Citrus Sinensis ID: 006997

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620--
Protein Sequence
MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLLEAGYIAEADIVP
Secondary Structure (PSIPRED)
cHHHHHHccccHHHHHHHHHHHHcccccccccHHHHHHHHHcccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccccEEEHHHHHHHHHcccccHHHHHHHHHHHHcccccccEEHHHHHHHHcHHHHHHHHHHHHHHccccccccccHHHHHHHHHcccHHHHHHHHcccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHcccccccEEEHHHHHHHHHccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHHcccccccccHHHHHHHHccccHHHHHHHHccccccccccHHHHHHHHHHcccHHHHHHHHHHcHHcccccccHHHHHHHHHHcccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHHHccccccccEEEEEEccEEEEEEccccccccHHHHHHHHHHHHHHHHHccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccEHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEccEEEEEEEcccccccHHHHHHHHHHHHHHHHHccccccccccc
Coil and Loop (DISEMBL)
mirnstnngsfeETLSTYSSMLqtgvhgnsftFPLVLKACANInsiwdgkrvhsHVLKVGFQQDAFVQTGLIDmyskcsdfvssrkvldempvRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSgcsfrqgisMHCCVYKLgllnneiplANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCnqmrrmsvTPDLVVFLNLILGCAQVGNLFLALSMHSLLLksgynnedpldNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGgyaqlgypsEAVNLFKRLLKtsvrpneaTLATTLSACAElgslskgkeiEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEvfervpdkDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSAcshsgmvddGLSFFKSMqsnfgiepsiEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKnlltlnpgstgNYILMANLFTSAGMWKEAATArglmddrrltkepgwsqveidgsVQVFVAGDRSHHLSVDIRKTLKELHIKLLEAgyiaeadivp
Flexible Loop (DISEMBL)
mirnstnngsfEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACaelgslskgkEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLleagyiaeadivp
Low Complexity Region (SEG)
MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNlflalsmhslllksGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLLEAGYIAEADIVP
Disordered region (IsUnstruct)
*******************SMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLLEAGYIAEA****
Disordered Region (DISOPRED)
MIRNST*NGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLLEAGYIAEADIVP
Disordered Region (DISEMBL)
***********EETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLLEAGYIAEADIVP
Disordered Region (DISPRO)
MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLLEAGYIAEADI**
Transmembrane Helix (TMHMM)
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Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
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Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLLEAGYIAEADIVP
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	622	2.2.26 [Sep-21-2011]
Q9SN39	871	Pentatricopeptide repeat-	yes	no	0.974	0.695	0.360	1e-118
Q9LTV8	694	Pentatricopeptide repeat-	no	no	0.943	0.845	0.350	1e-111
Q9LFL5	850	Pentatricopeptide repeat-	no	no	0.983	0.72	0.346	1e-110
O49619	804	Pentatricopeptide repeat-	no	no	0.935	0.723	0.35	1e-108
O81767	823	Pentatricopeptide repeat-	no	no	0.979	0.739	0.343	1e-108
P0C8Q2	654	Pentatricopeptide repeat-	no	no	0.943	0.897	0.341	1e-107
Q3E6Q1	809	Pentatricopeptide repeat-	no	no	0.993	0.763	0.342	1e-105
Q9FLZ9	677	Pentatricopeptide repeat-	no	no	0.924	0.849	0.347	1e-103
Q9ZUW3	868	Pentatricopeptide repeat-	no	no	0.975	0.699	0.337	1e-103
Q9SVA5	834	Pentatricopeptide repeat-	no	no	0.971	0.724	0.331	1e-102

>sp|Q9SN39|PP320_ARATH Pentatricopeptide repeat-containing protein At4g18750, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H45 PE=2 SV=1

 Score =  425 bits (1092), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 221/613 (36%), Positives = 356/613 (58%), Gaps = 7/613 (1%)

Query: 6   TNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDA 65
             +G F  ++  +  M+ +GV  +S+TF  V K+ +++ S+  G+++H  +LK GF +  
Sbjct: 171 AKSGDFSGSIGLFKKMMSSGVEMDSYTFSCVSKSFSSLRSVHGGEQLHGFILKSGFGERN 230

Query: 66  FVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMW 125
            V   L+  Y K     S+RKV DEM  R   V+SWNSII+ +    L ++ + V  +M 
Sbjct: 231 SVGNSLVAFYLKNQRVDSARKVFDEMTER--DVISWNSIINGYVSNGLAEKGLSVFVQML 288

Query: 126 VLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGL---LNNEIPLANSVMSMYAKFGKVN 182
           V G+E+  +T VSV +GC+  + IS+   V+ +G+    + E    N+++ MY+K G ++
Sbjct: 289 VSGIEIDLATIVSVFAGCADSRLISLGRAVHSIGVKACFSREDRFCNTLLDMYSKCGDLD 348

Query: 183 EARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCA 242
            A+++F E+ + S+VS+T++I GY   G   EA  L  +M    ++PD+     ++  CA
Sbjct: 349 SAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEGISPDVYTVTAVLNCCA 408

Query: 243 QVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTS 302
           +   L     +H  + ++    +  + N L+ MY KCG ++ A  VF  +  K +  W +
Sbjct: 409 RYRLLDEGKRVHEWIKENDLGFDIFVSNALMDMYAKCGSMQEAELVFSEMRVKDIISWNT 468

Query: 303 MIGGYAQLGYPSEAVNLFKRLLKTS-VRPNEATLATTLSACAELGSLSKGKEIEEYIVLN 361
           +IGGY++  Y +EA++LF  LL+     P+E T+A  L ACA L +  KG+EI  YI+ N
Sbjct: 469 IIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSAFDKGREIHGYIMRN 528

Query: 362 GLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLF 421
           G  S+R V  SL+ M++KCG +  A  +F+ +  KDL  W+ MI GY +HG G +A+ LF
Sbjct: 529 GYFSDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVMIAGYGMHGFGKEAIALF 588

Query: 422 YKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLG 481
            +M+   G++ D + + S+L ACSHSG+VD+G  FF  M+    IEP++EHY C+VD+L 
Sbjct: 589 NQMRQA-GIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECKIEPTVEHYACIVDMLA 647

Query: 482 RAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYIL 541
           R G    A + I  MP+   A +W  LL  C  HH+V+L E  A+ +  L P +TG Y+L
Sbjct: 648 RTGDLIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLAEKVAEKVFELEPENTGYYVL 707

Query: 542 MANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKT 601
           MAN++  A  W++    R  +  R L K PG S +EI G V +FVAGD S+  + +I   
Sbjct: 708 MANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGRVNIFVAGDSSNPETENIEAF 767

Query: 602 LKELHIKLLEAGY 614
           L+++  +++E GY
Sbjct: 768 LRKVRARMIEEGY 780

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LTV8|PP224_ARATH Pentatricopeptide repeat-containing protein At3g12770 OS=Arabidopsis thaliana GN=PCMP-H43 PE=2 SV=1

 Score =  404 bits (1038), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 211/602 (35%), Positives = 352/602 (58%), Gaps = 15/602 (2%)

Query: 24  TGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVS 83
           +G+H +SF   L+  A          K++H+ +L +G Q   F+ T LI   S   D   
Sbjct: 16  SGIHSDSFYASLIDSATHKAQL----KQIHARLLVLGLQFSGFLITKLIHASSSFGDITF 71

Query: 84  SRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGC 143
           +R+V D++P     +  WN+II  +SR     +A+L+   M +  +   + TF  ++  C
Sbjct: 72  ARQVFDDLP--RPQIFPWNAIIRGYSRNNHFQDALLMYSNMQLARVSPDSFTFPHLLKAC 129

Query: 144 S----FRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFD--EIGETSIV 197
           S     + G  +H  V++LG  + ++ + N ++++YAK  ++  AR++F+   + E +IV
Sbjct: 130 SGLSHLQMGRFVHAQVFRLGF-DADVFVQNGLIALYAKCRRLGSARTVFEGLPLPERTIV 188

Query: 198 SWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLL 257
           SWT I+  Y   G   EA  + +QMR+M V PD V  ++++     + +L    S+H+ +
Sbjct: 189 SWTAIVSAYAQNGEPMEALEIFSQMRKMDVKPDWVALVSVLNAFTCLQDLKQGRSIHASV 248

Query: 258 LKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAV 317
           +K G   E  L   L +MY KCG +  A+ +FD +   ++ LW +MI GYA+ GY  EA+
Sbjct: 249 VKMGLEIEPDLLISLNTMYAKCGQVATAKILFDKMKSPNLILWNAMISGYAKNGYAREAI 308

Query: 318 NLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMF 377
           ++F  ++   VRP+  ++ + +SACA++GSL + + + EY+  +    +  + ++LI MF
Sbjct: 309 DMFHEMINKDVRPDTISITSAISACAQVGSLEQARSMYEYVGRSDYRDDVFISSALIDMF 368

Query: 378 SKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVY 437
           +KCG +  A+ VF+R  D+D+ VWSAMI GY +HG   +A++L+  M+   G+ P+ V +
Sbjct: 369 AKCGSVEGARLVFDRTLDRDVVVWSAMIVGYGLHGRAREAISLYRAMER-GGVHPNDVTF 427

Query: 438 TSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP 497
             +L AC+HSGMV +G  FF  M ++  I P  +HY C++DLLGRAG  D A + I  MP
Sbjct: 428 LGLLMACNHSGMVREGWWFFNRM-ADHKINPQQQHYACVIDLLGRAGHLDQAYEVIKCMP 486

Query: 498 VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAAT 557
           V+    VW  LLSAC KH +VELGEYAA+ L +++P +TG+Y+ ++NL+ +A +W   A 
Sbjct: 487 VQPGVTVWGALLSACKKHRHVELGEYAAQQLFSIDPSNTGHYVQLSNLYAAARLWDRVAE 546

Query: 558 ARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLLEAGYIAE 617
            R  M ++ L K+ G S VE+ G ++ F  GD+SH    +I + ++ +  +L E G++A 
Sbjct: 547 VRVRMKEKGLNKDVGCSWVEVRGRLEAFRVGDKSHPRYEEIERQVEWIESRLKEGGFVAN 606

Query: 618 AD 619
            D
Sbjct: 607 KD 608

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFL5|PP390_ARATH Pentatricopeptide repeat-containing protein At5g16860 OS=Arabidopsis thaliana GN=PCMP-H92 PE=2 SV=1

 Score =  399 bits (1024), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 232/670 (34%), Positives = 353/670 (52%), Gaps = 58/670 (8%)

