQAQAYMTKRGLISHPAVGNCLININSRCGK-IDDADLAFK-----------STPEKNSLS-  114 (373)
Q Consensus        49 ~~~ll~~~~~~~~-~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~-~~~A~~~~~-----------~m~~~d~~~-  114 (373)
                      ..+++..+...++ .+.|..+++.+.+....-+.....+++..+.+.++ --+|.+++.           .+...+... 
T Consensus       251 ~~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~  330 (754)
T 4gns_B          251 MYSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSA  330 (754)
T ss_dssp             HHHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHH
T ss_pred             HHHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccc
Confidence            4556666666666 57899999998776422222233444444433332 123333332           222233211 


Q ss_pred             ----H-HHHH----HHHHhCCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHh
Q 047393          115 ----W-TFII----SARVNHGHPSEALDLFKDKQWRYTSMN-PTTFRSALKAYALMGLVGEAYRLFLSM  173 (373)
Q Consensus       115 ----~-~~li----~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m  173 (373)
                          + ..|+    .-+...|+++-|+++-++....  .|+ -.||..|..+|.+.|+++.|+-.+..+
T Consensus       331 ~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          331 RLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             cccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence                1 1122    2345678888888888877665  454 568888888888888888888887776

---

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	373
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.67
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.61
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.6
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.33
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.19
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.15
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.12
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.0
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.97
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.87
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.76
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.76
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.73
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.7
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.69
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.55
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.55
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.49
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.42
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.4
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.4
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.36
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.34
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.28
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.2
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.08
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.03
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.03
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.96
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.95
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.92
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.9
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.88
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.83
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.76
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.66
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.65
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.6
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.6
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.59
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.38
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.37
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.35
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.3
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.26
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.12
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.02
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	96.88
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.64
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	96.62
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.54
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	96.53
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.47
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	96.46
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	93.9
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.36
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	92.31
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	92.17
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	89.23
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	87.42
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	87.02
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	84.78

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=4.5e-14  Score=127.12  Aligned_cols=166  Identities=13%  Similarity=0.095  Sum_probs=104.2

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 047393           81 PAVGNCLININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAY  157 (373)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~  157 (373)
                      ..++..+...|...|++++|...|++..   ..+...+..+...+.+.|++++|.+.|++..+.. +-+..++..+...+
T Consensus       203 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  281 (388)
T d1w3ba_         203 LDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANAL  281 (388)
T ss_dssp             HHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHH
T ss_pred             HHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            3344445555555555555555554433   2244555566666666677777777666665542 23455666666667


Q ss_pred             HccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHH
Q 047393          158 ALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAK  236 (373)
Q Consensus       158 ~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~  236 (373)
                      ...|++++|...++.....  .+.+...+..+...+.+.|++++|.+.|+++++..| ++.+|..+..+|.+.|++++|.
T Consensus       282 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~  359 (388)
T d1w3ba_         282 KEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEAL  359 (388)
T ss_dssp             HHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHH
T ss_pred             HHcCCHHHHHHHHHhhhcc--CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            7777777777777666443  244556666667777777777777777777666666 3556667777777777777777


Q ss_pred             HHHHHHhccCCCC
Q 047393          237 YALDKLLELDPGM  249 (373)
Q Consensus       237 ~~~~~m~~~~P~~  249 (373)
                      ..|++.++++|+.
T Consensus       360 ~~~~~al~l~P~~  372 (388)
T d1w3ba_         360 MHYKEAIRISPTF  372 (388)
T ss_dssp             HHHHHHHTTCTTC
T ss_pred             HHHHHHHHhCCCC
Confidence            7777777776654

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.61  E-value=3e-13  Score=121.60  Aligned_cols=235  Identities=12%  Similarity=-0.035  Sum_probs=150.7

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCC----------
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLI----------   78 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~----------   78 (373)
                      +..+|..+...|.+.|++++|++.|++..+.  .| +..++..+..++.+.|++++|...+....+....          
T Consensus        32 ~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  109 (388)
T d1w3ba_          32 NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQ--NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAA  109 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHhhhhccccccccccccccccccccccccccccc
Confidence            3455666666666677777777777666653  23 3445666666666667777776666654432210          


Q ss_pred             ---------------------------------------------------------CchhHHHHHHHHhHhcCCHHHHH
Q 047393           79 ---------------------------------------------------------SHPAVGNCLININSRCGKIDDAD  101 (373)
Q Consensus        79 ---------------------------------------------------------~~~~~~~~li~~~~~~g~~~~A~  101 (373)
                                                                               .+...+..+...+...|++++|.
T Consensus       110 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  189 (388)
T d1w3ba_         110 ALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAI  189 (388)
T ss_dssp             HHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCcchhHHHHhhcccccccCcHHHHH
Confidence                                                                     11233344445555566666666


Q ss_pred             HHHccCC---CCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcC
Q 047393          102 LAFKSTP---EKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYH  178 (373)
Q Consensus       102 ~~~~~m~---~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g  178 (373)
                      ..+++..   ..+..+|..+...+...|++++|...+++....+ +.+...+..+...+.+.|++++|...|++..+.  
T Consensus       190 ~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--  266 (388)
T d1w3ba_         190 HHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL--  266 (388)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--
T ss_pred             HHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--
Confidence            6665443   2245566667777777777777777777776653 345566666777777777787777777776543  


Q ss_pred             CCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          179 IEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       179 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      -+-+..++..+...+.+.|+.++|.+.++.+....| +...+..+...+...|++++|...+++.+++.|+.
T Consensus       267 ~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~  338 (388)
T d1w3ba_         267 QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEF  338 (388)
T ss_dssp             CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTC
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            123456677777777777888888777777554333 56677777777777888888888888877777765

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.60  E-value=7.4e-14  Score=123.69  Aligned_cols=229  Identities=11%  Similarity=-0.083  Sum_probs=186.2

Q ss_pred             HHHHHHHHcCCHhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhc
Q 047393           16 LLLKACIKAKDYEMVHELLERIQLCCGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRC   94 (373)
Q Consensus        16 ~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~   94 (373)
                      -....+.+.|++++|+..|++..+.  .| +..+|..+..++...|++++|...+.+.++.. +-+...+..+...|.+.
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~  100 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQ--DPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNE  100 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccc
Confidence            3555688999999999999999984  45 46688999999999999999999999998765 44678888999999999


Q ss_pred             CCHHHHHHHHccCCC--CC----------------hhHHHHHHHHHHhCCChHHHHHHHHHHHHcC-CCCCHHHHHHHHH
Q 047393           95 GKIDDADLAFKSTPE--KN----------------SLSWTFIISARVNHGHPSEALDLFKDKQWRY-TSMNPTTFRSALK  155 (373)
Q Consensus        95 g~~~~A~~~~~~m~~--~d----------------~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-~~p~~~t~~~ll~  155 (373)
                      |++++|.+.+++...  |+                .......+..+...+.+.+|.+.|.+..+.. -.++..++..+..
T Consensus       101 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~  180 (323)
T d1fcha_         101 SLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGV  180 (323)
T ss_dssp             TCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHH
T ss_pred             ccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHH
Confidence            999999999976531  11                1111222334455567888999988877653 2346778888889


Q ss_pred             HHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHH
Q 047393          156 AYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKL  234 (373)
Q Consensus       156 ~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~  234 (373)
                      .+...|++++|...+++.....  +-+...|..+...|.+.|++++|.+.|+++++..| ++.+|..+..+|.+.|++++
T Consensus       181 ~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~  258 (323)
T d1fcha_         181 LFNLSGEYDKAVDCFTAALSVR--PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHRE  258 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHhhhhcccccccccc--cccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHHHHHHHHHHHHCCCHHH
Confidence            9999999999999999986652  33578889999999999999999999999887777 57889999999999999999


Q ss_pred             HHHHHHHHhccCCCC
Q 047393          235 AKYALDKLLELDPGM  249 (373)
Q Consensus       235 A~~~~~~m~~~~P~~  249 (373)
                      |...|++.+++.|++
T Consensus       259 A~~~~~~al~l~p~~  273 (323)
T d1fcha_         259 AVEHFLEALNMQRKS  273 (323)
T ss_dssp             HHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhCCcC
Confidence            999999999988765

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.33  E-value=4e-11  Score=105.65  Aligned_cols=196  Identities=14%  Similarity=0.044  Sum_probs=158.8

Q ss_pred             HHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCC---CCChhHHHHHHHHHHhCCC
Q 047393           51 DILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTP---EKNSLSWTFIISARVNHGH  127 (373)
Q Consensus        51 ~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~---~~d~~~~~~li~~~~~~g~  127 (373)
                      .....+.+.|++++|...|+.+++.. +-+..+|..+..+|.+.|++++|...|++..   ..+...|..+...|...|+
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcccccccccccccccccccccc
Confidence            34556778999999999999998875 4568899999999999999999999998765   2367889999999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCCH----------------HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHH
Q 047393          128 PSEALDLFKDKQWRYTSMNP----------------TTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE  191 (373)
Q Consensus       128 ~~~A~~l~~~m~~~g~~p~~----------------~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  191 (373)
                      +++|.+.+++.....  |+.                ......+..+...+...+|...+++..+...-.++..++..+..
T Consensus       103 ~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~  180 (323)
T d1fcha_         103 QRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGV  180 (323)
T ss_dssp             HHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHH
T ss_pred             ccccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHH
Confidence            999999999987642  221                11112223344556788888898887665333456778888999


Q ss_pred             HHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          192 ALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       192 ~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .+...|++++|...|++++...| +...|..+...+...|++++|.+.+++.++.+|+.
T Consensus       181 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~  239 (323)
T d1fcha_         181 LFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGY  239 (323)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhcc
Confidence            99999999999999999777666 57899999999999999999999999999999987

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.19  E-value=2.6e-09  Score=93.45  Aligned_cols=219  Identities=9%  Similarity=-0.013  Sum_probs=165.9

Q ss_pred             HhHHHHHHHHHHhcCCCCCHHHHHHHHHHHc--------------CCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhH
Q 047393           27 YEMVHELLERIQLCCGFIDSYSICDILNSCL--------------NPILLNVGTQAQAYMTKRGLISHPAVGNCLININS   92 (373)
Q Consensus        27 ~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~--------------~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~   92 (373)
                      .+++..+|+++... ++-+...|..-+.-+-              ..+..++|..+|++.++...+.+...|...+..+.
T Consensus        32 ~~Rv~~vyerAl~~-~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~  110 (308)
T d2onda1          32 TKRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            45577788887764 2223344433332221              12345788899999887665666778888999999


Q ss_pred             hcCCHHHHHHHHccCCC--C-C-hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHH-HHHccCCHHHHH
Q 047393           93 RCGKIDDADLAFKSTPE--K-N-SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALK-AYALMGLVGEAY  167 (373)
Q Consensus        93 ~~g~~~~A~~~~~~m~~--~-d-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~-~~~~~g~~~~a~  167 (373)
                      +.|+++.|..+|+++.+  | + ...|...+....+.|+.++|.++|+++.+.+. .+...|..... -+...|+.+.|.
T Consensus       111 ~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         111 SRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             hcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHhccCHHHHH
Confidence            99999999999998653  2 3 34789999999999999999999999987753 33344443333 234568999999


Q ss_pred             HHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 047393          168 RLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-----CPLIWRTLLLSSRVHGDMKLAKYALDKL  242 (373)
Q Consensus       168 ~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-----~~~~~~~li~~~~~~g~~~~A~~~~~~m  242 (373)
                      .+|+.+.+.+  +.+...|...++.+.+.|+++.|..+|++++...|     ....|...+.--...|+.+.+.++++++
T Consensus       190 ~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~  267 (308)
T d2onda1         190 KIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHhh--hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999998763  55678899999999999999999999999765332     2468999999888999999999999999


Q ss_pred             hccCCCC
Q 047393          243 LELDPGM  249 (373)
Q Consensus       243 ~~~~P~~  249 (373)
                      .+.-|+.
T Consensus       268 ~~~~~~~  274 (308)
T d2onda1         268 FTAFREE  274 (308)
T ss_dssp             HHHTTTT
T ss_pred             HHHCccc
Confidence            8866654

>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=99.15  E-value=3.9e-10  Score=95.76  Aligned_cols=220  Identities=14%  Similarity=-0.075  Sum_probs=151.3

Q ss_pred             CHhHHHHHHHHHHhcCC-CC--CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHH
Q 047393           26 DYEMVHELLERIQLCCG-FI--DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADL  102 (373)
Q Consensus        26 ~~~~A~~l~~~m~~~g~-~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  102 (373)
                      +.+.|+.-+++...... .+  ...+|..+..++.+.|++++|.+.|+..++.. +-+..+|+.+..+|.+.|++++|.+
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~   92 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYE   92 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhh
Confidence            45667777777765422 22  12356677788899999999999999998865 4568899999999999999999999


Q ss_pred             HHccCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCC
Q 047393          103 AFKSTPE--K-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHI  179 (373)
Q Consensus       103 ~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~  179 (373)
                      .|++..+  | +..+|..+...|...|++++|.+.|++..+.. +.+......+..++.+.+..+.+..+......   .
T Consensus        93 ~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~  168 (259)
T d1xnfa_          93 AFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK---S  168 (259)
T ss_dssp             HHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH---S
T ss_pred             hhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc---c
Confidence            9988763  3 56788899999999999999999999988764 33455544455555666666666555555532   2


Q ss_pred             CCCHhHHHHHHHHHHhcCC----HHHHHHHHHhhCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCCcc
Q 047393          180 EPSEEHYSIMVEALGRAGM----FEEVLEFIKGIVPGKLC-PLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGMYV  251 (373)
Q Consensus       180 ~p~~~~~~~li~~~~~~g~----~~~A~~~~~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~y~  251 (373)
                      .++...++ ++..+.....    .+.+...+.......|+ ..+|..+...+...|++++|.+.|++.++.+|++|+
T Consensus       169 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~  244 (259)
T d1xnfa_         169 DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFV  244 (259)
T ss_dssp             CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCH
T ss_pred             chhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHH
Confidence            33332232 2222222222    22222222221112232 357777889999999999999999999999998743

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.12  E-value=3.7e-09  Score=92.88  Aligned_cols=211  Identities=7%  Similarity=-0.087  Sum_probs=163.3

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCH-HHHHHHHHHHcCCC-chHHHHHHHHHHHHcCCCCchhHHHHHH
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDS-YSICDILNSCLNPI-LLNVGTQAQAYMTKRGLISHPAVGNCLI   88 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~-~~~~~ll~~~~~~~-~~~~a~~~~~~m~~~g~~~~~~~~~~li   88 (373)
                      .-.|+.+-..+.+.+.+++|+++++++.+  +.|+. ..|+....++...+ ++++|...++..++.. +-+..+|+.+.
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~--lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~  119 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIE--LNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRR  119 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH--HCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHh
Confidence            34577777788899999999999999998  45755 46788887877766 5899999999998875 55688999999


Q ss_pred             HHhHhcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC---
Q 047393           89 NINSRCGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGL---  162 (373)
Q Consensus        89 ~~~~~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~---  162 (373)
                      ..+.+.|++++|++.|+++.+   .+..+|+.+...+.+.|++++|++.++++.+.+ +-+...|+.+...+.+.+.   
T Consensus       120 ~~~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         120 VLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccch
Confidence            999999999999999998863   478999999999999999999999999999875 3467778776666555554   


Q ss_pred             ---HHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC---CHHHHHHHHHHHHH
Q 047393          163 ---VGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL---CPLIWRTLLLSSRV  228 (373)
Q Consensus       163 ---~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p---~~~~~~~li~~~~~  228 (373)
                         +++|...+....+..  +.+...|+.+...+.. ...+++.+.++......|   +...+..+...|..
T Consensus       199 ~~~~~~ai~~~~~al~~~--P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLV--PHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             hhhhHHhHHHHHHHHHhC--CCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHH
Confidence               678888888876652  3366777766655544 445677777766444333   45667777777654

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.00  E-value=7.3e-09  Score=90.89  Aligned_cols=198  Identities=9%  Similarity=-0.019  Sum_probs=161.7

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcC-CHHHHHHHHccCC---CCChhHHHHHHHHH
Q 047393           47 YSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCG-KIDDADLAFKSTP---EKNSLSWTFIISAR  122 (373)
Q Consensus        47 ~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~---~~d~~~~~~li~~~  122 (373)
                      ..|+.+-..+.+.+..++|.++++.+++.. |-+...|+....++...| ++++|+..++...   ..+..+|+.+...+
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHH
Confidence            456666667788899999999999999875 556778898888888876 5999999998775   34788999999999


Q ss_pred             HhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCC----
Q 047393          123 VNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGM----  198 (373)
Q Consensus       123 ~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~----  198 (373)
                      .+.|++++|++.++++.+.. +-+...|..+...+.+.|++++|...++.+.+..  +-+...|+.+...+.+.+.    
T Consensus       123 ~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~--p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED--VRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC--CccHHHHHHHHHHHHHccccchh
Confidence            99999999999999998874 4578999999999999999999999999997652  3367788877777776665    


Q ss_pred             --HHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          199 --FEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       199 --~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                        +++|.+.+.+++...| +...|+.+...+.. ...+++.+.++...++.|+.
T Consensus       200 ~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~  252 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSH  252 (315)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTC
T ss_pred             hhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCc
Confidence              5789999988787777 67788877665544 45688889999988877754

>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=98.97  E-value=1.9e-08  Score=87.83  Aligned_cols=185  Identities=11%  Similarity=0.006  Sum_probs=146.2

Q ss_pred             CHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHc
Q 047393           26 DYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFK  105 (373)
Q Consensus        26 ~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  105 (373)
                      ..++|..+|++..+...+-+...+...+....+.|+++.|..+|+.+++........+|...+....+.|+++.|.++|+
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            45788899999887544445566777788888999999999999999876433335579999999999999999999999


Q ss_pred             cCCCC---ChhHHHHHHHH-HHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC
Q 047393          106 STPEK---NSLSWTFIISA-RVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP  181 (373)
Q Consensus       106 ~m~~~---d~~~~~~li~~-~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p  181 (373)
                      +..+.   +...|-..... +...|+.+.|..+|+.+.+. .+.+...+...++.+.+.|+++.|..+|++..+..+..|
T Consensus       159 ~al~~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~-~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~  237 (308)
T d2onda1         159 KAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPP  237 (308)
T ss_dssp             HHHTSTTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCG
T ss_pred             HHHHhCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCh
Confidence            87642   33344333332 34468999999999999886 355678899999999999999999999999877655555


Q ss_pred             C--HhHHHHHHHHHHhcCCHHHHHHHHHhhCC
Q 047393          182 S--EEHYSIMVEALGRAGMFEEVLEFIKGIVP  211 (373)
Q Consensus       182 ~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~  211 (373)
                      +  ...|...+..-.+.|+.+.+.++++++.+
T Consensus       238 ~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         238 EKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             GGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4  45788888888889999999999998544

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=98.87  E-value=3.8e-08  Score=83.06  Aligned_cols=197  Identities=5%  Similarity=-0.194  Sum_probs=137.4

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCGFI-DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      ..+|..+-..|.+.|++++|++.|++..+.  .| +..+|..+..++.+.|++++|...|++.++.. +-+..++..+..
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~l--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~  113 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALAI--RPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGI  113 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHhhcc--CCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHH-hhhhhhHHHHHH
Confidence            456778888999999999999999999884  45 56789999999999999999999999998875 345778888999


Q ss_pred             HhHhcCCHHHHHHHHccCCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCC----
Q 047393           90 INSRCGKIDDADLAFKSTPE--K-NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGL----  162 (373)
Q Consensus        90 ~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~----  162 (373)
                      +|.+.|++++|.+.|++..+  | +......+..++.+.+..+.+..+........-.+  ..++ ++..+.....    
T Consensus       114 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~-~~~~~~~~~~~~~~  190 (259)
T d1xnfa_         114 ALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQ--WGWN-IVEFYLGNISEQTL  190 (259)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCS--THHH-HHHHHTTSSCHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHhhccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhh--hhhh-HHHHHHHHHHHHHH
Confidence            99999999999999987652  3 44444444455556666666655555555432222  2222 2222222222    


Q ss_pred             HHHHHHHHHHhHHHcCCCCC-HhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH
Q 047393          163 VGEAYRLFLSMEEVYHIEPS-EEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP  216 (373)
Q Consensus       163 ~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~  216 (373)
                      .+.+...+.....   ..|+ ..+|..+...|...|++++|.+.|++++...|+.
T Consensus       191 ~~~~~~~~~~~~~---~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~  242 (259)
T d1xnfa_         191 MERLKADATDNTS---LAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHN  242 (259)
T ss_dssp             HHHHHHHCCSHHH---HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTT
T ss_pred             HHHHHHHHHHhhh---cCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC
Confidence            2222222221111   1232 3467778899999999999999999988878864

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.76  E-value=2e-06  Score=74.81  Aligned_cols=225  Identities=9%  Similarity=-0.049  Sum_probs=165.7

Q ss_pred             HHHHHHcCCHhHHHHHHHHHHhcCCCCC------HHHHHHHHHHHcCCCchHHHHHHHHHHHHcC----CCC-chhHHHH
Q 047393           18 LKACIKAKDYEMVHELLERIQLCCGFID------SYSICDILNSCLNPILLNVGTQAQAYMTKRG----LIS-HPAVGNC   86 (373)
Q Consensus        18 i~~~~~~g~~~~A~~l~~~m~~~g~~p~------~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g----~~~-~~~~~~~   86 (373)
                      ...+...|++++|++++++..+.  .|+      ...+..+..++...|++++|...+++..+..    -.+ ....+..
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~--~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   96 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEE--LPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQ   96 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHT--CCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhh--CcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHH
Confidence            44567899999999999998874  233      2356667788889999999999999876532    111 1345666


Q ss_pred             HHHHhHhcCCHHHHHHHHccCC-------CC----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcC----CCCCHHHHH
Q 047393           87 LININSRCGKIDDADLAFKSTP-------EK----NSLSWTFIISARVNHGHPSEALDLFKDKQWRY----TSMNPTTFR  151 (373)
Q Consensus        87 li~~~~~~g~~~~A~~~~~~m~-------~~----d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g----~~p~~~t~~  151 (373)
                      +...+...|++..|...+.+..       .+    ....+..+...+...|+++.+...+.......    ......++.
T Consensus        97 ~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  176 (366)
T d1hz4a_          97 QSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLA  176 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHH
Confidence            7778899999999988886542       11    12356667788899999999999998886542    223345666