Query: 1   MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVG 60
           +IR+  +NG   + L  +  M       +++TFP V KAC  I+S+  G+  H+  L  G
Sbjct: 98  LIRSYGDNGCANKCLYLFGLMHSLSWTPDNYTFPFVFKACGEISSVRCGESAHALSLVTG 157

Query: 61  FQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILV 120
           F  + FV   L+ MYS+C     +RKV DEM V    VVSWNSII ++++      A+ +
Sbjct: 158 FISNVFVGNALVAMYSRCRSLSDARKVFDEMSVW--DVVSWNSIIESYAKLGKPKVALEM 215

Query: 121 LKEMW-VLGLELSASTFVSVVSGC----SFRQGISMHCCVYKLGLLNNEIPLANSVMSMY 175
              M    G      T V+V+  C    +   G  +HC      ++ N   + N ++ MY
Sbjct: 216 FSRMTNEFGCRPDNITLVNVLPPCASLGTHSLGKQLHCFAVTSEMIQNMF-VGNCLVDMY 274

Query: 176 AKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVN---------------------- 213
           AK G ++EA ++F  +    +VSW  ++ GY  +G                         
Sbjct: 275 AKCGMMDEANTVFSNMSVKDVVSWNAMVAGYSQIGRFEDAVRLFEKMQEEKIKMDVVTWS 334

Query: 214 -------------EAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSL---- 256
                        EA G+C QM    + P+ V  ++++ GCA VG L     +H      
Sbjct: 335 AAISGYAQRGLGYEALGVCRQMLSSGIKPNEVTLISVLSGCASVGALMHGKEIHCYAIKY 394

Query: 257 ---LLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAV--LEKSVFLWTSMIGGYAQLG 311
              L K+G+ +E+ + N L+ MY KC  ++ AR +FD++   E+ V  WT MIGGY+Q G
Sbjct: 395 PIDLRKNGHGDENMVINQLIDMYAKCKKVDTARAMFDSLSPKERDVVTWTVMIGGYSQHG 454

Query: 312 YPSEAVNLFKRLLK--TSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQ- 368
             ++A+ L   + +     RPN  T++  L ACA L +L  GK+I  Y + N   +    
Sbjct: 455 DANKALELLSEMFEEDCQTRPNAFTISCALVACASLAALRIGKQIHAYALRNQQNAVPLF 514

Query: 369 VQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVE 428
           V   LI M++KCG I+ A+ VF+ +  K+   W++++ GY +HG G++AL +F +M+ + 
Sbjct: 515 VSNCLIDMYAKCGSISDARLVFDNMMAKNEVTWTSLMTGYGMHGYGEEALGIFDEMRRI- 573

Query: 429 GLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDL 488
           G K D V    +L ACSHSGM+D G+ +F  M++ FG+ P  EHY CLVDLLGRAGR + 
Sbjct: 574 GFKLDGVTLLVVLYACSHSGMIDQGMEYFNRMKTVFGVSPGPEHYACLVDLLGRAGRLNA 633

Query: 489 ALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTS 548
           AL+ I EMP+E    VW   LS C  H  VELGEYAA+ +  L     G+Y L++NL+ +
Sbjct: 634 ALRLIEEMPMEPPPVVWVAFLSCCRIHGKVELGEYAAEKITELASNHDGSYTLLSNLYAN 693

Query: 549 AGMWKEAATARGLMDDRRLTKEPGWSQVE-IDGSVQVFVAGDRSHHLSVDIRKTLKELHI 607
           AG WK+    R LM  + + K PG S VE I G+   FV GD++H  + +I + L +   
Sbjct: 694 AGRWKDVTRIRSLMRHKGVKKRPGCSWVEGIKGTTTFFV-GDKTHPHAKEIYQVLLDHMQ 752

Query: 608 KLLEAGYIAE 617
           ++ + GY+ E
Sbjct: 753 RIKDIGYVPE 762

Arabidopsis thaliana (taxid: 3702)

>sp|O49619|PP350_ARATH Pentatricopeptide repeat-containing protein At4g35130, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H27 PE=3 SV=1

 Score =  393 bits (1009), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 210/600 (35%), Positives = 348/600 (58%), Gaps = 18/600 (3%)

Query: 1   MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVG 60
           MI+  T+ G + E +  YS M+  GV  ++FT+P V+K+ A I+S+ +GK++H+ V+K+G
Sbjct: 101 MIKGFTSCGLYIEAVQFYSRMVFAGVKADTFTYPFVIKSVAGISSLEEGKKIHAMVIKLG 160

Query: 61  FQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILV 120
           F  D +V   LI +Y K      + KV +EMP R   +VSWNS+IS +        ++++
Sbjct: 161 FVSDVYVCNSLISLYMKLGCAWDAEKVFEEMPER--DIVSWNSMISGYLALGDGFSSLML 218

Query: 121 LKEMWVLGLELSASTFVSVVSGCSF----RQGISMHCCVYKLGLLNNEIPLANSVMSMYA 176
            KEM   G +    + +S +  CS     + G  +HC   +  +   ++ +  S++ MY+
Sbjct: 219 FKEMLKCGFKPDRFSTMSALGACSHVYSPKMGKEIHCHAVRSRIETGDVMVMTSILDMYS 278

Query: 177 KFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMS----VTPDLV 232
           K+G+V+ A  IF+ + + +IV+W  +IG Y   G V +AF LC Q  +MS    + PD++
Sbjct: 279 KYGEVSYAERIFNGMIQRNIVAWNVMIGCYARNGRVTDAF-LCFQ--KMSEQNGLQPDVI 335

Query: 233 VFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAV 292
             +NL+   A    +    ++H   ++ G+     L+  L+ MY +CG L+ A  +FD +
Sbjct: 336 TSINLLPASA----ILEGRTIHGYAMRRGFLPHMVLETALIDMYGECGQLKSAEVIFDRM 391

Query: 293 LEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGK 352
            EK+V  W S+I  Y Q G    A+ LF+ L  +S+ P+  T+A+ L A AE  SLS+G+
Sbjct: 392 AEKNVISWNSIIAAYVQNGKNYSALELFQELWDSSLVPDSTTIASILPAYAESLSLSEGR 451

Query: 353 EIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHG 412
           EI  YIV +   SN  +  SL+HM++ CG +  A++ F  +  KD+  W+++I  YA+HG
Sbjct: 452 EIHAYIVKSRYWSNTIILNSLVHMYAMCGDLEDARKCFNHILLKDVVSWNSIIMAYAVHG 511

Query: 413 MGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEH 472
            G  ++ LF +M     + P+   + S+L+ACS SGMVD+G  +F+SM+  +GI+P IEH
Sbjct: 512 FGRISVWLFSEMI-ASRVNPNKSTFASLLAACSISGMVDEGWEYFESMKREYGIDPGIEH 570

Query: 473 YLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLN 532
           Y C++DL+GR G F  A + + EMP    A++W  LL+A   H ++ + E+AA+ +  + 
Sbjct: 571 YGCMLDLIGRTGNFSAAKRFLEEMPFVPTARIWGSLLNASRNHKDITIAEFAAEQIFKME 630

Query: 533 PGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSH 592
             +TG Y+L+ N++  AG W++    + LM+ + +++    S VE  G   VF  GDRSH
Sbjct: 631 HDNTGCYVLLLNMYAEAGRWEDVNRIKLLMESKGISRTSSRSTVEAKGKSHVFTNGDRSH 690

Arabidopsis thaliana (taxid: 3702)

>sp|O81767|PP348_ARATH Pentatricopeptide repeat-containing protein At4g33990 OS=Arabidopsis thaliana GN=EMB2758 PE=3 SV=2

 Score =  391 bits (1005), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 216/629 (34%), Positives = 364/629 (57%), Gaps = 20/629 (3%)

Query: 1   MIRNSTNNGSFEETLSTYS-SMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKV 59
           MI      G+  E +  +S  ML +G+  +  TFP VLKAC    ++ DG ++H   LK 
Sbjct: 123 MISGYGRAGNSSEVIRCFSLFMLSSGLTPDYRTFPSVLKAC---RTVIDGNKIHCLALKF 179

Query: 60  GFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAIL 119
           GF  D +V   LI +YS+     ++R + DEMPVR   + SWN++IS + ++    EA+ 
Sbjct: 180 GFMWDVYVAASLIHLYSRYKAVGNARILFDEMPVR--DMGSWNAMISGYCQSGNAKEALT 237

Query: 120 VLKEMWVLGLE-LSASTFVSVVSGCS----FRQGISMHCCVYKLGLLNNEIPLANSVMSM 174
           +       GL  + + T VS++S C+    F +G+++H    K GL  +E+ ++N ++ +
Sbjct: 238 LSN-----GLRAMDSVTVVSLLSACTEAGDFNRGVTIHSYSIKHGL-ESELFVSNKLIDL 291

Query: 175 YAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVF 234
           YA+FG++ + + +FD +    ++SW +II  Y        A  L  +MR   + PD +  
Sbjct: 292 YAEFGRLRDCQKVFDRMYVRDLISWNSIIKAYELNEQPLRAISLFQEMRLSRIQPDCLTL 351

Query: 235 LNLILGCAQVGNLFLALSMHSLLLKSGYNNED-PLDNLLVSMYTKCGDLELARRVFDAVL 293
           ++L    +Q+G++    S+    L+ G+  ED  + N +V MY K G ++ AR VF+ + 
Sbjct: 352 ISLASILSQLGDIRACRSVQGFTLRKGWFLEDITIGNAVVVMYAKLGLVDSARAVFNWLP 411

Query: 294 EKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKT-SVRPNEATLATTLSACAELGSLSKGK 352
              V  W ++I GYAQ G+ SEA+ ++  + +   +  N+ T  + L AC++ G+L +G 
Sbjct: 412 NTDVISWNTIISGYAQNGFASEAIEMYNIMEEEGEIAANQGTWVSVLPACSQAGALRQGM 471

Query: 353 EIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHG 412
           ++   ++ NGL  +  V TSL  M+ KCGR+  A  +F ++P  +   W+ +I  +  HG
Sbjct: 472 KLHGRLLKNGLYLDVFVVTSLADMYGKCGRLEDALSLFYQIPRVNSVPWNTLIACHGFHG 531

Query: 413 MGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEH 472
            G++A+ LF +M   EG+KPD + + ++LSACSHSG+VD+G   F+ MQ+++GI PS++H
Sbjct: 532 HGEKAVMLFKEMLD-EGVKPDHITFVTLLSACSHSGLVDEGQWCFEMMQTDYGITPSLKH 590