Q ss_pred             HHHHHHHccCCHHHHHHHHHHhHHHcCCCC-----CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-----CHHHHHH
Q 047393          152 SALKAYALMGLVGEAYRLFLSMEEVYHIEP-----SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-----CPLIWRT  221 (373)
Q Consensus       152 ~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p-----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-----~~~~~~~  221 (373)
                      .....+...++...+...+.+......-..     ....+..+...+...|+.++|...+++.....|     ....+..
T Consensus       177 ~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~  256 (366)
T d1hz4a_         177 MLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRN  256 (366)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHH
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHH
Confidence            777778889999999988887654322211     123455667788889999999999998665433     2356777


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHhc
Q 047393          222 LLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       222 li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      +..++...|++++|...++.+..
T Consensus       257 la~~~~~~g~~~~A~~~~~~al~  279 (366)
T d1hz4a_         257 IARAQILLGEFEPAEIVLEELNE  279 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            88899999999999999998875

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.76  E-value=8.7e-09  Score=90.98  Aligned_cols=216  Identities=9%  Similarity=-0.138  Sum_probs=162.1

Q ss_pred             cCCHhHHHHHHHHHHhcCCCC-CHHHHHHHHHHHcCCC--chHHHHHHHHHHHHcCCCCchhHHH-HHHHHhHhcCCHHH
Q 047393           24 AKDYEMVHELLERIQLCCGFI-DSYSICDILNSCLNPI--LLNVGTQAQAYMTKRGLISHPAVGN-CLININSRCGKIDD   99 (373)
Q Consensus        24 ~g~~~~A~~l~~~m~~~g~~p-~~~~~~~ll~~~~~~~--~~~~a~~~~~~m~~~g~~~~~~~~~-~li~~~~~~g~~~~   99 (373)
                      .|++++|+.++++..+.  .| +...+..+..++...+  ++++|...++.+.+.. +++...+. .....+...+..++
T Consensus        86 ~~~~~~al~~~~~~l~~--~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~  162 (334)
T d1dcea1          86 AALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAE  162 (334)
T ss_dssp             HHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHH
T ss_pred             HHHHHHHHHHHHHHHHh--CCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHH
Confidence            44578999999998875  35 4555666655555554  5899999999998875 34555554 44467778899999


Q ss_pred             HHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHH
Q 047393          100 ADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEV  176 (373)
Q Consensus       100 A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~  176 (373)
                      |+..++...+   .+..+|+.+...+.+.|++++|...++...+.  .|+.   ......+...+..+++...+......
T Consensus       163 Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~~  237 (334)
T d1dcea1         163 ELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKE---LELVQNAFFTDPNDQSAWFYHRWLLG  237 (334)
T ss_dssp             HHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHHHHHHHHHS
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHH---HHHHHHHHHhcchhHHHHHHHHHHHh
Confidence            9999998875   36788999999999999998886666554433  1221   22333445567777788887777543


Q ss_pred             cCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          177 YHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       177 ~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                        -+++...+..+...+...|+.++|.+.+.+..+..| +..+|..+...+...|+.++|.+.++++.+++|+.
T Consensus       238 --~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~  309 (334)
T d1dcea1         238 --RAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMR  309 (334)
T ss_dssp             --CCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGG
T ss_pred             --CcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCccc
Confidence              345566677778888889999999999999777667 45788889999999999999999999999999854

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.73  E-value=4.6e-07  Score=73.04  Aligned_cols=148  Identities=13%  Similarity=-0.060  Sum_probs=112.8

Q ss_pred             HHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHH
Q 047393           88 ININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAY  167 (373)
Q Consensus        88 i~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~  167 (373)
                      ...+...|++++|++.|+++..++..+|..+...|...|++++|++.|++..+.. +-+...|..+-.++.+.|++++|.
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHHHH
Confidence            4456788999999999999988898899999999999999999999999998875 446788889999999999999999


Q ss_pred             HHHHHhHHHc-----------CCC--CC-HhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHH
Q 047393          168 RLFLSMEEVY-----------HIE--PS-EEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMK  233 (373)
Q Consensus       168 ~~~~~m~~~~-----------g~~--p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~  233 (373)
                      ..|++.....           |..  ++ ..++..+..++.+.|++++|.+.|+.++...|+.           ..+..+
T Consensus        91 ~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~-----------~~~~~~  159 (192)
T d1hh8a_          91 KDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP-----------RHSKID  159 (192)
T ss_dssp             HHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG-----------GGGHHH
T ss_pred             HHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc-----------chHHHH
Confidence            9998875421           111  11 2455667778888999999999998877766653           334455


Q ss_pred             HHHHHHHHHhccCC
Q 047393          234 LAKYALDKLLELDP  247 (373)
Q Consensus       234 ~A~~~~~~m~~~~P  247 (373)
                      .|...+......+|
T Consensus       160 ~Al~~~~~~~~~~~  173 (192)
T d1hh8a_         160 KAMECVWKQKLYEP  173 (192)
T ss_dssp             HHHHHHHTTCCCCC
T ss_pred             HHHHHHHhhhhCCc
Confidence            66655554444444

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.70  E-value=2.8e-07  Score=79.42  Aligned_cols=196  Identities=10%  Similarity=-0.090  Sum_probs=127.4

Q ss_pred             HHHHHcCCCchHHHHHHHHHHHHc----CCCCc-hhHHHHHHHHhHhcCCHHHHHHHHccCCC-----C----ChhHHHH
Q 047393           52 ILNSCLNPILLNVGTQAQAYMTKR----GLISH-PAVGNCLININSRCGKIDDADLAFKSTPE-----K----NSLSWTF  117 (373)
Q Consensus        52 ll~~~~~~~~~~~a~~~~~~m~~~----g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~----d~~~~~~  117 (373)
                      ....|...+++++|.+.|.+..+.    +-+++ ..+|+.+..+|.+.|++++|.+.+++..+     .    ...++..
T Consensus        43 aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  122 (290)
T d1qqea_          43 AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFE  122 (290)
T ss_dssp             HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHH
Confidence            345566777788887777776442    21222 35677778888888888888887765431     1    1345566


Q ss_pred             HHHHHHh-CCChHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC----H-hHH
Q 047393          118 IISARVN-HGHPSEALDLFKDKQWR----YTSMN-PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS----E-EHY  186 (373)
Q Consensus       118 li~~~~~-~g~~~~A~~l~~~m~~~----g~~p~-~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~----~-~~~  186 (373)
                      +...|.. .|++++|++.+++..+.    +-.+. ..++..+...+...|++++|...|++......-.+.    . ..+
T Consensus       123 l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~  202 (290)
T d1qqea_         123 LGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYF  202 (290)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHH
T ss_pred             HHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHH
Confidence            6666644 68999999988876432    21221 346778888999999999999999998654211111    1 223


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhhCCCCCC------HHHHHHHHHHHHH--cCCHHHHHHHHHHHhccCC
Q 047393          187 SIMVEALGRAGMFEEVLEFIKGIVPGKLC------PLIWRTLLLSSRV--HGDMKLAKYALDKLLELDP  247 (373)
Q Consensus       187 ~~li~~~~~~g~~~~A~~~~~~~~~~~p~------~~~~~~li~~~~~--~g~~~~A~~~~~~m~~~~P  247 (373)
                      ...+..+...|+.+.|.+.++++.+..|.      ......++.++..  .+.+++|..-|+.+.+++|
T Consensus       203 ~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~lD~  271 (290)
T d1qqea_         203 LKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDK  271 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCH
Confidence            44555667789999999999997665553      2345666666654  3457888888877766653

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.69  E-value=1.3e-06  Score=75.99  Aligned_cols=235  Identities=11%  Similarity=0.002  Sum_probs=169.1

Q ss_pred             hhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCC-CCC----HHHHHHHHHHHcCCCchHHHHHHHHHHHHc----CCCCc-
Q 047393           11 EIPWNLLLKACIKAKDYEMVHELLERIQLCCG-FID----SYSICDILNSCLNPILLNVGTQAQAYMTKR----GLISH-   80 (373)
Q Consensus        11 ~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~-~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~~~-   80 (373)
                      ..+++.+...|...|++++|++.|++..+... .++    ..++..+...+...|++..+...+......    +.... 
T Consensus        51 ~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~  130 (366)
T d1hz4a_          51 IVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLP  130 (366)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTST
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhh
Confidence            35678888899999999999999998765311 112    234566677788899999999988876532    22221 


Q ss_pred             --hhHHHHHHHHhHhcCCHHHHHHHHccCCC--------CChhHHHHHHHHHHhCCChHHHHHHHHHHHHc--CCCCC--
Q 047393           81 --PAVGNCLININSRCGKIDDADLAFKSTPE--------KNSLSWTFIISARVNHGHPSEALDLFKDKQWR--YTSMN--  146 (373)
Q Consensus        81 --~~~~~~li~~~~~~g~~~~A~~~~~~m~~--------~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~--g~~p~--  146 (373)
                        ...+..+...+...|+++.|...+.....        ....++..+...+...+...++...+.+....  .....  
T Consensus       131 ~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~  210 (366)
T d1hz4a_         131 MHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSD  210 (366)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHH
T ss_pred             HHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCc
Confidence              23556677889999999999988875531        13455666677788889999998888776442  11111  


Q ss_pred             --HHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC--CHhHHHHHHHHHHhcCCHHHHHHHHHhhCC------CCCC-
Q 047393          147 --PTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP--SEEHYSIMVEALGRAGMFEEVLEFIKGIVP------GKLC-  215 (373)
Q Consensus       147 --~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~------~~p~-  215 (373)
                        ...+......+...|+++.|...++.......-.+  ....+..+...+...|++++|.+.+++++.      ..|+ 
T Consensus       211 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  290 (366)
T d1hz4a_         211 WISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDL  290 (366)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             hHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHH
Confidence              23455666778889999999999988743211111  234556778899999999999999988542      2332 


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          216 PLIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       216 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      ...+..+...|...|++++|.+.+++..++
T Consensus       291 ~~~~~~la~~~~~~g~~~~A~~~l~~Al~l  320 (366)
T d1hz4a_         291 NRNLLLLNQLYWQAGRKSDAQRVLLDALKL  320 (366)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            357888889999999999999999998874

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.55  E-value=3.6e-07  Score=67.22  Aligned_cols=93  Identities=13%  Similarity=0.042  Sum_probs=60.4

Q ss_pred             HHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHH
Q 047393          155 KAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMK  233 (373)
Q Consensus       155 ~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~  233 (373)
                      +.+.+.|++++|...|++..+..  +-+...|..+..+|.+.|++++|.+.+++++...| ++..|..+..++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLD--PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC--CcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHH
Confidence            34556666777777766665541  33556666666677777777777777766665444 5566667777777777777


Q ss_pred             HHHHHHHHHhccCCCC
Q 047393          234 LAKYALDKLLELDPGM  249 (373)
Q Consensus       234 ~A~~~~~~m~~~~P~~  249 (373)
                      +|...+++.++.+|++
T Consensus        89 ~A~~~~~~a~~~~p~~  104 (117)
T d1elwa_          89 EAKRTYEEGLKHEANN  104 (117)
T ss_dssp             HHHHHHHHHHTTCTTC
T ss_pred             HHHHHHHHHHHhCCCC
Confidence            7777777777766654

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.55  E-value=4.3e-07  Score=73.22  Aligned_cols=103  Identities=9%  Similarity=-0.146  Sum_probs=82.9

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHH
Q 047393          145 MNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLL  223 (373)
Q Consensus       145 p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li  223 (373)
                      |+...+...-+.+.+.|++++|...|+...+..  +.+...|+.+..+|.+.|++++|...|++++.+.| ++.+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~--p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN--PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            566666666778888888888888888876652  44677888888888889999999999988888777 467888888