Query: 473 YLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLN 532
           Y C+VD+ GRAG+ + ALK I  M ++  A +W  LLSAC  H NV+LG+ A+++L  + 
Sbjct: 591 YGCMVDMYGRAGQLETALKFIKSMSLQPDASIWGALLSACRVHGNVDLGKIASEHLFEVE 650

Query: 533 PGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSH 592
           P   G ++L++N++ SAG W+     R +   + L K PGWS +E+D  V+VF  G+++H
Sbjct: 651 PEHVGYHVLLSNMYASAGKWEGVDEIRSIAHGKGLRKTPGWSSMEVDNKVEVFYTGNQTH 710

Query: 593 HLSVDIRKTLKELHIKLLEAGYIAEADIV 621
            +  ++ + L  L  KL   GY+ +   V
Sbjct: 711 PMYEEMYRELTALQAKLKMIGYVPDHRFV 739

Arabidopsis thaliana (taxid: 3702)

>sp|P0C8Q2|PP323_ARATH Pentatricopeptide repeat-containing protein At4g19191, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E1 PE=2 SV=1

 Score =  388 bits (996), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 204/598 (34%), Positives = 335/598 (56%), Gaps = 11/598 (1%)

Query: 2   IRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGF 61
           IR + N     E+L  +  M + G   N+FTFP V KACA +  +   + VH+H++K  F
Sbjct: 24  IREAVNRNDPVESLLLFREMKRGGFEPNNFTFPFVAKACARLADVGCCEMVHAHLIKSPF 83

Query: 62  QQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVL 121
             D FV T  +DM+ KC+    + KV + MP R     +WN+++S   ++   D+A  + 
Sbjct: 84  WSDVFVGTATVDMFVKCNSVDYAAKVFERMPER--DATTWNAMLSGFCQSGHTDKAFSLF 141

Query: 122 KEMWVLGLELSASTFVSVVSGCSFRQGI----SMHCCVYKLGLLNNEIPLANSVMSMYAK 177
           +EM +  +   + T ++++   SF + +    +MH    +LG+ + ++ +AN+ +S Y K
Sbjct: 142 REMRLNEITPDSVTVMTLIQSASFEKSLKLLEAMHAVGIRLGV-DVQVTVANTWISTYGK 200

Query: 178 FGKVNEARSIFDEI--GETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFL 235
            G ++ A+ +F+ I  G+ ++VSW ++   Y   G   +AFGL   M R    PDL  F+
Sbjct: 201 CGDLDSAKLVFEAIDRGDRTVVSWNSMFKAYSVFGEAFDAFGLYCLMLREEFKPDLSTFI 260

Query: 236 NLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEK 295
           NL   C     L     +HS  +  G + +    N  +SMY+K  D   AR +FD +  +
Sbjct: 261 NLAASCQNPETLTQGRLIHSHAIHLGTDQDIEAINTFISMYSKSEDTCSARLLFDIMTSR 320

Query: 296 SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIE 355
           +   WT MI GYA+ G   EA+ LF  ++K+  +P+  TL + +S C + GSL  GK I+
Sbjct: 321 TCVSWTVMISGYAEKGDMDEALALFHAMIKSGEKPDLVTLLSLISGCGKFGSLETGKWID 380

Query: 356 EYIVLNGLE-SNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMG 414
               + G +  N  +  +LI M+SKCG I++A+++F+  P+K +  W+ MI GYA++G+ 
Sbjct: 381 ARADIYGCKRDNVMICNALIDMYSKCGSIHEARDIFDNTPEKTVVTWTTMIAGYALNGIF 440

Query: 415 DQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYL 474
            +AL LF KM  ++  KP+ + + ++L AC+HSG ++ G  +F  M+  + I P ++HY 
Sbjct: 441 LEALKLFSKMIDLD-YKPNHITFLAVLQACAHSGSLEKGWEYFHIMKQVYNISPGLDHYS 499

Query: 475 CLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG 534
           C+VDLLGR G+ + AL+ I  M  +  A +W  LL+AC  H NV++ E AA++L  L P 
Sbjct: 500 CMVDLLGRKGKLEEALELIRNMSAKPDAGIWGALLNACKIHRNVKIAEQAAESLFNLEPQ 559

Query: 535 STGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSH 592
               Y+ MAN++ +AGMW   A  R +M  R + K PG S ++++G    F  G+  H
Sbjct: 560 MAAPYVEMANIYAAAGMWDGFARIRSIMKQRNIKKYPGESVIQVNGKNHSFTVGEHGH 617

Arabidopsis thaliana (taxid: 3702)

>sp|Q3E6Q1|PPR32_ARATH Pentatricopeptide repeat-containing protein At1g11290 OS=Arabidopsis thaliana GN=PCMP-H40 PE=2 SV=1

 Score =  382 bits (981), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 214/624 (34%), Positives = 347/624 (55%), Gaps = 6/624 (0%)

Query: 1   MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVG 60
           M++        ++ L  +  M    V    + F  +LK C +   +  GK +H  ++K G
Sbjct: 106 MLKGFAKVSDLDKALQFFVRMRYDDVEPVVYNFTYLLKVCGDEAELRVGKEIHGLLVKSG 165

Query: 61  FQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILV 120
           F  D F  TGL +MY+KC     +RKV D MP R   +VSWN+I++ +S+  +   A+ +
Sbjct: 166 FSLDLFAMTGLENMYAKCRQVNEARKVFDRMPER--DLVSWNTIVAGYSQNGMARMALEM 223

Query: 121 LKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGL---LNNEIPLANSVMSMYAK 177
           +K M    L+ S  T VSV+   S  + IS+   ++   +    ++ + ++ +++ MYAK
Sbjct: 224 VKSMCEENLKPSFITIVSVLPAVSALRLISVGKEIHGYAMRSGFDSLVNISTALVDMYAK 283

Query: 178 FGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNL 237
            G +  AR +FD + E ++VSW ++I  YV   N  EA  +  +M    V P  V  +  
Sbjct: 284 CGSLETARQLFDGMLERNVVSWNSMIDAYVQNENPKEAMLIFQKMLDEGVKPTDVSVMGA 343

Query: 238 ILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSV 297
           +  CA +G+L     +H L ++ G +    + N L+SMY KC +++ A  +F  +  +++
Sbjct: 344 LHACADLGDLERGRFIHKLSVELGLDRNVSVVNSLISMYCKCKEVDTAASMFGKLQSRTL 403

Query: 298 FLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEY 357
             W +MI G+AQ G P +A+N F ++   +V+P+  T  + ++A AEL      K I   
Sbjct: 404 VSWNAMILGFAQNGRPIDALNYFSQMRSRTVKPDTFTYVSVITAIAELSITHHAKWIHGV 463

Query: 358 IVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQA 417
           ++ + L+ N  V T+L+ M++KCG I  A+ +F+ + ++ +  W+AMI+GY  HG G  A
Sbjct: 464 VMRSCLDKNVFVTTALVDMYAKCGAIMIARLIFDMMSERHVTTWNAMIDGYGTHGFGKAA 523

Query: 418 LNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLV 477
           L LF +MQ    +KP+ V + S++SACSHSG+V+ GL  F  M+ N+ IE S++HY  +V
Sbjct: 524 LELFEEMQK-GTIKPNGVTFLSVISACSHSGLVEAGLKCFYMMKENYSIELSMDHYGAMV 582

Query: 478 DLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTG 537
           DLLGRAGR + A   I +MPV+    V+  +L AC  H NV   E AA+ L  LNP   G
Sbjct: 583 DLLGRAGRLNEAWDFIMQMPVKPAVNVYGAMLGACQIHKNVNFAEKAAERLFELNPDDGG 642

Query: 538 NYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVD 597
            ++L+AN++ +A MW++    R  M  + L K PG S VEI   V  F +G  +H  S  
Sbjct: 643 YHVLLANIYRAASMWEKVGQVRVSMLRQGLRKTPGCSMVEIKNEVHSFFSGSTAHPDSKK 702

Query: 598 IRKTLKELHIKLLEAGYIAEADIV 621
           I   L++L   + EAGY+ + ++V
Sbjct: 703 IYAFLEKLICHIKEAGYVPDTNLV 726

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLZ9|PP405_ARATH Pentatricopeptide repeat-containing protein At5g39350 OS=Arabidopsis thaliana GN=PCMP-E16 PE=2 SV=1

 Score =  377 bits (968), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 204/587 (34%), Positives = 327/587 (55%), Gaps = 12/587 (2%)

Query: 1   MIRNSTNNGSFEETLSTYSSMLQTGVH--GNSFTFPLVLKACANINSIWDGKRVHSHVLK 58
           +IR     G + + +S +  M+  GV    + +T+P V KA   + S+  G  VH  +L+
Sbjct: 86  VIRMYVREGLYHDAISVFIRMVSEGVKCVPDGYTYPFVAKAAGELKSMKLGLVVHGRILR 145

Query: 59  VGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAI 118
             F +D +VQ  L+ MY        +R V D M  + R V+SWN++IS + R    ++A+
Sbjct: 146 SWFGRDKYVQNALLAMYMNFGKVEMARDVFDVM--KNRDVISWNTMISGYYRNGYMNDAL 203

Query: 119 LVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKL---GLLNNEIPLANSVMSMY 175
           ++   M    ++L  +T VS++  C   + + M   V+KL     L ++I + N++++MY
Sbjct: 204 MMFDWMVNESVDLDHATIVSMLPVCGHLKDLEMGRNVHKLVEEKRLGDKIEVKNALVNMY 263

Query: 176 AKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFL 235
            K G+++EAR +FD +    +++WT +I GY   G+V  A  LC  M+   V P+ V   
Sbjct: 264 LKCGRMDEARFVFDRMERRDVITWTCMINGYTEDGDVENALELCRLMQFEGVRPNAVTIA 323

Query: 236 NLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEK 295
           +L+  C     +     +H   ++    ++  ++  L+SMY KC  ++L  RVF    + 
Sbjct: 324 SLVSVCGDALKVNDGKCLHGWAVRQQVYSDIIIETSLISMYAKCKRVDLCFRVFSGASKY 383

Query: 296 SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIE 355
               W+++I G  Q    S+A+ LFKR+ +  V PN ATL + L A A L  L +   I 
Sbjct: 384 HTGPWSAIIAGCVQNELVSDALGLFKRMRREDVEPNIATLNSLLPAYAALADLRQAMNIH 443