Q ss_pred             HHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          224 LSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       224 ~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .+|...|++++|...|+++.+++|+.
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~  105 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQ  105 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCccc
Confidence            88999999999999998888866643

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.49  E-value=3.5e-06  Score=72.28  Aligned_cols=198  Identities=8%  Similarity=-0.048  Sum_probs=140.8

Q ss_pred             hHHHHHHHHHHHcCCHhHHHHHHHHHHhc----CCCCC-HHHHHHHHHHHcCCCchHHHHHHHHHHHHc----CCC-Cch
Q 047393           12 IPWNLLLKACIKAKDYEMVHELLERIQLC----CGFID-SYSICDILNSCLNPILLNVGTQAQAYMTKR----GLI-SHP   81 (373)
Q Consensus        12 ~~~n~li~~~~~~g~~~~A~~l~~~m~~~----g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~----g~~-~~~   81 (373)
                      -.|......|...|++++|.+.|.+..+.    +-.++ ..+|..+..+|.+.|++++|.+.++...+.    |-. ...
T Consensus        38 ~~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~  117 (290)
T d1qqea_          38 DLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGA  117 (290)
T ss_dssp             HHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHH
Confidence            35888888999999999999999988763    22222 357888999999999999999999986543    211 113


Q ss_pred             hHHHHHHHHhH-hcCCHHHHHHHHccCCC-----C----ChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCC-----C
Q 047393           82 AVGNCLININS-RCGKIDDADLAFKSTPE-----K----NSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSM-----N  146 (373)
Q Consensus        82 ~~~~~li~~~~-~~g~~~~A~~~~~~m~~-----~----d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-----~  146 (373)
                      .++..+...|- ..|++++|.+.|++..+     .    -..+|..+...|...|++++|.+.|++........     .
T Consensus       118 ~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~  197 (290)
T d1qqea_         118 NFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWS  197 (290)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGG
T ss_pred             HHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhh
Confidence            45566666674 46999999999976541     1    13567888999999999999999999987653211     1


Q ss_pred             H-HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC------HhHHHHHHHHHHh--cCCHHHHHHHHHhhCCC
Q 047393          147 P-TTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS------EEHYSIMVEALGR--AGMFEEVLEFIKGIVPG  212 (373)
Q Consensus       147 ~-~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~------~~~~~~li~~~~~--~g~~~~A~~~~~~~~~~  212 (373)
                      . ..+...+..+...|+++.|...++...+   +.|+      ......++.++-.  .+.+++|..-|+++.+.
T Consensus       198 ~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~---~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~l  269 (290)
T d1qqea_         198 LKDYFLKKGLCQLAATDAVAAARTLQEGQS---EDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRL  269 (290)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHGGGC---C---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCC
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHH---hCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhc
Confidence            1 2233444566778999999999998843   2332      2345667777665  35689999999984444

>d1hh8a_ a.118.8.1 (A:) Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Neutrophil cytosolic factor 2 (NCF-2, p67-phox)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.42  E-value=6.5e-06  Score=66.00  Aligned_cols=124  Identities=10%  Similarity=-0.022  Sum_probs=103.1

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCC
Q 047393          119 ISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGM  198 (373)
Q Consensus       119 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~  198 (373)
                      ...+...|++++|++.|.++    .+|+..+|..+-..|...|++++|...|++..+..  +-+...|..+..+|.+.|+
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld--p~~~~a~~~~g~~~~~~g~   85 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGMLYYQTEK   85 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh--hhhhhhHHHHHHHHHhhcc
Confidence            45567899999999999865    36788899999999999999999999999997652  3467889999999999999


Q ss_pred             HHHHHHHHHhhCCCCC----------------C-HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCC
Q 047393          199 FEEVLEFIKGIVPGKL----------------C-PLIWRTLLLSSRVHGDMKLAKYALDKLLELDPG  248 (373)
Q Consensus       199 ~~~A~~~~~~~~~~~p----------------~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~  248 (373)
                      +++|.+.|++++...|                + ..++..+..++.+.|++++|.+.++...++.|+
T Consensus        86 ~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          86 YDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             HHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            9999999988643111                1 256667788899999999999999999987653

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.40  E-value=1.4e-06  Score=64.47  Aligned_cols=97  Identities=12%  Similarity=0.002  Sum_probs=77.3

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCH---HHHHHHHHhhCCCCCCH---HHHHHHHH
Q 047393          151 RSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMF---EEVLEFIKGIVPGKLCP---LIWRTLLL  224 (373)
Q Consensus       151 ~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~~p~~---~~~~~li~  224 (373)
                      ..+++.+...+++++|.+.|+......  +.+..++..+..++.+.++.   ++|.++|++++...|++   .+|..+..
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~--p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG--SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS--CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            456777888889999999999887652  44678888888888775544   46999999977766644   36778888


Q ss_pred             HHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          225 SSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       225 ~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +|.+.|++++|.+.|+++++++|++
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~  105 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQN  105 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCC
Confidence            9999999999999999999998866

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.40  E-value=5.4e-06  Score=60.65  Aligned_cols=96  Identities=18%  Similarity=0.081  Sum_probs=75.8

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcC
Q 047393          118 IISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAG  197 (373)
Q Consensus       118 li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g  197 (373)
                      -.+.+.+.|++++|+..|++..+.. +-+...|..+-.++.+.|++++|...++...+..  +.+...|..+..++...|
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~g~~~~~~~   85 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK--PDWGKGYSRKAAALEFLN   85 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc--cchhhHHHHHHHHHHHcc
Confidence            3556778888888888888887763 4567778888888888888888888888886652  457778888888888888


Q ss_pred             CHHHHHHHHHhhCCCCCCH
Q 047393          198 MFEEVLEFIKGIVPGKLCP  216 (373)
Q Consensus       198 ~~~~A~~~~~~~~~~~p~~  216 (373)
                      ++++|...|+++++..|+.
T Consensus        86 ~~~~A~~~~~~a~~~~p~~  104 (117)
T d1elwa_          86 RFEEAKRTYEEGLKHEANN  104 (117)
T ss_dssp             CHHHHHHHHHHHHTTCTTC
T ss_pred             CHHHHHHHHHHHHHhCCCC
Confidence            8888888888877777743

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.36  E-value=2.6e-06  Score=66.10  Aligned_cols=93  Identities=12%  Similarity=0.031  Sum_probs=58.4

Q ss_pred             HHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHH
Q 047393          155 KAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMK  233 (373)
Q Consensus       155 ~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~  233 (373)
                      +.|.+.|++++|...|++..+..  +-+...|..+...|...|++++|.+.|+++++..| +...|..+..++...|+++
T Consensus        18 n~~~~~~~y~~A~~~~~~al~~~--p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~   95 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIELN--PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFR   95 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHhhhccccc--hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCHH
Confidence            34556666666666666665441  33556666666666666666666666666655555 3456666666666667777


Q ss_pred             HHHHHHHHHhccCCCC
Q 047393          234 LAKYALDKLLELDPGM  249 (373)
Q Consensus       234 ~A~~~~~~m~~~~P~~  249 (373)
                      +|...+++...++|++
T Consensus        96 eA~~~~~~a~~~~p~~  111 (159)
T d1a17a_          96 AALRDYETVVKVKPHD  111 (159)
T ss_dssp             HHHHHHHHHHHHSTTC
T ss_pred             HHHHHHHHHHHcCCCC
Confidence            7766666666666654

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.34  E-value=1.1e-07  Score=83.81  Aligned_cols=212  Identities=7%  Similarity=-0.079  Sum_probs=156.8

Q ss_pred             CChhHHHHHHHHHHHcCC--HhHHHHHHHHHHhcCCCCCHHHHH-HHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHH
Q 047393            9 DVEIPWNLLLKACIKAKD--YEMVHELLERIQLCCGFIDSYSIC-DILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGN   85 (373)
Q Consensus         9 p~~~~~n~li~~~~~~g~--~~~A~~l~~~m~~~g~~p~~~~~~-~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~   85 (373)
                      .+...|..+..++...++  +++|+..++++.+.. +++...+. .....+...+..+.|...++.+++.. +-+...|+
T Consensus       105 k~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~  182 (334)
T d1dcea1         105 KSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWH  182 (334)
T ss_dssp             TCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHH
T ss_pred             CcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHH
Confidence            466678888777777664  889999999998752 23455544 44467778899999999999988775 45788899


Q ss_pred             HHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHH
Q 047393           86 CLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGE  165 (373)
Q Consensus        86 ~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~  165 (373)
                      .+..++.+.|++++|...++...+-..... .+...+...+..+++...+....... +++..++..+...+...|+.++
T Consensus       183 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~  260 (334)
T d1dcea1         183 YRSCLLPQLHPQPDSGPQGRLPENVLLKEL-ELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELE  260 (334)
T ss_dssp             HHHHHHHHHSCCCCSSSCCSSCHHHHHHHH-HHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHhHHhHHHHH-HHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHH
Confidence            999999999999988776665543222222 23344556677788888888877653 4555666777777888899999


Q ss_pred             HHHHHHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-HHHHHHHHHHHH
Q 047393          166 AYRLFLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC-PLIWRTLLLSSR  227 (373)
Q Consensus       166 a~~~~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~li~~~~  227 (373)
                      |...+.+..+.   .| +...+..+...|.+.|+.++|.+.+++++++.|+ ..-|+.|...+.
T Consensus       261 a~~~~~~~~~~---~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L~~~~~  321 (334)
T d1dcea1         261 SCKELQELEPE---NKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFL  321 (334)
T ss_dssp             HHHHHHHHCTT---CHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhh---CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHHHHHHh
Confidence            99998877433   44 5577788889999999999999999998888885 456666655554

>d1a17a_ a.118.8.1 (A:) Protein phosphatase 5 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Protein phosphatase 5
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.28  E-value=1.5e-05  Score=61.62  Aligned_cols=120  Identities=12%  Similarity=-0.049  Sum_probs=87.6

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHh
Q 047393          116 TFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGR  195 (373)
Q Consensus       116 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~  195 (373)
                      ....+.|.+.|++++|+..|++..+.. +-+...|..+...|...|++++|...|+...+..  +-+...|..+..+|..
T Consensus        14 ~~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~--p~~~~a~~~~g~~~~~   90 (159)
T d1a17a_          14 KTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD--KKYIKGYYRRAASNMA   90 (159)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc--ccchHHHHHHHHHHHH
Confidence            334567788899999999999888774 4467788888888889999999999999886642  3356788888899999


Q ss_pred             cCCHHHHHHHHHhhCCCCCC-HHHHHHHHHHH--HHcCCHHHHHHH
Q 047393          196 AGMFEEVLEFIKGIVPGKLC-PLIWRTLLLSS--RVHGDMKLAKYA  238 (373)
Q Consensus       196 ~g~~~~A~~~~~~~~~~~p~-~~~~~~li~~~--~~~g~~~~A~~~  238 (373)
                      .|++++|.+.+++++...|+ ...+..+..+.  ...+.+++|...
T Consensus        91 ~g~~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          91 LGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             TTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            99999999999887776664 44444443332  233445555443

>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=98.20  E-value=1e-05  Score=63.46  Aligned_cols=66  Identities=14%  Similarity=0.023  Sum_probs=53.3

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          184 EHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       184 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      .+|+.+..+|.+.|++++|.+.+++++...| ++..|..+..+|...|++++|...|+...+++|++
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n  129 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNN  129 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSC
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCC
Confidence            3566677788888888888888888777667 67788888888888888888888888888888766