Query: 356 EYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVF----ERVPDKDLAVWSAMINGYAIH 411
            Y+   G  S+    T L+H++SKCG +  A ++F    E+   KD+ +W A+I+GY +H
Sbjct: 444 CYLTKTGFMSSLDAATGLVHVYSKCGTLESAHKIFNGIQEKHKSKDVVLWGALISGYGMH 503

Query: 412 GMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIE 471
           G G  AL +F +M    G+ P+ + +TS L+ACSHSG+V++GL+ F+ M  ++       
Sbjct: 504 GDGHNALQVFMEMVR-SGVTPNEITFTSALNACSHSGLVEEGLTLFRFMLEHYKTLARSN 562

Query: 472 HYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTL 531
           HY C+VDLLGRAGR D A   I  +P E  + VW  LL+AC+ H NV+LGE AA  L  L
Sbjct: 563 HYTCIVDLLGRAGRLDEAYNLITTIPFEPTSTVWGALLAACVTHENVQLGEMAANKLFEL 622

Query: 532 NPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEI 578
            P +TGNY+L+AN++ + G WK+    R +M++  L K+PG S +EI
Sbjct: 623 EPENTGNYVLLANIYAALGRWKDMEKVRSMMENVGLRKKPGHSTIEI 669

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZUW3|PP172_ARATH Pentatricopeptide repeat-containing protein At2g27610 OS=Arabidopsis thaliana GN=PCMP-H60 PE=2 SV=1

 Score =  375 bits (963), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 211/625 (33%), Positives = 349/625 (55%), Gaps = 18/625 (2%)

Query: 3   RNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQ 62
           RNS N    +E L+ +  M   G   NSFTF   L   A       G +VH+ V+K G  
Sbjct: 171 RNSMN----DEVLTLFMRMQNEGTQPNSFTFAAALGVLAEEGVGGRGLQVHTVVVKNGLD 226

Query: 63  QDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLK 122
           +   V   LI++Y KC +   +R + D+  V+  SVV+WNS+IS ++   L+ EA+ +  
Sbjct: 227 KTIPVSNSLINLYLKCGNVRKARILFDKTEVK--SVVTWNSMISGYAANGLDLEALGMFY 284

Query: 123 EMWVLGLELSASTFVSVVSGCS----FRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKF 178
            M +  + LS S+F SV+  C+     R    +HC V K G L ++  +  ++M  Y+K 
Sbjct: 285 SMRLNYVRLSESSFASVIKLCANLKELRFTEQLHCSVVKYGFLFDQ-NIRTALMVAYSKC 343

Query: 179 GKVNEARSIFDEIGET-SIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNL 237
             + +A  +F EIG   ++VSWT +I G++      EA  L ++M+R  V P+   + ++
Sbjct: 344 TAMLDALRLFKEIGCVGNVVSWTAMISGFLQNDGKEEAVDLFSEMKRKGVRPNEFTY-SV 402

Query: 238 ILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSV 297
           IL    V        +H+ ++K+ Y     +   L+  Y K G +E A +VF  + +K +
Sbjct: 403 ILTALPV---ISPSEVHAQVVKTNYERSSTVGTALLDAYVKLGKVEEAAKVFSGIDDKDI 459

Query: 298 FLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAEL-GSLSKGKEIEE 356
             W++M+ GYAQ G    A+ +F  L K  ++PNE T ++ L+ CA    S+ +GK+   
Sbjct: 460 VAWSAMLAGYAQTGETEAAIKMFGELTKGGIKPNEFTFSSILNVCAATNASMGQGKQFHG 519

Query: 357 YIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQ 416
           + + + L+S+  V ++L+ M++K G I  A+EVF+R  +KDL  W++MI+GYA HG   +
Sbjct: 520 FAIKSRLDSSLCVSSALLTMYAKKGNIESAEEVFKRQREKDLVSWNSMISGYAQHGQAMK 579

Query: 417 ALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCL 476
           AL++F +M+    +K D V +  + +AC+H+G+V++G  +F  M  +  I P+ EH  C+
Sbjct: 580 ALDVFKEMKK-RKVKMDGVTFIGVFAACTHAGLVEEGEKYFDIMVRDCKIAPTKEHNSCM 638

Query: 477 VDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGST 536
           VDL  RAG+ + A+K I  MP    + +W  +L+AC  H   ELG  AA+ ++ + P  +
Sbjct: 639 VDLYSRAGQLEKAMKVIENMPNPAGSTIWRTILAACRVHKKTELGRLAAEKIIAMKPEDS 698

Query: 537 GNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSV 596
             Y+L++N++  +G W+E A  R LM++R + KEPG+S +E+      F+AGDRSH L  
Sbjct: 699 AAYVLLSNMYAESGDWQERAKVRKLMNERNVKKEPGYSWIEVKNKTYSFLAGDRSHPLKD 758

Query: 597 DIRKTLKELHIKLLEAGYIAEADIV 621
            I   L++L  +L + GY  +   V
Sbjct: 759 QIYMKLEDLSTRLKDLGYEPDTSYV 783

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SVA5|PP357_ARATH Pentatricopeptide repeat-containing protein At4g39530 OS=Arabidopsis thaliana GN=PCMP-E52 PE=1 SV=1

 Score =  374 bits (960), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 204/616 (33%), Positives = 343/616 (55%), Gaps = 12/616 (1%)

Query: 1   MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVG 60
           MI      G    +L  +  +++  V  + +    VL AC+ +  +  GK++H+H+L+ G
Sbjct: 220 MISGCVKMGRSYVSLQLFYQLMEDNVVPDGYILSTVLSACSILPFLEGGKQIHAHILRYG 279

Query: 61  FQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILV 120
            + DA +   LID Y KC   +++ K+ + MP +  +++SW +++S + +  L+ EA+ +
Sbjct: 280 LEMDASLMNVLIDSYVKCGRVIAAHKLFNGMPNK--NIISWTTLLSGYKQNALHKEAMEL 337

Query: 121 LKEMWVLGLELSASTFVSVVSGCSFRQ----GISMHCCVYKLGLLNNEIPLANSVMSMYA 176
              M   GL+       S+++ C+       G  +H    K  L  N+  + NS++ MYA
Sbjct: 338 FTSMSKFGLKPDMYACSSILTSCASLHALGFGTQVHAYTIKANL-GNDSYVTNSLIDMYA 396

Query: 177 KFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGN---VNEAFGLCNQMRRMSVTPDLVV 233
           K   + +AR +FD      +V +  +I GY  +G    ++EA  +   MR   + P L+ 
Sbjct: 397 KCDCLTDARKVFDIFAAADVVLFNAMIEGYSRLGTQWELHEALNIFRDMRFRLIRPSLLT 456

Query: 234 FLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVL 293
           F++L+   A + +L L+  +H L+ K G N +    + L+ +Y+ C  L+ +R VFD + 
Sbjct: 457 FVSLLRASASLTSLGLSKQIHGLMFKYGLNLDIFAGSALIDVYSNCYCLKDSRLVFDEMK 516

Query: 294 EKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKE 353
            K + +W SM  GY Q     EA+NLF  L  +  RP+E T A  ++A   L S+  G+E
Sbjct: 517 VKDLVIWNSMFAGYVQQSENEEALNLFLELQLSRERPDEFTFANMVTAAGNLASVQLGQE 576

Query: 354 IEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGM 413
               ++  GLE N  +  +L+ M++KCG    A + F+    +D+  W+++I+ YA HG 
Sbjct: 577 FHCQLLKRGLECNPYITNALLDMYAKCGSPEDAHKAFDSAASRDVVCWNSVISSYANHGE 636

Query: 414 GDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHY 473
           G +AL +  KM   EG++P+ + +  +LSACSH+G+V+DGL  F+ M   FGIEP  EHY
Sbjct: 637 GKKALQMLEKMMS-EGIEPNYITFVGVLSACSHAGLVEDGLKQFELML-RFGIEPETEHY 694

Query: 474 LCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNP 533
           +C+V LLGRAGR + A + I +MP +  A VW  LLS C K  NVEL E+AA+  +  +P
Sbjct: 695 VCMVSLLGRAGRLNKARELIEKMPTKPAAIVWRSLLSGCAKAGNVELAEHAAEMAILSDP 754

Query: 534 GSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHH 593
             +G++ +++N++ S GMW EA   R  M    + KEPG S + I+  V +F++ D+SH 
Sbjct: 755 KDSGSFTMLSNIYASKGMWTEAKKVRERMKVEGVVKEPGRSWIGINKEVHIFLSKDKSHC 814

Query: 594 LSVDIRKTLKELHIKL 609
            +  I + L +L +++
Sbjct: 815 KANQIYEVLDDLLVQI 830

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	622
356561794	615	PREDICTED: pentatricopeptide repeat-cont	0.948	0.959	0.606	0.0
297737195	667	unnamed protein product [Vitis vinifera]	0.964	0.899	0.602	0.0
449439735	601	PREDICTED: pentatricopeptide repeat-cont	0.918	0.950	0.530	1e-170
255569403	494	pentatricopeptide repeat-containing prot	0.720	0.906	0.609	1e-162
224118652	458	predicted protein [Populus trichocarpa]	0.591	0.803	0.693	1e-149
148909481	795	unknown [Picea sitchensis]	0.979	0.766	0.380	1e-133
357148978	598	PREDICTED: pentatricopeptide repeat-cont	0.926	0.963	0.407	1e-130
293333352	602	uncharacterized protein LOC100382456 [Ze	0.927	0.958	0.402	1e-123
328774749	771	pentatricopeptide repeat protein 65 [Fun	0.982	0.792	0.358	1e-122
168003497	723	predicted protein [Physcomitrella patens	0.982	0.845	0.361	1e-120

>gi|356561794|ref|XP_003549163.1| PREDICTED: pentatricopeptide repeat-containing protein At4g19191, mitochondrial-like [Glycine max]

 Score =  761 bits (1966), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 363/599 (60%), Positives = 461/599 (76%), Gaps = 9/599 (1%)

Query: 1   MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVG 60
           MIR+STNNG F +TL+ YSSM  +GVHGN+ T+PL+LKACAN+ SI  G  +H HVLK+G
Sbjct: 17  MIRDSTNNGFFTQTLNIYSSMAHSGVHGNNLTYPLLLKACANLPSIQHGTMLHGHVLKLG 76

Query: 61  FQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILV 120
           FQ D FVQT L+DMYSKCS   S+R+V DEMP R  SVVSWN+++SA+SR    D+A+ +
Sbjct: 77  FQADTFVQTALVDMYSKCSHVASARQVFDEMPQR--SVVSWNAMVSAYSRRSSMDQALSL 134