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.08  E-value=2e-05  Score=62.93  Aligned_cols=95  Identities=7%  Similarity=-0.080  Sum_probs=48.8

Q ss_pred             CCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC--C-ChhHHHHHHH
Q 047393           44 IDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE--K-NSLSWTFIIS  120 (373)
Q Consensus        44 p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~-d~~~~~~li~  120 (373)
                      |+...+....+.+.+.|++++|...|...++.. +.+...|+.+..+|.+.|++++|+..|+...+  | +..+|..+..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~   80 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   80 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHH
Confidence            344444444445555555555555555554443 33444555555555555555555555554432  2 3445555555


Q ss_pred             HHHhCCChHHHHHHHHHHH
Q 047393          121 ARVNHGHPSEALDLFKDKQ  139 (373)
Q Consensus       121 ~~~~~g~~~~A~~l~~~m~  139 (373)
                      +|.+.|++++|+..|++..
T Consensus        81 ~~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          81 CQLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHH
Confidence            5555555555555555543

>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=98.03  E-value=2.8e-05  Score=59.63  Aligned_cols=116  Identities=9%  Similarity=-0.047  Sum_probs=79.0

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHH
Q 047393          113 LSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEA  192 (373)
Q Consensus       113 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~  192 (373)
                      ..+..-...+.+.|++.+|+..|.+....-  |..           ....-........        .....+|+.+..+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~--~~~-----------~~~~~~~~~~~~~--------~~~~~~~~Nla~~   76 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDFF--IHT-----------EEWDDQILLDKKK--------NIEISCNLNLATC   76 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTC-----------TTCCCHHHHHHHH--------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cch-----------hhhhhHHHHHhhh--------hHHHHHHhhHHHH
Confidence            345556667777777777777777765421  000           0000000000000        1123467778888


Q ss_pred             HHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          193 LGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       193 ~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      |.+.|++++|++.+++++...| ++.+|..+..++...|++++|...|+...+++|++
T Consensus        77 ~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n  134 (153)
T d2fbna1          77 YNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNN  134 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTC
T ss_pred             HHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            9999999999999998887777 67899999999999999999999999999988765

>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=98.03  E-value=1.9e-05  Score=57.13  Aligned_cols=83  Identities=11%  Similarity=-0.058  Sum_probs=40.7

Q ss_pred             HHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHH
Q 047393          157 YALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLA  235 (373)
Q Consensus       157 ~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A  235 (373)
                      +.+.|++++|...|++..+..  +-+...|..+..++.+.|++++|...|++++...| +...|..+...|...|+.++|
T Consensus        26 ~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~~~~A  103 (112)
T d1hxia_          26 MLKLANLAEAALAFEAVCQKE--PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAA  103 (112)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHhhhcccc--cccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCCHHHH
Confidence            344455555555555544331  11344455555555555555555555555444444 344555555555555555555


Q ss_pred             HHHHHH
Q 047393          236 KYALDK  241 (373)
Q Consensus       236 ~~~~~~  241 (373)
                      .+.+++
T Consensus       104 ~~~l~~  109 (112)
T d1hxia_         104 LASLRA  109 (112)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555544

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.96  E-value=1.3e-05  Score=59.00  Aligned_cols=98  Identities=10%  Similarity=0.036  Sum_probs=69.8

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCH---HHHHHHHHHhHHHcCCCCCH---hHHHHH
Q 047393          116 TFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLV---GEAYRLFLSMEEVYHIEPSE---EHYSIM  189 (373)
Q Consensus       116 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~---~~a~~~~~~m~~~~g~~p~~---~~~~~l  189 (373)
                      ..+++.+...+++++|.+.|++....+ +.+..++..+..++.++++.   ++|..+++++...   .|+.   .++..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~---~~~~~~~~~~~~L   78 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPK---GSKEEQRDYVFYL   78 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTT---SCHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhc---cCCchHHHHHHHH
Confidence            356777777888888888888887764 45677777777777765544   4577777776432   3322   356677


Q ss_pred             HHHHHhcCCHHHHHHHHHhhCCCCCCHH
Q 047393          190 VEALGRAGMFEEVLEFIKGIVPGKLCPL  217 (373)
Q Consensus       190 i~~~~~~g~~~~A~~~~~~~~~~~p~~~  217 (373)
                      ..+|.+.|++++|.+.|++++.+.|+..
T Consensus        79 g~~y~~~g~~~~A~~~~~~aL~~~P~~~  106 (122)
T d1nzna_          79 AVGNYRLKEYEKALKYVRGLLQTEPQNN  106 (122)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHhCcCCH
Confidence            7888888888888888888777777543

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.95  E-value=9.1e-05  Score=54.72  Aligned_cols=105  Identities=11%  Similarity=0.060  Sum_probs=73.3

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC-----HhHHHH
Q 047393          114 SWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS-----EEHYSI  188 (373)
Q Consensus       114 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-----~~~~~~  188 (373)
                      .+..+...+.+.|++++|++.|.+.++.+ +.+...+..+-.+|.+.|++++|...++++.+...-.+.     ..+|..
T Consensus         6 ~~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~   84 (128)
T d1elra_           6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (128)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            34556677888888888888888887764 446778888888888888888888888887543111111     235666


Q ss_pred             HHHHHHhcCCHHHHHHHHHhhCCCCCCHHHH
Q 047393          189 MVEALGRAGMFEEVLEFIKGIVPGKLCPLIW  219 (373)
Q Consensus       189 li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  219 (373)
                      +...+...+++++|.+.|++.+...|++...
T Consensus        85 lg~~~~~~~~~~~A~~~~~kal~~~~~~~~~  115 (128)
T d1elra_          85 IGNSYFKEEKYKDAIHFYNKSLAEHRTPDVL  115 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCCHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcCCCHHHH
Confidence            7777777888888888888765545555443

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.92  E-value=0.00014  Score=56.65  Aligned_cols=81  Identities=11%  Similarity=-0.100  Sum_probs=59.9

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHH
Q 047393          148 TTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSS  226 (373)
Q Consensus       148 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~  226 (373)
                      .+|+.+..+|.+.|++++|...++...+..  +.++..+..+..+|...|++++|...|++++...| ++.....+-...
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~--p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~  140 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELD--SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQ  140 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhcc--ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            456777788888999999999998887652  33778888888899999999999999998777777 444544444444


Q ss_pred             HHcC
Q 047393          227 RVHG  230 (373)
Q Consensus       227 ~~~g  230 (373)
                      .+.+
T Consensus       141 ~~~~  144 (170)
T d1p5qa1         141 QRIR  144 (170)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            3333

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.90  E-value=7e-05  Score=58.25  Aligned_cols=68  Identities=7%  Similarity=-0.123  Sum_probs=60.7

Q ss_pred             CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          182 SEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       182 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      ....|..+..+|.+.|++++|+..++++++..| ++..|..+..++...|++++|...|+..++++|++
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n  144 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPED  144 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCC
Confidence            456777788899999999999999999888777 67899999999999999999999999999998866

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.88  E-value=0.0001  Score=57.25  Aligned_cols=65  Identities=11%  Similarity=0.038  Sum_probs=48.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          185 HYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       185 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +|+.+..+|.+.|++++|+..+++++...| ++..|..+..++...|++++|...|+++.+++|++
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n  131 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQN  131 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTC
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            455566677778888888888877666555 56777777788888888888888888888877765

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.83  E-value=0.00013  Score=52.39  Aligned_cols=89  Identities=10%  Similarity=-0.102  Sum_probs=67.4

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhc
Q 047393          117 FIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRA  196 (373)
Q Consensus       117 ~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~  196 (373)
                      .+...+.+.|++++|...|++..+.. +-+..+|..+-.++.+.|++++|...++...+..  +.+...+..+...|...
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD--PKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc--cccccchHHHHHHHHHC
Confidence            34556777888888888888877763 2357778888888888888888888888876541  33577788888888888


Q ss_pred             CCHHHHHHHHHh
Q 047393          197 GMFEEVLEFIKG  208 (373)
Q Consensus       197 g~~~~A~~~~~~  208 (373)
                      |+.++|.+.+++
T Consensus        98 g~~~~A~~~l~~  109 (112)
T d1hxia_          98 HNANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            888888888876

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.76  E-value=0.00036  Score=53.09  Aligned_cols=116  Identities=11%  Similarity=-0.046  Sum_probs=70.6

Q ss_pred             hHHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccC
Q 047393           82 AVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMG  161 (373)
Q Consensus        82 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g  161 (373)
                      ..+..-...+.+.|++++|...|.+...           .+.......... .......    ....+|+.+..+|.+.|
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~-----------~~~~~~~~~~~~-~~~~~~~----~~~~~~~Nla~~~~~l~   81 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALD-----------FFIHTEEWDDQI-LLDKKKN----IEISCNLNLATCYNKNK   81 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH-----------TTTTCTTCCCHH-HHHHHHH----HHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHh-----------hCcchhhhhhHH-HHHhhhh----HHHHHHhhHHHHHHHhc
Confidence            3455566788899999999998876431           000000000000 0000000    01245666777777778


Q ss_pred             CHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC
Q 047393          162 LVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC  215 (373)
Q Consensus       162 ~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~  215 (373)
                      ++++|...++...+..  +.+...|..+..+|...|++++|...|++++.+.|+
T Consensus        82 ~~~~Al~~~~~al~~~--p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~  133 (153)
T d2fbna1          82 DYPKAIDHASKVLKID--KNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN  133 (153)
T ss_dssp             CHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT
T ss_pred             ccchhhhhhhcccccc--chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            8888888777776542  336677777777888888888888888776666664

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.66  E-value=0.00012  Score=54.01  Aligned_cols=95  Identities=9%  Similarity=-0.080  Sum_probs=78.2

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC--------HHHHHHH
Q 047393          151 RSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC--------PLIWRTL  222 (373)
Q Consensus       151 ~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~--------~~~~~~l  222 (373)
                      -.+-+.+.+.|++++|...|++..+..  +.+...+..+..+|.+.|++++|.+.+++++.+.|+        ..+|..+
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~~--p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKELD--PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC--cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            345567889999999999999997652  446888999999999999999999999997763331        2477788


Q ss_pred             HHHHHHcCCHHHHHHHHHHHhccCC
Q 047393          223 LLSSRVHGDMKLAKYALDKLLELDP  247 (373)
Q Consensus       223 i~~~~~~g~~~~A~~~~~~m~~~~P  247 (373)
                      ...+...+++++|...|+.....+|
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~~~  110 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAEHR  110 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCC
Confidence            8889999999999999999877543

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.65  E-value=0.0002  Score=55.49  Aligned_cols=80  Identities=11%  Similarity=-0.071  Sum_probs=59.3

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC-CHHHHHHHHH
Q 047393          146 NPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKL-CPLIWRTLLL  224 (373)
Q Consensus       146 ~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~li~  224 (373)
                      +...|..+..++.+.|++++|+..++...+..  +.+...|..+..+|.+.|++++|.+.|++++++.| +......+..
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~--p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~  153 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID--PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh--hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            34466777788888999999999998886531  33677888888999999999999999998777676 4455555544


Q ss_pred             HHH
Q 047393          225 SSR  227 (373)
Q Consensus       225 ~~~  227 (373)
                      ...
T Consensus       154 ~~~  156 (169)
T d1ihga1         154 VKQ  156 (169)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=97.60  E-value=0.013  Score=48.19  Aligned_cols=223  Identities=10%  Similarity=-0.092  Sum_probs=150.0

Q ss_pred             ChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcC----CCchHHHHHHHHHHHHcCCCCchhHHH
Q 047393           10 VEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLN----PILLNVGTQAQAYMTKRGLISHPAVGN   85 (373)
Q Consensus        10 ~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~m~~~g~~~~~~~~~   85 (373)
                      |...+..|-..+-+.+++++|++.|++..+.|   |...+..|-..+..    ..+...|...+....+.+.   .....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhh
Confidence            45567777778889999999999999998876   44444445555543    5688999999998887663   33344


Q ss_pred             HHHHHhHh----cCCHHHHHHHHccCCCC-ChhHHHHHHHHHHh----CCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 047393           86 CLININSR----CGKIDDADLAFKSTPEK-NSLSWTFIISARVN----HGHPSEALDLFKDKQWRYTSMNPTTFRSALKA  156 (373)
Q Consensus        86 ~li~~~~~----~g~~~~A~~~~~~m~~~-d~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~  156 (373)
                      .|...+..    ..+.+.|...++...+. .......+...+..    ......|...+......   .+...+..+...
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~  151 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSL  151 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhhhhhhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhh
Confidence            44444432    56788888888765432 33333334333332    34456666766665553   466777777777


Q ss_pred             HHc----cCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHh----cCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q 047393          157 YAL----MGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGR----AGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRV  228 (373)
Q Consensus       157 ~~~----~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~  228 (373)
                      +..    ..+...+..+++...+.    .+......+-..|..    ..+.++|..+|.++.+ .-++..+..|...|.+
T Consensus       152 ~~~~~~~~~~~~~~~~~~~~a~~~----g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~-~g~~~a~~~LG~~y~~  226 (265)
T d1ouva_         152 YDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACE-LENGGGCFNLGAMQYN  226 (265)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHH-TTCHHHHHHHHHHHHT
T ss_pred             hccCCCcccccccchhhhhccccc----cccccccchhhhcccCcccccchhhhhhhHhhhhc-ccCHHHHHHHHHHHHc
Confidence            764    46778888888877442    355555556555655    5689999999999655 3466677777777764


Q ss_pred             ----cCCHHHHHHHHHHHhccC
Q 047393          229 ----HGDMKLAKYALDKLLELD  246 (373)
Q Consensus       229 ----~g~~~~A~~~~~~m~~~~  246 (373)
                          .++.++|.+.|++....+
T Consensus       227 G~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         227 GEGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             TSSSSCCSTTHHHHHHHHHHHT
T ss_pred             CCCCccCHHHHHHHHHHHHHCc
Confidence                347889999999987754

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=97.60  E-value=0.00048  Score=53.26  Aligned_cols=95  Identities=8%  Similarity=-0.005  Sum_probs=67.4

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCC-HHHHHHHHHHH
Q 047393          148 TTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLC-PLIWRTLLLSS  226 (373)
Q Consensus       148 ~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~li~~~  226 (373)
                      ..|+.+..+|.+.|++++|...++...+..  +.+...|..+..+|...|++++|.+.|++++.+.|+ ...+..+-...
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~--p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~  142 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLD--SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQ  142 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcc--cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            356667778888999999999999887652  457788888889999999999999999997777774 44555444444


Q ss_pred             HHcCCH-HHHHHHHHHHhc
Q 047393          227 RVHGDM-KLAKYALDKLLE  244 (373)
Q Consensus       227 ~~~g~~-~~A~~~~~~m~~  244 (373)
                      .+.+.. +...+++..|.+
T Consensus       143 ~~~~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1         143 KKAKEHNERDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHHHHh
Confidence            444433 334455555554

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.59  E-value=0.00046  Score=54.06  Aligned_cols=121  Identities=11%  Similarity=0.088  Sum_probs=80.0

Q ss_pred             HHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHH
Q 047393           54 NSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALD  133 (373)
Q Consensus        54 ~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~  133 (373)
                      ......|++++|.+.|...++.-  +...        +......+-+...-..+.......+..+...+.+.|++++|+.
T Consensus        19 ~~~~~~g~~e~A~~~~~~AL~l~--rG~~--------l~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al~   88 (179)
T d2ff4a2          19 VHAAAAGRFEQASRHLSAALREW--RGPV--------LDDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVIA   88 (179)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTC--CSST--------TGGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhC--cccc--------cccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHHH
Confidence            45667788888888888776531  1100        0000000000000111111234567788889999999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHH----HcCCCCCHhH
Q 047393          134 LFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEE----VYHIEPSEEH  185 (373)
Q Consensus       134 l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~----~~g~~p~~~~  185 (373)
                      .++++.+.. +-+...|..++.++.+.|+.++|.+.|+++.+    ..|+.|...+
T Consensus        89 ~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          89 ELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            999988874 55788999999999999999999999988743    4688888765

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.38  E-value=0.012  Score=50.35  Aligned_cols=217  Identities=7%  Similarity=-0.008  Sum_probs=125.0

Q ss_pred             CCChhHHHHHHHHHHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHH
Q 047393            8 SDVEIPWNLLLKACIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCL   87 (373)
Q Consensus         8 ~p~~~~~n~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~l   87 (373)
                      .||..--..+..-|.+.|.++.|..+|..+..         |..++..+.+.++++.|.+.....      -+..+|..+
T Consensus        11 ~~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~------~~~~~~k~~   75 (336)
T d1b89a_          11 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEV   75 (336)
T ss_dssp             CC----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHH
T ss_pred             CCCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHc------CCHHHHHHH
Confidence            45655556677778899999999999987654         567778888889988887776543      256688888


Q ss_pred             HHHhHhcCCHHHHHHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHH
Q 047393           88 ININSRCGKIDDADLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAY  167 (373)
Q Consensus        88 i~~~~~~g~~~~A~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~  167 (373)
                      ...+.+..+...|.-+ ......+...-..++..|-..|.+++...+++..... -.++...++-++..|++.+ .++-.
T Consensus        76 ~~~l~~~~e~~la~i~-~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~-~~kl~  152 (336)
T d1b89a_          76 CFACVDGKEFRLAQMC-GLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFK-PQKMR  152 (336)
T ss_dssp             HHHHHHTTCHHHHHHT-TTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC-HHHHH
T ss_pred             HHHHHhCcHHHHHHHH-HHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC-hHHHH
Confidence            8888887777665432 2212234444567888899999999998888876533 2567778888888888865 33433


Q ss_pred             HHHHHhHHHcCCCCC--------HhHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 047393          168 RLFLSMEEVYHIEPS--------EEHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYAL  239 (373)
Q Consensus       168 ~~~~~m~~~~g~~p~--------~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  239 (373)
                      +.++....  .+.+.        ...|.-++-.|.+.|.+++|..++-. -  .++..-....+..+.+..+.+...++.
T Consensus       153 e~l~~~s~--~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~-~--~~~~~~~~~f~e~~~k~~N~e~~~~~i  227 (336)
T d1b89a_         153 EHLELFWS--RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMN-H--PTDAWKEGQFKDIITKVANVELYYRAI  227 (336)
T ss_dssp             HHHHHHST--TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHH-S--TTTTCCHHHHHHHHHHCSSTHHHHHHH
T ss_pred             HHHHhccc--cCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHHH-c--chhhhhHHHHHHHHHccCChHHHHHHH
Confidence            33333211  11211        12344556666666666666655433 1  122223344555666666666666655


Q ss_pred             HHHhccCC
Q 047393          240 DKLLELDP  247 (373)
Q Consensus       240 ~~m~~~~P  247 (373)
                      ....+..|
T Consensus       228 ~~yL~~~p  235 (336)
T d1b89a_         228 QFYLEFKP  235 (336)
T ss_dssp             HHHHHHCG
T ss_pred             HHHHHcCH
Confidence            55554444

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.37  E-value=0.0011  Score=51.80  Aligned_cols=112  Identities=12%  Similarity=0.008  Sum_probs=75.2

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcC
Q 047393          118 IISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAG  197 (373)
Q Consensus       118 li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g  197 (373)
                      ........|++++|.+.|.+....-  ++..     +..+ ..+.+  +...-..+...     ....+..+...+.+.|
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~-----l~~~-~~~~w--~~~~r~~l~~~-----~~~a~~~la~~~~~~g   81 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREW--RGPV-----LDDL-RDFQF--VEPFATALVED-----KVLAHTAKAEAEIACG   81 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTC--CSST-----TGGG-TTSTT--HHHHHHHHHHH-----HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhC--cccc-----cccC-cchHH--HHHHHHHHHHH-----HHHHHHHHHHHHHHCC
Confidence            3356778889999988888876531  1110     0000 01111  11111111111     2356777888999999


Q ss_pred             CHHHHHHHHHhhCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Q 047393          198 MFEEVLEFIKGIVPGKL-CPLIWRTLLLSSRVHGDMKLAKYALDKLLE  244 (373)
Q Consensus       198 ~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  244 (373)
                      ++++|...+++++...| +...|..++.+|.+.|+.++|.+.|++..+
T Consensus        82 ~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~  129 (179)
T d2ff4a2          82 RASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKT  129 (179)
T ss_dssp             CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            99999999999777777 778999999999999999999999998754

>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=97.35  E-value=0.00024  Score=53.64  Aligned_cols=89  Identities=8%  Similarity=-0.052  Sum_probs=56.2

Q ss_pred             ccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHh----------cCCHHHHHHHHHhhCCCCC-CHHHHHHHHHHHH
Q 047393          159 LMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGR----------AGMFEEVLEFIKGIVPGKL-CPLIWRTLLLSSR  227 (373)
Q Consensus       159 ~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~----------~g~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~  227 (373)
                      +.+.+++|...|+...+..  |.+...+..+-.+|..          .+.+++|...|++++++.| ++.+|..+..+|.
T Consensus         9 r~~~fe~A~~~~e~al~~~--P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~   86 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSN--PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYT   86 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhC--CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHH
Confidence            3444555555555554431  2244444444444442          2345677788877777666 5677777777776


Q ss_pred             HcC-----------CHHHHHHHHHHHhccCCCC
Q 047393          228 VHG-----------DMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       228 ~~g-----------~~~~A~~~~~~m~~~~P~~  249 (373)
                      ..|           ++++|.+.|++.++++|++
T Consensus        87 ~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~  119 (145)
T d1zu2a1          87 SFAFLTPDETEAKHNFDLATQFFQQAVDEQPDN  119 (145)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HcccchhhHHHHHHhHHHhhhhhhcccccCCCH
Confidence            654           3688999999999999877

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.30  E-value=0.00056  Score=57.16  Aligned_cols=123  Identities=14%  Similarity=0.018  Sum_probs=87.7

Q ss_pred             HhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCC-HhHHHHHHHHHHhcCCHHH
Q 047393          123 VNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPS-EEHYSIMVEALGRAGMFEE  201 (373)
Q Consensus       123 ~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~-~~~~~~li~~~~~~g~~~~  201 (373)
                      .+.|++++|+..+++..+.. +-|...+..+...++..|++++|...++...+.   .|+ ...+..+...+...+..++
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l---~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHhccccHH
Confidence            46799999999999998874 557889999999999999999999999998654   564 4444444444444444444


Q ss_pred             HHHHHHhh-CCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          202 VLEFIKGI-VPGKLC-PLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       202 A~~~~~~~-~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      +..-.... ....|+ ...+......+...|+.++|...++++.+..|+.
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~  132 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEK  132 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCC
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCC
Confidence            33322221 112332 2444455667888999999999999999988877