Query: 121 LKEMWVLGLELSASTFVSVVSGCSFRQ-------GISMHCCVYKLGLLNNEIPLANSVMS 173
           LKEMWVLG E +ASTFVS++SG S          G S+HCC+ KLG++  E+ LANS+M 
Sbjct: 135 LKEMWVLGFEPTASTFVSILSGYSNLDSFEFHLLGKSIHCCLIKLGIVYLEVSLANSLMG 194

Query: 174 MYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVV 233
           MY +F  ++EAR +FD + E SI+SWTT+IGGYV +G+  EA+GL  QM+  SV  D VV
Sbjct: 195 MYVQFCLMDEARKVFDLMDEKSIISWTTMIGGYVKIGHAVEAYGLFYQMQHQSVGIDFVV 254

Query: 234 FLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVL 293
           FLNLI GC QV +L LA S+HSL+LK G N +DP++NLL++MY KCG+L  ARR+FD ++
Sbjct: 255 FLNLISGCIQVRDLLLASSVHSLVLKCGCNEKDPVENLLITMYAKCGNLTSARRIFDLII 314

Query: 294 EKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKE 353
           EKS+  WTSMI GY  LG+P EA++LF+R+++T +RPN ATLAT +SACA+LGSLS G+E
Sbjct: 315 EKSMLSWTSMIAGYVHLGHPGEALDLFRRMIRTDIRPNGATLATVVSACADLGSLSIGQE 374

Query: 354 IEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGM 413
           IEEYI LNGLES++QVQTSLIHM+SKCG I KA+EVFERV DKDL VW++MIN YAIHGM
Sbjct: 375 IEEYIFLNGLESDQQVQTSLIHMYSKCGSIVKAREVFERVTDKDLTVWTSMINSYAIHGM 434

Query: 414 GDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHY 473
           G++A++LF+KM   EG+ PDA+VYTS+  ACSHSG+V++GL +FKSMQ +FGI P++EH 
Sbjct: 435 GNEAISLFHKMTTAEGIMPDAIVYTSVFLACSHSGLVEEGLKYFKSMQKDFGITPTVEHC 494

Query: 474 LCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNP 533
            CL+DLLGR G+ DLAL  I  MP +VQAQVW PLLSAC  H NVELGE A   LL  +P
Sbjct: 495 TCLIDLLGRVGQLDLALNAIQGMPPDVQAQVWGPLLSACRIHGNVELGELATVRLLDSSP 554

Query: 534 GSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSH 592
           GS+G+Y+LMANL+TS G WKEA   R  MD + L KE GWSQVE+  +   F  G++S 
Sbjct: 555 GSSGSYVLMANLYTSLGKWKEAHMMRNSMDGKGLVKESGWSQVEVTDTYHTFAVGNQSQ 613

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297737195|emb|CBI26396.3| unnamed protein product [Vitis vinifera]

 Score =  759 bits (1961), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 367/609 (60%), Positives = 473/609 (77%), Gaps = 9/609 (1%)

Query: 1   MIRNSTNNGSFEE--TLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLK 58
           MI ++  +  F++  +LS+++S    GVHG+ FTFP VLKACA + S+ D  ++HSH+L 
Sbjct: 1   MIPSTWKHLIFKQIPSLSSHTS----GVHGSEFTFPFVLKACAKLPSLEDATKLHSHILL 56

Query: 59  VGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAI 118
            GFQ   FVQT L+D+YSKC  F S+R V D+MP++  S+VSWNSIISAH R    D++ 
Sbjct: 57  TGFQAHVFVQTALVDVYSKCCCFHSARLVFDQMPIK--SLVSWNSIISAHCRDFHIDQSF 114

Query: 119 LVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKF 178
            +LK+M +LGLELS++TF   ++ CS  QG+S+H  + KLGL +  +PLANS+MSMY + 
Sbjct: 115 GILKQMQLLGLELSSATFTGFLASCSLPQGLSIHGYITKLGL-DLHLPLANSIMSMYIRL 173

Query: 179 GKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLI 238
            +++ A S+F  + + SIVSWT I+GGY++ G+V + F + NQMR   V PD +VF+NLI
Sbjct: 174 NQIDGALSVFYTLHQKSIVSWTIILGGYLSAGDVAKVFAVFNQMRCQCVGPDSIVFVNLI 233

Query: 239 LGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVF 298
             C   GNL LA+ +HSLLLKSG++++DP+DNLLV+MY KC DL  ARRVFDAV EKSVF
Sbjct: 234 SCCKLSGNLLLAMLVHSLLLKSGFDHKDPIDNLLVAMYAKCKDLVSARRVFDAVHEKSVF 293

Query: 299 LWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYI 358
           LWTSMI GYAQ GYP+EA++LF  LL+T+ RPNE TLAT LSACAE+GSL  G+EIE+YI
Sbjct: 294 LWTSMISGYAQFGYPNEALHLFNMLLRTASRPNELTLATVLSACAEMGSLRMGEEIEQYI 353

Query: 359 VLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQAL 418
           +LNGL S+ +VQTSLIHMF KCG I KA+ +FER+P+KDLAVWSAMINGYA+HGMG +AL
Sbjct: 354 LLNGLGSDLRVQTSLIHMFCKCGSIKKAQALFERIPNKDLAVWSAMINGYAVHGMGKEAL 413

Query: 419 NLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVD 478
           NLF+KMQ+  G+KPDA+VYTS+L ACSHSG+++DGL +F+SMQ +FGIEPSI+HY CLVD
Sbjct: 414 NLFHKMQNEVGIKPDAIVYTSVLLACSHSGLIEDGLKYFRSMQKDFGIEPSIQHYSCLVD 473

Query: 479 LLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGN 538
           LLGRAG  +LAL+TI EMPV VQA+VWAP LSAC  HHN+ELGE+AAKNL  L P STGN
Sbjct: 474 LLGRAGYVELALRTIQEMPVLVQARVWAPFLSACYTHHNLELGEFAAKNLFDLEPRSTGN 533

Query: 539 YILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDI 598
           ++LM NL+TS G WKEAA AR +++ R L KEPGWSQ+EIDG+V V  A  +SH  S+DI
Sbjct: 534 FVLMTNLYTSMGKWKEAAKARSIINARGLVKEPGWSQIEIDGAVHVLAAEGQSHLESIDI 593

Query: 599 RKTLKELHI 607
            +   E+ I
Sbjct: 594 HELCPEMRI 602

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449439735|ref|XP_004137641.1| PREDICTED: pentatricopeptide repeat-containing protein At3g12770-like [Cucumis sativus] gi|449514868|ref|XP_004164502.1| PREDICTED: pentatricopeptide repeat-containing protein At3g12770-like [Cucumis sativus]

 Score =  606 bits (1563), Expect = e-170,   Method: Compositional matrix adjust.
 Identities = 308/581 (53%), Positives = 419/581 (72%), Gaps = 10/581 (1%)

Query: 2   IRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGF 61
           IR+S N G F ++L TYS M  +G+HGN+FTFPL+LKACAN+ SI DG  +H+H++ VGF
Sbjct: 25  IRSSVNGGFFAQSLETYSFMRHSGIHGNNFTFPLLLKACANLASIGDGTMLHAHLIHVGF 84

Query: 62  QQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVL 121
           + D FVQT L+DMYSK S+  +SR+V DE   R  SV+SWNS+I+A+SR+   +EA+ + 
Sbjct: 85  ESDVFVQTSLVDMYSKFSNLRASRQVFDETSTR--SVISWNSMIAAYSRSFRVNEALKLF 142

Query: 122 KEMWVLGLELSASTFVSVVSGC------SFRQGISMHCCVYKLGLLNNEIPLANSVMSMY 175
           +EM   G E ++STFVS++SG       S  QG  +H C+ K  L +++ P+ NS++ MY
Sbjct: 143 REMLGGGFEPNSSTFVSLLSGFADPTHGSLFQGRLLHGCLTKFQL-HDDTPVENSLVQMY 201

Query: 176 AKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFL 235
             FG+++ A S+F  I E +++SWT ++GGY+  G V + F   +QMR+ +V  D  VF+
Sbjct: 202 VNFGQIDSACSVFYAISEKTVISWTIMLGGYLKAGAVAKVFETFSQMRQNNVVLDKFVFV 261

Query: 236 NLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEK 295
           ++I  C Q+GNLFL  S+HSLLLK+G   EDP+  LL+SMY+KCGDL  AR VFD + EK
Sbjct: 262 DIISSCIQLGNLFLGSSLHSLLLKTGLKYEDPIGCLLISMYSKCGDLLSARAVFDLLSEK 321

Query: 296 SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIE 355
           S++ WTSMI GYA  GYP EA++LF    + +VRPN A LAT +SACA+LGSLS  +EIE
Sbjct: 322 SIYSWTSMISGYANAGYPREALSLFSMATQNNVRPNGAMLATAISACADLGSLSMRREIE 381

Query: 356 EYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGD 415
            +I  +GL S+ QV TSLIH++ K G I KA++VF  +  +DLA WS+M+NGYA+HGMG+
Sbjct: 382 AFIQQDGLASDSQVSTSLIHLYCKFGSIEKAEKVFNSMIHRDLAAWSSMMNGYAVHGMGE 441

Query: 416 QALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLC 475
           + +NLF++MQ   G+KPD  VY SIL ACSHSG+V+DGL  FK+MQ ++GI P++ HY C
Sbjct: 442 KTMNLFHEMQR-SGIKPDGSVYASILLACSHSGLVEDGLEHFKNMQLDYGIVPTMVHYTC 500

Query: 476 LVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS 535
           LVD+L RAG  +LAL TI EMP + Q+Q WAP LSAC  + +VELGE A + LL+ NP +
Sbjct: 501 LVDILSRAGHLELALNTIQEMPTQFQSQAWAPFLSACRTYCDVELGEVANRCLLSSNPRN 560

Query: 536 TGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQV 576
             N++LMANL+TS G WKEAA  R L+DD+ L KEPG SQ+
Sbjct: 561 PVNHVLMANLYTSMGKWKEAAKVRSLIDDKGLVKEPGCSQL 601

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255569403|ref|XP_002525669.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223535105|gb|EEF36787.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  578 bits (1489), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 276/453 (60%), Positives = 357/453 (78%), Gaps = 5/453 (1%)

Query: 1   MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVG 60
           MIR+ST  G F + L  YSSMLQ+GVHGN FTFPL+LKAC+N NSI DG ++HSH++++G
Sbjct: 21  MIRSSTKAGLFFQALDIYSSMLQSGVHGNGFTFPLLLKACSNTNSIRDGTKIHSHLIQLG 80