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.26  E-value=0.00044  Score=52.71  Aligned_cols=91  Identities=19%  Similarity=0.036  Sum_probs=55.6

Q ss_pred             HHccCCHHHHHHHHHHhHHHcCCCCC----------HhHHHHHHHHHHhcCCHHHHHHHHHhhCC-------CCCC----
Q 047393          157 YALMGLVGEAYRLFLSMEEVYHIEPS----------EEHYSIMVEALGRAGMFEEVLEFIKGIVP-------GKLC----  215 (373)
Q Consensus       157 ~~~~g~~~~a~~~~~~m~~~~g~~p~----------~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~~p~----  215 (373)
                      +.+.|++++|...|++..+-..-.|+          ...|+.+..+|.+.|++++|.+-+++++.       ..++    
T Consensus        19 ~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~   98 (156)
T d2hr2a1          19 QLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKL   98 (156)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccch
Confidence            33445555555555555432221121          24556666666777777766666655432       2222    


Q ss_pred             -HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCC
Q 047393          216 -PLIWRTLLLSSRVHGDMKLAKYALDKLLELDP  247 (373)
Q Consensus       216 -~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P  247 (373)
                       ...++.+..+|...|++++|...|++..++.|
T Consensus        99 ~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~  131 (156)
T d2hr2a1          99 WISAVYSRALALDGLGRGAEAMPEFKKVVEMIE  131 (156)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             hHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence             13567778889999999999999999888544

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.12  E-value=0.00037  Score=58.28  Aligned_cols=50  Identities=12%  Similarity=0.072  Sum_probs=26.4

Q ss_pred             CCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCC
Q 047393           58 NPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTP  108 (373)
Q Consensus        58 ~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  108 (373)
                      +.|++++|...+++.++.. +-|...+..+...|+..|++++|.+.|+...
T Consensus         8 ~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~   57 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSI   57 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            3455555555555555543 3444555555555555555555555555443

>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=97.02  E-value=0.00061  Score=47.10  Aligned_cols=62  Identities=18%  Similarity=0.155  Sum_probs=36.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhhCCC-------CCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          188 IMVEALGRAGMFEEVLEFIKGIVPG-------KLC-PLIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       188 ~li~~~~~~g~~~~A~~~~~~~~~~-------~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      -+...+.+.|++++|...|+++++.       .++ ..+++.+..++.+.|++++|...++++++++|++
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~   79 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEH   79 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCC
Confidence            4445555556666665555554321       112 3566667777777777777777777777766654

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=96.88  E-value=0.0017  Score=48.66  Aligned_cols=110  Identities=10%  Similarity=-0.024  Sum_probs=66.4

Q ss_pred             hCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc----------cCCHHHHHHHHHHhHHHcCCCC-CHhHHHHHHHH
Q 047393          124 NHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYAL----------MGLVGEAYRLFLSMEEVYHIEP-SEEHYSIMVEA  192 (373)
Q Consensus       124 ~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~----------~g~~~~a~~~~~~m~~~~g~~p-~~~~~~~li~~  192 (373)
                      +.+.+++|.+.|+...+.. +-+..++..+-.++..          .+.+++|...|++..+-   .| +..+|..+..+
T Consensus         9 r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l---~P~~~~a~~~lG~~   84 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLI---DPKKDEAVWCIGNA   84 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHh---cchhhHHHhhHHHH
Confidence            4445666666666665553 3344455555444442          23456777777777554   34 56677777777


Q ss_pred             HHhcC-----------CHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Q 047393          193 LGRAG-----------MFEEVLEFIKGIVPGKLCPLIWRTLLLSSRVHGDMKLAKYALDKLL  243 (373)
Q Consensus       193 ~~~~g-----------~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  243 (373)
                      |...|           .+++|.+.|++++.+.|+...|...+..+      .+|.+++.++.
T Consensus        85 y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~------~ka~~~~~e~~  140 (145)
T d1zu2a1          85 YTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMT------AKAPQLHAEAY  140 (145)
T ss_dssp             HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH------HTHHHHHHHHH
T ss_pred             HHHcccchhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHHH------HHHHHHHHHHH
Confidence            76544           35788888988887888766666555443      34555555544

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.64  E-value=0.0078  Score=45.34  Aligned_cols=99  Identities=13%  Similarity=-0.017  Sum_probs=67.7

Q ss_pred             hHHHHH--HHHHHhCCChHHHHHHHHHHHHcCC-CCC----------HHHHHHHHHHHHccCCHHHHHHHHHHhHHHc--
Q 047393          113 LSWTFI--ISARVNHGHPSEALDLFKDKQWRYT-SMN----------PTTFRSALKAYALMGLVGEAYRLFLSMEEVY--  177 (373)
Q Consensus       113 ~~~~~l--i~~~~~~g~~~~A~~l~~~m~~~g~-~p~----------~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~--  177 (373)
                      .+|..+  ...+.+.|++++|++.|++..+..- .|+          ...|+.+-.+|.+.|++++|...+++..+-.  
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  3445566888888888877765311 121          3577888888899999999988888875421  


Q ss_pred             --CCCCC-----HhHHHHHHHHHHhcCCHHHHHHHHHhhCC
Q 047393          178 --HIEPS-----EEHYSIMVEALGRAGMFEEVLEFIKGIVP  211 (373)
Q Consensus       178 --g~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~  211 (373)
                        ...++     ...++.+..+|...|++++|.+.|+++++
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              11222     23566778899999999999999988654

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=96.62  E-value=0.16  Score=43.05  Aligned_cols=213  Identities=8%  Similarity=-0.020  Sum_probs=103.6

Q ss_pred             HHHHHHHHHHcCCHhHHHHHHHHHH------------------------hcCCCCCHHHHHHHHHHHcCCCchHHHHHHH
Q 047393           14 WNLLLKACIKAKDYEMVHELLERIQ------------------------LCCGFIDSYSICDILNSCLNPILLNVGTQAQ   69 (373)
Q Consensus        14 ~n~li~~~~~~g~~~~A~~l~~~m~------------------------~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~   69 (373)
                      |..++..+.+.+++..|.+++.+..                        ..+...++.....++..|-..|.+++...++
T Consensus        43 ~~rl~~~~v~l~~~~~avd~~~k~~~~~~~k~~~~~l~~~~e~~la~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~L  122 (336)
T d1b89a_          43 FGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITML  122 (336)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHcCCHHHHHHHHHHHHhCcHHHHHHHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHH
Confidence            4456777777777777766654431                        0112223334445555555556666666666


Q ss_pred             HHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCCC-----------ChhHHHHHHHHHHhCCChHHHHHHHHHH
Q 047393           70 AYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPEK-----------NSLSWTFIISARVNHGHPSEALDLFKDK  138 (373)
Q Consensus        70 ~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----------d~~~~~~li~~~~~~g~~~~A~~l~~~m  138 (373)
                      +..... -..+...++-++..|++.+. ++-.+.+......           ...-|.-++-.|.+.|++++|..+.   
T Consensus       123 e~~~~~-~~~~~~~~~~L~~lyak~~~-~kl~e~l~~~s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~---  197 (336)
T d1b89a_         123 EAALGL-ERAHMGMFTELAILYSKFKP-QKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM---  197 (336)
T ss_dssp             HHHTTS-TTCCHHHHHHHHHHHHTTCH-HHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHH---
T ss_pred             HHHHcC-CccchHHHHHHHHHHHHhCh-HHHHHHHHhccccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHH---
Confidence            554322 13455566666666666543 3333333322111           1122444445555555555544332   


Q ss_pred             HHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhcCCHHHHHHHHHhh---------
Q 047393          139 QWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRAGMFEEVLEFIKGI---------  209 (373)
Q Consensus       139 ~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~---------  209 (373)
                      .+.  .|+..-....+..+.+..+++...++.......   .|+  ..+.++......-+..+..+.+++.         
T Consensus       198 i~~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~---~p~--~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~  270 (336)
T d1b89a_         198 MNH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF---KPL--LLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPY  270 (336)
T ss_dssp             HHS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH---CGG--GHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHH
T ss_pred             HHc--chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc---CHH--HHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHH
Confidence            111  222222333444455566666555555544332   232  2234444444444445555554441         


Q ss_pred             ---CCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 047393          210 ---VPGKLCPLIWRTLLLSSRVHGDMKLAKYA  238 (373)
Q Consensus       210 ---~~~~p~~~~~~~li~~~~~~g~~~~A~~~  238 (373)
                         .....+....+++.+.|...++++.-.+.
T Consensus       271 Le~v~~~n~~~vn~al~~lyie~~d~~~l~~~  302 (336)
T d1b89a_         271 LRSVQNHNNKSVNESLNNLFITEEDYQALRTS  302 (336)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHcChHHHHHHHHHHHhCcchhHHHHHH
Confidence               11123456778888888888886554433

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.54  E-value=0.0034  Score=57.38  Aligned_cols=113  Identities=11%  Similarity=-0.037  Sum_probs=50.9

Q ss_pred             hhHHHHHHHHhHhcCCHHHHHHHHccCCCCC-hhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHc
Q 047393           81 PAVGNCLININSRCGKIDDADLAFKSTPEKN-SLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYAL  159 (373)
Q Consensus        81 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~d-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~  159 (373)
                      ...+..+...+.+.|+.++|...++....++ ..++..+...+...|++++|...|++..+.. +-+...|+.+-..+..
T Consensus       120 ~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~  198 (497)
T d1ya0a1         120 RVKSSQLGIISNKQTHTSAIVKPQSSSCSYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASS  198 (497)
T ss_dssp             -----------------------CCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHH
T ss_pred             HHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            4445555555666666666665554433222 2344555666666666777766666666552 2334566666666666


Q ss_pred             cCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHHHHHhc
Q 047393          160 MGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVEALGRA  196 (373)
Q Consensus       160 ~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~~~~~~  196 (373)
                      .|+..+|...|.+....  -+|-...+..|...|.+.
T Consensus       199 ~~~~~~A~~~y~ral~~--~~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         199 KGDHLTTIFYYCRSIAV--KFPFPAASTNLQKALSKA  233 (497)
T ss_dssp             TTCHHHHHHHHHHHHSS--SBCCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhC--CCCCHHHHHHHHHHHHHh
Confidence            66666666666665432  244555666666555443

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.53  E-value=0.011  Score=53.72  Aligned_cols=132  Identities=7%  Similarity=-0.072  Sum_probs=79.5

Q ss_pred             hcCCHHHHHHHHccCCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHH
Q 047393           93 RCGKIDDADLAFKSTPE---KNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRL  169 (373)
Q Consensus        93 ~~g~~~~A~~~~~~m~~---~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~  169 (373)
                      ..+.++.|+..+.....   ++...+..+...+.+.|+.++|...++...+..   ...++..+-+.+...|++++|...
T Consensus        98 a~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~  174 (497)
T d1ya0a1          98 ASGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESY  174 (497)
T ss_dssp             HHHHHHHHHHHHTC-------------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHH
Confidence            34566777776665432   356677778888888999998888776654431   135677788888999999999999


Q ss_pred             HHHhHHHcCCCC-CHhHHHHHHHHHHhcCCHHHHHHHHHhhCCC-CCCHHHHHHHHHHHHHcC
Q 047393          170 FLSMEEVYHIEP-SEEHYSIMVEALGRAGMFEEVLEFIKGIVPG-KLCPLIWRTLLLSSRVHG  230 (373)
Q Consensus       170 ~~~m~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~li~~~~~~g  230 (373)
                      |++..+.   .| +...|+.|...+...|+..+|...|.+++.. .|-+.++..|...+.+..
T Consensus       175 y~~A~~l---~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         175 YRHAAQL---VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHHHH---CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHH---CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhh
Confidence            9998654   45 5689999999999999999999999988774 456778888887776543