Query: 61  FQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILV 120
           FQ   FV T L+DMYSKC D  SSRKV DEMP  +RS VSWNSIISA+ R  L DEAI +
Sbjct: 81  FQH-VFVMTTLLDMYSKCYDLASSRKVFDEMP--MRSTVSWNSIISAYCRFFLVDEAISM 137

Query: 121 LKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLN-NEIPLANSVMSMYAKFG 179
           L++M ++G   +++TF+  +  C  + G+S+ CC +K GLL  ++IPL N++++MY K G
Sbjct: 138 LQKMRLIGFVPTSTTFLCFLPICLLQHGLSIQCCAFKFGLLEGSDIPLTNALLNMYVKHG 197

Query: 180 KVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLIL 239
           +V+EAR++FD + E S++SWTT+IGGYV+ GNV EAF L NQMR +S+  D +VF+ LI 
Sbjct: 198 QVHEARTLFDMMHEKSLISWTTVIGGYVDFGNVREAFSLFNQMR-ISMRLDFIVFITLIS 256

Query: 240 GCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFL 299
           GCA+ GNL LA S+HSLL+K G +++DP+DNLLV+MY+KCGDL  A+R FD   EKS++L
Sbjct: 257 GCAREGNLLLASSVHSLLVKYGCDDKDPIDNLLVTMYSKCGDLISAQRAFDIAREKSLYL 316

Query: 300 WTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIV 359
           WTSMI  Y  LGYP +A+ LF  LL T+++PNEATLAT LSACA+LGSLS G+EIEEYI+
Sbjct: 317 WTSMIAAYTHLGYPVQALRLFNTLLGTAIKPNEATLATILSACADLGSLSMGEEIEEYIL 376

Query: 360 LNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALN 419
            NGL S+ QVQTSLIHMF +CG + KAK VFER+  KDLA WS+MINGYAIHGM ++A +
Sbjct: 377 ANGLHSSVQVQTSLIHMFCRCGSLEKAKAVFERLATKDLAAWSSMINGYAIHGMAEEAFS 436

Query: 420 LFYKMQHVEGLKPDAVVYTSILSACSHSGMVDD 452
           LF+KMQ VEG+KPDAV+YTSIL ACSHSG+++D
Sbjct: 437 LFHKMQTVEGIKPDAVIYTSILLACSHSGLIED 469

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224118652|ref|XP_002331415.1| predicted protein [Populus trichocarpa] gi|222873629|gb|EEF10760.1| predicted protein [Populus trichocarpa]

 Score =  535 bits (1378), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 258/372 (69%), Positives = 307/372 (82%)

Query: 250 ALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQ 309
           A S+HSL+ K G  N+DPLDNLL+ MY KCGDL  AR+VFD  L K+VFLWTS+IGGY  
Sbjct: 3   ASSLHSLIFKCGCENKDPLDNLLLGMYAKCGDLISARKVFDMALVKTVFLWTSIIGGYTH 62

Query: 310 LGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQV 369
           +GYP+EA+ LFK+LLKT+++PN ATLAT LSACA+LGSL  GKEIEEYI+ NG +S+RQV
Sbjct: 63  MGYPAEALLLFKKLLKTAIKPNGATLATILSACADLGSLDMGKEIEEYILSNGFQSDRQV 122

Query: 370 QTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEG 429
           QTSLIHMFSKCG I KA  VFER+ DKDLA WS+MINGYAIHGM ++AL LF+KM  ++ 
Sbjct: 123 QTSLIHMFSKCGSIGKAISVFERISDKDLAAWSSMINGYAIHGMAEEALGLFHKMLEIKE 182

Query: 430 LKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLA 489
           +KPDAVV+TSIL ACSH G+V+DGL FFKSMQ +FGI PS+EHY+CLVDLLGRAG+F+LA
Sbjct: 183 IKPDAVVFTSILLACSHVGLVEDGLKFFKSMQKDFGIVPSVEHYMCLVDLLGRAGQFELA 242

Query: 490 LKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSA 549
           LKTI  MPV++QAQVWAP LSAC KH N+ELGE AA+ LL +NPGS  NY+LMANL+TS 
Sbjct: 243 LKTIRVMPVKLQAQVWAPFLSACTKHCNLELGELAARKLLYMNPGSHANYVLMANLYTSM 302

Query: 550 GMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKL 609
           G WKEAA  R LM DR L K PGWSQVEI+GSV VF+AGDRSH  S+DI K L+E+++KL
Sbjct: 303 GKWKEAAVTRSLMIDRGLVKAPGWSQVEINGSVHVFIAGDRSHTQSIDIYKKLEEINLKL 362

Query: 610 LEAGYIAEADIV 621
            EAGY+ E D V
Sbjct: 363 AEAGYVPETDTV 374

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|148909481|gb|ABR17838.1| unknown [Picea sitchensis]

 Score =  481 bits (1239), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 235/617 (38%), Positives = 377/617 (61%), Gaps = 8/617 (1%)

Query: 8   NGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFV 67
           NG + + L  Y  M +TG++ +   F  V+KAC + + +  G++VH  ++  GF+ D  V
Sbjct: 98  NGFWNKALRLYYQMQRTGINPDKLVFLSVIKACGSQSDLQAGRKVHEDIIARGFESDVIV 157

Query: 68  QTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVL 127
            T L  MY+KC    ++R+V D MP   R VVSWN+II+ +S+     EA+ +  EM V 
Sbjct: 158 GTALASMYTKCGSLENARQVFDRMP--KRDVVSWNAIIAGYSQNGQPYEALALFSEMQVN 215

Query: 128 GLELSASTFVSVVSGCS----FRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNE 183
           G++ ++ST VSV+  C+      QG  +HC   + G+  +++ + N +++MYAK G VN 
Sbjct: 216 GIKPNSSTLVSVMPVCAHLLALEQGKQIHCYAIRSGI-ESDVLVVNGLVNMYAKCGNVNT 274

Query: 184 ARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQ 243
           A  +F+ +    + SW  IIGGY      +EA    N+M+   + P+ +  ++++  CA 
Sbjct: 275 AHKLFERMPIRDVASWNAIIGGYSLNSQHHEALAFFNRMQVRGIKPNSITMVSVLPACAH 334

Query: 244 VGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSM 303
           +  L     +H   ++SG+ + D + N LV+MY KCG++  A ++F+ + +K+V  W ++
Sbjct: 335 LFALEQGQQIHGYAIRSGFESNDVVGNALVNMYAKCGNVNSAYKLFERMPKKNVVAWNAI 394

Query: 304 IGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGL 363
           I GY+Q G+P EA+ LF  +    ++P+   + + L ACA   +L +GK+I  Y + +G 
Sbjct: 395 ISGYSQHGHPHEALALFIEMQAQGIKPDSFAIVSVLPACAHFLALEQGKQIHGYTIRSGF 454

Query: 364 ESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYK 423
           ESN  V T L+ +++KCG +N A+++FER+P++D+  W+ MI  Y IHG G+ AL LF K
Sbjct: 455 ESNVVVGTGLVDIYAKCGNVNTAQKLFERMPEQDVVSWTTMILAYGIHGHGEDALALFSK 514

Query: 424 MQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRA 483
           MQ   G K D + +T+IL+ACSH+G+VD GL +F+ M+S++G+ P +EHY CLVDLLGRA
Sbjct: 515 MQET-GTKLDHIAFTAILTACSHAGLVDQGLQYFQCMKSDYGLAPKLEHYACLVDLLGRA 573

Query: 484 GRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMA 543
           G  D A   I  M +E  A VW  LL AC  H N+ELGE AAK+L  L+P + G Y+L++
Sbjct: 574 GHLDEANGIIKNMSLEPDANVWGALLGACRIHCNIELGEQAAKHLFELDPDNAGYYVLLS 633

Query: 544 NLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLK 603
           N++  A  W++ A  R +M ++ + K+PG S V +   VQ F+ GDR+H  S  I   L+
Sbjct: 634 NIYAEAQRWEDVAKLRKMMKEKGVKKQPGCSVVAVHRDVQTFLVGDRTHPQSEQIYAMLE 693

Query: 604 ELHIKLLEAGYIAEADI 620
            L+ ++ +AGY+   ++
Sbjct: 694 ILYEQMRKAGYVPNTNL 710

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357148978|ref|XP_003574958.1| PREDICTED: pentatricopeptide repeat-containing protein At1g11290-like [Brachypodium distachyon]

 Score =  472 bits (1215), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 239/587 (40%), Positives = 380/587 (64%), Gaps = 11/587 (1%)

Query: 1   MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVG 60
           +I+ +  +GS+   L  Y  +L  G+HG++ TFP + K+CA +     G  VH+H L VG
Sbjct: 16  LIQLAAASGSYSRCLRHYVPLLAAGLHGDASTFPSLAKSCAALRLPRLGCSVHAHALLVG 75

Query: 61  FQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILV 120
              D FV T L+DMY+KC+    +R++ DEMP    +++SWN +++A+S++    EA+ +
Sbjct: 76  AASDVFVLTSLLDMYAKCACLPDARRLFDEMPSP--TLISWNCMVTAYSKSSCVTEAVAM 133

Query: 121 LKEMWVLGLELSASTFVSVVSG-----CSFRQGISMHCCVYKLGLLNNEIPLANSVMSMY 175
              M  +G+  S +T V ++SG      +   G+ ++    K GL + ++P+ NSV++M 
Sbjct: 134 FNTMRGVGVRPSGATLVGLLSGRVDSLSTRNPGLCLYGYSMKSGL-DTDLPVLNSVLTML 192

Query: 176 AKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFL 235
            + G++ +A  +FD + E S+V+W+ ++ G++  G+  + FGL N M+      D V  +
Sbjct: 193 VRAGQLYDACLLFDSMHEKSVVTWSAMVSGFLQTGDYMKVFGLFNHMQTAGYKFDSVALV 252

Query: 236 NLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEK 295
           NLI     +GNL +A  +H+LL+KSG+ +E  L + LV++Y KCGDLE A+ VFDAV  K
Sbjct: 253 NLISAAVLLGNLLVAKGVHALLIKSGFESEQDLMSSLVNLYAKCGDLEAAQEVFDAVHRK 312

Query: 296 SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIE 355
           +V LWTSMI GYA+ G+P +A+ +F  +L T V PNEAT+++ LSACA LGS ++ K++E
Sbjct: 313 NVVLWTSMISGYAEGGHPDKALKMFDSMLCTDVEPNEATVSSVLSACANLGSANQAKKVE 372