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.47  E-value=0.0076  Score=41.20  Aligned_cols=31  Identities=13%  Similarity=0.118  Sum_probs=15.9

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHhhCCCCC
Q 047393          184 EHYSIMVEALGRAGMFEEVLEFIKGIVPGKL  214 (373)
Q Consensus       184 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p  214 (373)
                      .+++.+..+|.+.|++++|.+.+++++++.|
T Consensus        47 ~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P   77 (95)
T d1tjca_          47 SVLDYLSYAVYQQGDLDKALLLTKKLLELDP   77 (95)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHhhHHHhcCChHHHHHHHHHHHHhCc
Confidence            3444455555555555555555555444444

>d1ouva_ a.118.18.1 (A:) Cysteine rich protein C (HcpC) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein C (HcpC)
species: Helicobacter pylori [TaxId: 210]

Probab=96.46  E-value=0.16  Score=41.05  Aligned_cols=191  Identities=9%  Similarity=-0.067  Sum_probs=130.9

Q ss_pred             CHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHh----cCCHHHHHHHHccCCCC-ChhHHHHHH
Q 047393           45 DSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSR----CGKIDDADLAFKSTPEK-NSLSWTFII  119 (373)
Q Consensus        45 ~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~-d~~~~~~li  119 (373)
                      |+..+..|-..+-+.++.++|.++|+...+.|   +...+..|-..|..    ..+...|...+....++ +......+.
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~~~a~~~l~   77 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLG   77 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccccchhhccc
Confidence            34455666666778899999999999998877   45556566666765    56888898888776543 455555555


Q ss_pred             HHHHh----CCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH----ccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHH
Q 047393          120 SARVN----HGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYA----LMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE  191 (373)
Q Consensus       120 ~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~----~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  191 (373)
                      ..+..    ..+.+.|...++...+.|..   .....+...+.    .......+...+.....    ..+...+..|..
T Consensus        78 ~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~L~~  150 (265)
T d1ouva_          78 NLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACD----LNDGDGCTILGS  150 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH----TTCHHHHHHHHH
T ss_pred             cccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhc----ccccchhhhhhh
Confidence            55543    46778899999988877632   22222222222    34567777777776633    356677777887


Q ss_pred             HHHh----cCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHhccC
Q 047393          192 ALGR----AGMFEEVLEFIKGIVPGKLCPLIWRTLLLSSRV----HGDMKLAKYALDKLLELD  246 (373)
Q Consensus       192 ~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~  246 (373)
                      .|..    ..+...+..+++...+ ..++.....+-..|..    ..+.++|...|++..+.+
T Consensus       151 ~~~~~~~~~~~~~~~~~~~~~a~~-~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g  212 (265)
T d1ouva_         151 LYDAGRGTPKDLKKALASYDKACD-LKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE  212 (265)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT
T ss_pred             hhccCCCcccccccchhhhhcccc-ccccccccchhhhcccCcccccchhhhhhhHhhhhccc
Confidence            7776    4567778888887444 4567777667666665    568999999999988754

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=93.90  E-value=0.51  Score=33.60  Aligned_cols=47  Identities=9%  Similarity=-0.070  Sum_probs=27.6

Q ss_pred             CCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcC
Q 047393           25 KDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRG   76 (373)
Q Consensus        25 g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g   76 (373)
                      .++++|++.|++..+.|.   ...+..|.  .....+.++|.++++...+.|
T Consensus         7 kd~~~A~~~~~kaa~~g~---~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g   53 (133)
T d1klxa_           7 KDLKKAIQYYVKACELNE---MFGCLSLV--SNSQINKQKLFQYLSKACELN   53 (133)
T ss_dssp             HHHHHHHHHHHHHHHTTC---TTHHHHHH--TCTTSCHHHHHHHHHHHHHTT
T ss_pred             cCHHHHHHHHHHHHHCCC---hhhhhhhc--cccccCHHHHHHHHhhhhccc
Confidence            356788888888777652   22222222  233456677777777666655

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.36  E-value=0.27  Score=34.81  Aligned_cols=69  Identities=13%  Similarity=0.009  Sum_probs=45.0

Q ss_pred             CCHhHHHHHHHHHHhcC---CHHHHHHHHHhhCCCCC-CH-HHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCC
Q 047393          181 PSEEHYSIMVEALGRAG---MFEEVLEFIKGIVPGKL-CP-LIWRTLLLSSRVHGDMKLAKYALDKLLELDPGM  249 (373)
Q Consensus       181 p~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~~~p-~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~~P~~  249 (373)
                      |++.|--...-++.+..   +++++..+|++..+..| +. ..+.-|.-+|.+.|++++|.+.++.+++++|++
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n  106 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNN  106 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTC
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCc
Confidence            34444444444555443   44567777777554444 32 466667777888888888888888888888765

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=92.31  E-value=1.2  Score=31.32  Aligned_cols=121  Identities=12%  Similarity=0.078  Sum_probs=87.8

Q ss_pred             HHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCC----------------CHhH
Q 047393          122 RVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEP----------------SEEH  185 (373)
Q Consensus       122 ~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p----------------~~~~  185 (373)
                      +.-.|..++..+++.+....   .+..-||.+|.-....-+-+...++++.+-+-+.+.|                +...
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~Nlk~vv~C~~~~n~~se~   88 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEH   88 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCchhhhcHHHHHHHHHHhcchHHH
Confidence            34567777777877777654   2566677777666666677777777666633332222                2344


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhhCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Q 047393          186 YSIMVEALGRAGMFEEVLEFIKGIVP-GKLCPLIWRTLLLSSRVHGDMKLAKYALDKLLEL  245 (373)
Q Consensus       186 ~~~li~~~~~~g~~~~A~~~~~~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  245 (373)
                      ++..++.+...|+-+.-.++++..++ -+|++...-.+..+|.+.|...++.+++.+..+.
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~  149 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKK  149 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH
Confidence            56667888888998888888887555 6789999999999999999999999999998764

>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=92.17  E-value=1.3  Score=31.27  Aligned_cols=77  Identities=9%  Similarity=-0.098  Sum_probs=39.7

Q ss_pred             chHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHHHHHHccCCC-CChhHHHHHHHHHHh----CCChHHHHHHH
Q 047393           61 LLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDADLAFKSTPE-KNSLSWTFIISARVN----HGHPSEALDLF  135 (373)
Q Consensus        61 ~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~d~~~~~~li~~~~~----~g~~~~A~~l~  135 (373)
                      +.++|.++|++..+.|..   ..+..|.  .....+.++|.+.|++..+ .++.++..|-..|..    ..+.++|.++|
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~~g~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~   82 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYY   82 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhcccchhhhhhHHHhhhhccccchhhHHHHHHH
Confidence            677888888888777632   2222232  2223455666666654332 244444444444433    23445555655


Q ss_pred             HHHHHcC
Q 047393          136 KDKQWRY  142 (373)
Q Consensus       136 ~~m~~~g  142 (373)
                      ++..+.|
T Consensus        83 ~~aa~~g   89 (133)
T d1klxa_          83 SKACGLN   89 (133)
T ss_dssp             HHHHHTT
T ss_pred             hhhhccC
Confidence            5555544

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=89.23  E-value=2.6  Score=29.66  Aligned_cols=140  Identities=8%  Similarity=-0.042  Sum_probs=87.5

Q ss_pred             HHHcCCHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHHHhHhcCCHHHH
Q 047393           21 CIKAKDYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLININSRCGKIDDA  100 (373)
Q Consensus        21 ~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  100 (373)
                      +.-.|.+++..++..+....   .+..-||-++.-....-+.+...+.++..-+.   .|          ..+++++...
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FD----------ls~C~Nlk~v   75 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FD----------LDKCQNLKSV   75 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SC----------GGGCSCTHHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cC----------chhhhcHHHH
Confidence            34567777777777776653   23444555555444444555555544443211   11          2344455555


Q ss_pred             HHHHccCCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCC
Q 047393          101 DLAFKSTPEKNSLSWTFIISARVNHGHPSEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHI  179 (373)
Q Consensus       101 ~~~~~~m~~~d~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~  179 (373)
                      ...+-.+.. +....+.-++...+.|+-+.-.++++.+.+.+ .|++.....+.+||.+.|+..++..++.+..+. |+
T Consensus        76 v~C~~~~n~-~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~-G~  151 (161)
T d1wy6a1          76 VECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKK-GE  151 (161)
T ss_dssp             HHHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHHhcc-hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH-hH
Confidence            544444432 33345566778888888888888888876643 788888888889999999999999888888665 54

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=87.42  E-value=2.7  Score=27.88  Aligned_cols=61  Identities=16%  Similarity=0.156  Sum_probs=45.0

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHhHHHcCCCCCHhHHHHHHH
Q 047393          129 SEALDLFKDKQWRYTSMNPTTFRSALKAYALMGLVGEAYRLFLSMEEVYHIEPSEEHYSIMVE  191 (373)
Q Consensus       129 ~~A~~l~~~m~~~g~~p~~~t~~~ll~~~~~~g~~~~a~~~~~~m~~~~g~~p~~~~~~~li~  191 (373)
                      -++.+-++.+....+.|+.....+.+.||.+.+++..|.++++..+.+.  .++...|..+++
T Consensus        23 we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~--~~~k~~y~yilq   83 (105)
T d1v54e_          23 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA--GPHKEIYPYVIQ   83 (105)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TTCTTHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh--cCcHHHHHHHHH
Confidence            3455556666666788999999999999999999999999998886543  345556766654

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=87.02  E-value=1.5  Score=29.24  Aligned_cols=63  Identities=10%  Similarity=-0.006  Sum_probs=46.2

Q ss_pred             CHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 047393           26 DYEMVHELLERIQLCCGFIDSYSICDILNSCLNPILLNVGTQAQAYMTKRGLISHPAVGNCLIN   89 (373)
Q Consensus        26 ~~~~A~~l~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~m~~~g~~~~~~~~~~li~   89 (373)
                      +.-++.+-++.+....+.|++....+.++||.|.+++..|.++++-.+.. +.++...|..++.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHH
Confidence            34456666667777778899999999999999999999999999887543 2345566766554

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=84.78  E-value=2.8  Score=29.29  Aligned_cols=69  Identities=3%  Similarity=-0.067  Sum_probs=45.3

Q ss_pred             CCHHHHHHHHHHHHcc---CCHHHHHHHHHHhHHHcCCCC-CH-hHHHHHHHHHHhcCCHHHHHHHHHhhCCCCCCH
Q 047393          145 MNPTTFRSALKAYALM---GLVGEAYRLFLSMEEVYHIEP-SE-EHYSIMVEALGRAGMFEEVLEFIKGIVPGKLCP  216 (373)
Q Consensus       145 p~~~t~~~ll~~~~~~---g~~~~a~~~~~~m~~~~g~~p-~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~~p~~  216 (373)
                      |...|--...-++.++   .++++|..++++..+.   .| +. ..+-.|.-+|.+.|++++|.+.+++++++.|+.
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~---~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n  106 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKE---AESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNN  106 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTC
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhc---CchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCc
Confidence            4444444444444444   4566788888887654   34 32 344566677888899999999888877777754