Query: 356 EYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERV--PDKDLAVWSAMINGYAIHGM 413
           +++V  GL+ + +V T LI  + KCG +  A+E+F+ V   ++DLA+WSAMINGYA  G 
Sbjct: 373 DHVVAIGLQKDLRVATGLIDTYCKCGNVTLAREIFDGVTTTNRDLAIWSAMINGYACIGE 432

Query: 414 GDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHY 473
           G +AL LF +MQ+ +G++PDA+V+T +L+AC++SG+VD+GL  F+S+   +GIEPSIEHY
Sbjct: 433 GSEALVLFNEMQN-QGVQPDAIVFTHLLTACNYSGLVDEGLQCFRSLTVEYGIEPSIEHY 491

Query: 474 LCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNP 533
           +C +DLL +AG    A +   ++P+++Q QV AP+L+A   H      E  ++ LL L P
Sbjct: 492 MCTIDLLCKAGHLSAAKEFFRKIPIQLQNQVLAPILTAYSAHCADSSIELVSEELLNLEP 551

Query: 534 GSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDG 580
            ++ + +LMAN+    G WK+A   R L+  + L KEPG S +E+ G
Sbjct: 552 HNSDHCVLMANMLNCLGKWKKATDYRRLITKQGLVKEPGRSCIEMSG 598

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|293333352|ref|NP_001168668.1| uncharacterized protein LOC100382456 [Zea mays] gi|223950067|gb|ACN29117.1| unknown [Zea mays]

 Score =  450 bits (1157), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 236/587 (40%), Positives = 369/587 (62%), Gaps = 10/587 (1%)

Query: 2   IRNSTNNGSFEETLSTYSS-MLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVG 60
           I+ +  +GS+   L  Y+  +L  G+ G++ TFP + K+CA +     G+ VH+     G
Sbjct: 18  IQLAAASGSYGHCLRLYAGPLLAAGLRGDASTFPSLAKSCAALRLPGLGRAVHALAFLSG 77

Query: 61  --FQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAI 118
               +DAFV+T L+DMY+KC     + ++ DE P   R++V+WN +ISA+ R+   +EA+
Sbjct: 78  AAVSRDAFVRTSLVDMYAKCGRLPDAHRLFDETPCSSRTLVAWNCMISAYGRSSQVEEAV 137

Query: 119 LVLKEMWVLGLELSASTFVSVVSGC----SFR-QGISMHCCVYKLGLLNNEIPLANSVMS 173
            V   M    +  S ST V ++SGC    S R  G+S++    K GL + ++ ++NSV++
Sbjct: 138 GVFNAMRRAEVRPSGSTVVGLLSGCADSVSARYPGVSVYGLTIKSGL-DADLLVSNSVLT 196

Query: 174 MYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVV 233
           M  + G+++ AR +FD +   S+V+W+ +   Y+  G+  E F L + MR      D VV
Sbjct: 197 MLVRGGQLDSARLLFDRVENKSVVTWSAMASAYLQTGDWMEVFALFSSMRETEQPMDSVV 256

Query: 234 FLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVL 293
             NLI      GN  +A  +H+L +K G++ ++ L   LV++Y+KCG+L  AR VFD++ 
Sbjct: 257 LANLITAAMLFGNNLVAKGVHALAIKVGFDRQEDLAASLVNLYSKCGNLLAAREVFDSLQ 316

Query: 294 EKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKE 353
            KSV +WTSM+ GY + GYP EA+  F  +L   V PN+AT+   LSA A LGS +  ++
Sbjct: 317 WKSVIMWTSMLNGYVECGYPDEALATFDAMLCAKVEPNKATVLAVLSAGANLGSANVAQK 376

Query: 354 IEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGM 413
           +EE++    L+S+ QV T LI M+ KCG I +A+++F+ VP++DLA+WSAMING+A +G 
Sbjct: 377 VEEHVKAMELQSDLQVCTRLIDMYCKCGSIQRARKIFDSVPNRDLAIWSAMINGHACNGE 436

Query: 414 GDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHY 473
           G +A+ LF +MQ  +G++PDA+V+T IL+ACSHSG VD+GL  F SM +  GIEPS+EHY
Sbjct: 437 GSEAVVLFNEMQS-KGVRPDAIVFTHILTACSHSGSVDEGLRCFHSMTAEHGIEPSVEHY 495

Query: 474 LCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNP 533
           +C++DLL +AG    A+K   EMPV ++ QV APL+SA   +      E+ ++ LL L  
Sbjct: 496 MCMIDLLCKAGHLSSAIKFFGEMPVRLRNQVLAPLISAHRVNGADSSVEFMSEGLLNLGS 555

Query: 534 GSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDG 580
             +G+ +L++N+ +  G WK+A + R L+  + L K+PGWS +E+ G
Sbjct: 556 QDSGHCVLISNMLSCLGQWKKARSYRTLISKQGLVKKPGWSYIELGG 602

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|328774749|gb|AEB39774.1| pentatricopeptide repeat protein 65 [Funaria hygrometrica]

 Score =  444 bits (1142), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 222/619 (35%), Positives = 371/619 (59%), Gaps = 8/619 (1%)

Query: 7   NNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAF 66
             G  +E L   ++M+  G    S  F  +L+ CA + S+  G+ VH+ +LK G Q + +
Sbjct: 73  KQGRLKEALGILNTMILQGTRVYSDVFRGLLQECARLRSLEQGREVHAAILKSGIQPNRY 132

Query: 67  VQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWV 126
           ++  L+ MY+KC     +R+V D   +R R++VSW ++I A      N EA    + M +
Sbjct: 133 LENTLLSMYAKCGSLTDARRVFD--GIRDRNIVSWTAMIEAFVAGNQNLEAYKCYETMKL 190

Query: 127 LGLELSASTFVSVVSGCS----FRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVN 182
            G +    TFVS+++  +     + G  +H  + K GL   E  +  S++ MYAK G ++
Sbjct: 191 AGCKPDKVTFVSLLNAFTNPELLQVGQKVHMEIAKAGL-ELEPRVGTSLVGMYAKCGDIS 249

Query: 183 EARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCA 242
           +A+ IFD++ E ++V+WT +I GY   G V+ A  L  +M++  V P+ + + +++ GC 
Sbjct: 250 KAQVIFDKLPEKNVVTWTLLIAGYAQQGQVDVALELLEKMQQAEVAPNKITYTSILQGCT 309

Query: 243 QVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTS 302
               L     +H  +++SGY  E  + N L++MY KCG L+ AR++F  +  + V  WT+
Sbjct: 310 TPLALEHGKKVHRYIIQSGYGREIWVVNALITMYCKCGGLKEARKLFGDLPHRDVVTWTA 369

Query: 303 MIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNG 362
           M+ GYAQLG+  EA++LF+R+ +  ++P++ T  + L++C+    L +GK I + +V  G
Sbjct: 370 MVTGYAQLGFHDEAIDLFRRMQQQGIKPDKMTFTSALTSCSSPAFLQEGKSIHQQLVHAG 429

Query: 363 LESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFY 422
              +  +Q++L+ M++KCG ++ A+ VF ++ ++++  W+AMI G A HG   +AL  F 
Sbjct: 430 YSLDVYLQSALVSMYAKCGSMDDARLVFNQMSERNVVAWTAMITGCAQHGRCREALEYFE 489

Query: 423 KMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGR 482
           +M+  +G+KPD V +TS+LSAC+H G+V++G   F+SM  ++GI+P +EHY C VDLLGR
Sbjct: 490 QMKK-QGIKPDKVTFTSVLSACTHVGLVEEGRKHFRSMYLDYGIKPMVEHYSCFVDLLGR 548

Query: 483 AGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILM 542
           AG  + A   I  MP +    VW  LLSAC  H +VE GE AA+N+L L+P   G Y+ +
Sbjct: 549 AGHLEEAENVILTMPFQPGPSVWGALLSACRIHSDVERGERAAENVLKLDPDDDGAYVAL 608

Query: 543 ANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTL 602
           +N++ +AG +++A   R +M+ R + KEPG S +E+DG V VF   D+SH  + +I   L
Sbjct: 609 SNIYAAAGRYEDAEKVRQVMEKRDVVKEPGQSWIEVDGKVHVFHVEDKSHPEAKEIYAEL 668

Query: 603 KELHIKLLEAGYIAEADIV 621
            +L  ++ E GY+ +   V
Sbjct: 669 GKLTEQIKEQGYVPDTRFV 687

Source: Funaria hygrometrica

Species: Funaria hygrometrica

Genus: Funaria

Family: Funariaceae

Order: Funariales

Class: Bryopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|168003497|ref|XP_001754449.1| predicted protein [Physcomitrella patens subsp. patens] gi|162694551|gb|EDQ80899.1| predicted protein [Physcomitrella patens subsp. patens]

 Score =  437 bits (1125), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 224/620 (36%), Positives = 366/620 (59%), Gaps = 9/620 (1%)

Query: 7   NNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAF 66
             G  +E L   ++M+  G    S  F  +L+ CA + S+  G+ VH+ +LK G Q + +
Sbjct: 24  KTGRLKEALGIMNTMILQGTRVYSDVFRGLLQECARLRSLEQGREVHAAILKSGIQPNRY 83

Query: 67  VQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWV 126
           ++  L+ MY+KC     +R+V D   +R R++VSW ++I A      N EA    + M +
Sbjct: 84  LENTLLSMYAKCGSLTDARRVFDS--IRDRNIVSWTAMIEAFVAGNKNLEAFKCYETMKL 141

Query: 127 LGLELSASTFVSVVSGCS----FRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVN 182
            G +    TFVS+++  +     + G  +H  + + GL   E  +  S++ MYAK G ++
Sbjct: 142 AGCKPDKVTFVSLLNAFTNPELLQLGQKVHMEIVEAGL-ELEPRVGTSLVGMYAKCGDIS 200

Query: 183 EARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCA 242
           +AR IFD + E ++V+WT +I GY   G V+ A  L   M++  V P+ + F +++ GC 
Sbjct: 201 KARVIFDRLPEKNVVTWTLLIAGYAQQGQVDVALELLETMQQAEVAPNKITFASILQGCT 260

Query: 243 QVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTS 302
               L     +H  +++SGY  E  + N L++MY KCG LE AR++F  +  + V  WT+
Sbjct: 261 TPAALEHGKKVHRYIIQSGYGRELWVVNSLITMYCKCGGLEEARKLFSDLPHRDVVTWTA 320

Query: 303 MIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNG 362
           M+ GYAQLG+  EA+NLF+R+ +  ++P++ T  + L++C+    L +GK I + +V  G
Sbjct: 321 MVTGYAQLGFHDEAINLFRRMQQQGIKPDKMTFTSVLTSCSSPAFLQEGKRIHQQLVHAG 380

Query: 363 LESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGY-AIHGMGDQALNLF 421
              +  +Q++L+ M++KCG ++ A  VF ++ ++++  W+A+I G  A HG   +AL  F
Sbjct: 381 YNLDVYLQSALVSMYAKCGSMDDASLVFNQMSERNVVAWTAIITGCCAQHGRCREALEYF 440

Query: 422 YKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLG 481
            +M+  +G+KPD V +TS+LSAC+H G+V++G   F+SM  ++GI+P +EHY C VDLLG
Sbjct: 441 DQMKK-QGIKPDKVTFTSVLSACTHVGLVEEGRKHFRSMYLDYGIKPMVEHYSCFVDLLG 499

Query: 482 RAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYIL 541
           RAG  + A   I  MP      VW  LLSAC  H +VE GE AA+N+L L+P   G Y+ 
Sbjct: 500 RAGHLEEAENVILSMPFIPGPSVWGALLSACRVHSDVERGERAAENVLKLDPDDDGAYVA 559

Query: 542 MANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKT 601
           +++++ +AG +++A   R +M+ R + KEPG S +E+DG V VF   D+SH  S  I   
Sbjct: 560 LSSIYAAAGRYEDAEKVRQVMEKRDVVKEPGQSWIEVDGKVHVFHVEDKSHPESEQIYVE 619

Query: 602 LKELHIKLLEAGYIAEADIV 621
           L +L  ++ E GY+ +   V
Sbjct: 620 LGKLTEQIKEMGYVPDTRFV 639

Source: Physcomitrella patens subsp. patens

Species: Physcomitrella patens

Genus: Physcomitrella

Family: Funariaceae

Order: Funariales

Class: Bryopsida

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	622
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.982	0.701	0.354	3.9e-108
TAIR|locus:2118964	823	EMB2758 "embryo defective 2758	0.972	0.735	0.344	1.3e-100
TAIR|locus:2131631	804	AT4G35130 "AT4G35130" [Arabido	0.935	0.723	0.348	2.7e-100
TAIR|locus:4515103421	654	AT4G19191 "AT4G19191" [Arabido	0.967	0.920	0.334	1.3e-98
TAIR|locus:2202074	809	CRR22 "CHLORORESPIRATORY REDUC	0.990	0.761	0.341	4.7e-96
TAIR|locus:2175653	677	AT5G39350 "AT5G39350" [Arabido	0.924	0.849	0.345	1.6e-95
TAIR|locus:2196583	866	ECB2 "EARLY CHLOROPLAST BIOGEN	0.974	0.699	0.338	4.2e-95
TAIR|locus:2038603	868	AT2G27610 "AT2G27610" [Arabido	0.975	0.699	0.334	2.3e-94
TAIR|locus:2122551	834	AT4G39530 [Arabidopsis thalian	0.971	0.724	0.323	3.8e-94
TAIR|locus:2103483	890	OTP84 "ORGANELLE TRANSCRIPT PR	0.975	0.682	0.328	4.3e-93

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

 Score = 1069 (381.4 bits), Expect = 3.9e-108, P = 3.9e-108
 Identities = 219/618 (35%), Positives = 352/618 (56%)

Query:     1 MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVG 60
             ++     +G F  ++  +  M+ +GV  +S+TF  V K+ +++ S+  G+++H  +LK G
Sbjct:   166 LMNELAKSGDFSGSIGLFKKMMSSGVEMDSYTFSCVSKSFSSLRSVHGGEQLHGFILKSG 225

Query:    61 FQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILV 120
             F +   V   L+  Y K     S+RKV DEM  R   V+SWNSII+ +    L ++ + V
Sbjct:   226 FGERNSVGNSLVAFYLKNQRVDSARKVFDEMTER--DVISWNSIINGYVSNGLAEKGLSV 283

Query:   121 LKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGL---LNNEIPLANSVMSMYAK 177
               +M V G+E+  +T VSV +GC+  + IS+   V+ +G+    + E    N+++ MY+K
Sbjct:   284 FVQMLVSGIEIDLATIVSVFAGCADSRLISLGRAVHSIGVKACFSREDRFCNTLLDMYSK 343

Query:   178 FGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNL 237
              G ++ A+++F E+ + S+VS+T++I GY   G   EA  L  +M    ++PD+     +
Sbjct:   344 CGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEGISPDVYTVTAV 403

Query:   238 ILGCAQVGNXXXXXXXXXXXXXXGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSV 297
             +  CA+                     +  + N L+ MY KCG ++ A  VF  +  K +
Sbjct:   404 LNCCARYRLLDEGKRVHEWIKENDLGFDIFVSNALMDMYAKCGSMQEAELVFSEMRVKDI 463

Query:   298 FLWTSMIGGYAQLGYPSEAVNLFKRLLKTS-VRPNEATLATTLSACAELGSLSKGKEIEE 356
               W ++IGGY++  Y +EA++LF  LL+     P+E T+A  L ACA L +  KG+EI  
Sbjct:   464 ISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSAFDKGREIHG 523

Query:   357 YIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQ 416
             YI+ NG  S+R V  SL+ M++KCG +  A  +F+ +  KDL  W+ MI GY +HG G +
Sbjct:   524 YIMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVMIAGYGMHGFGKE 583

Query:   417 ALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCL 476
             A+ LF +M+   G++ D + + S+L ACSHSG+VD+G  FF  M+    IEP++EHY C+
Sbjct:   584 AIALFNQMRQA-GIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECKIEPTVEHYACI 642

Query:   477 VDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGST 536
             VD+L R G    A + I  MP+   A +W  LL  C  HH+V+L E  A+ +  L P +T
Sbjct:   643 VDMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLAEKVAEKVFELEPENT 702

Query:   537 GNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSV 596
             G Y+LMAN++  A  W++    R  +  R L K PG S +EI G V +FVAGD S+  + 
Sbjct:   703 GYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGRVNIFVAGDSSNPETE 762

Query:   597 DIRKTLKELHIKLLEAGY 614
             +I   L+++  +++E GY
Sbjct:   763 NIEAFLRKVRARMIEEGY 780

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:2118964 EMB2758 "embryo defective 2758" [Arabidopsis thaliana (taxid:3702)]

 Score = 998 (356.4 bits), Expect = 1.3e-100, P = 1.3e-100
 Identities = 215/625 (34%), Positives = 358/625 (57%)

Query:     1 MIRNSTNNGSFEETLSTYSS-MLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKV 59
             MI      G+  E +  +S  ML +G+  +  TFP VLKAC    ++ DG ++H   LK 
Sbjct:   123 MISGYGRAGNSSEVIRCFSLFMLSSGLTPDYRTFPSVLKAC---RTVIDGNKIHCLALKF 179

Query:    60 GFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAIL 119
             GF  D +V   LI +YS+     ++R + DEMPVR   + SWN++IS + ++    EA L
Sbjct:   180 GFMWDVYVAASLIHLYSRYKAVGNARILFDEMPVR--DMGSWNAMISGYCQSGNAKEA-L 236

Query:   120 VLKEMWVLGLE-LSASTFVSVVSGCS----FRQGISMHCCVYKLGLLNNEIPLANSVMSM 174
              L      GL  + + T VS++S C+    F +G+++H    K GL  +E+ ++N ++ +
Sbjct:   237 TLSN----GLRAMDSVTVVSLLSACTEAGDFNRGVTIHSYSIKHGL-ESELFVSNKLIDL 291

Query:   175 YAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVF 234
             YA+FG++ + + +FD +    ++SW +II  Y        A  L  +MR   + PD +  
Sbjct:   292 YAEFGRLRDCQKVFDRMYVRDLISWNSIIKAYELNEQPLRAISLFQEMRLSRIQPDCLTL 351

Query:   235 LNLILGCAQVGNXXXXXXXXXXXXXXGYNNED-PLDNLLVSMYTKCGDLELARRVFDAVL 293
             ++L    +Q+G+              G+  ED  + N +V MY K G ++ AR VF+ + 
Sbjct:   352 ISLASILSQLGDIRACRSVQGFTLRKGWFLEDITIGNAVVVMYAKLGLVDSARAVFNWLP 411

Query:   294 EKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTS-VRPNEATLATTLSACAELGSLSKGK 352
                V  W ++I GYAQ G+ SEA+ ++  + +   +  N+ T  + L AC++ G+L +G 
Sbjct:   412 NTDVISWNTIISGYAQNGFASEAIEMYNIMEEEGEIAANQGTWVSVLPACSQAGALRQGM 471

Query:   353 EIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHG 412
             ++   ++ NGL  +  V TSL  M+ KCGR+  A  +F ++P  +   W+ +I  +  HG
Sbjct:   472 KLHGRLLKNGLYLDVFVVTSLADMYGKCGRLEDALSLFYQIPRVNSVPWNTLIACHGFHG 531

Query:   413 MGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEH 472
              G++A+ LF +M   EG+KPD + + ++LSACSHSG+VD+G   F+ MQ+++GI PS++H
Sbjct:   532 HGEKAVMLFKEMLD-EGVKPDHITFVTLLSACSHSGLVDEGQWCFEMMQTDYGITPSLKH 590

Query:   473 YLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLN 532
             Y C+VD+ GRAG+ + ALK I  M ++  A +W  LLSAC  H NV+LG+ A+++L  + 
Sbjct:   591 YGCMVDMYGRAGQLETALKFIKSMSLQPDASIWGALLSACRVHGNVDLGKIASEHLFEVE 650

Query:   533 PGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSH 592
             P   G ++L++N++ SAG W+     R +   + L K PGWS +E+D  V+VF  G+++H
Sbjct:   651 PEHVGYHVLLSNMYASAGKWEGVDEIRSIAHGKGLRKTPGWSSMEVDNKVEVFYTGNQTH 710

Query:   593 HLSVDIRKTLKELHIKLLEAGYIAE 617
              +  ++ + L  L  KL   GY+ +
Sbjct:   711 PMYEEMYRELTALQAKLKMIGYVPD 735

GO:0005739 "mitochondrion" evidence=ISM

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

TAIR|locus:2131631 AT4G35130 "AT4G35130" [Arabidopsis thaliana (taxid:3702)]

 Score = 995 (355.3 bits), Expect = 2.7e-100, P = 2.7e-100
 Identities = 209/600 (34%), Positives = 343/600 (57%)

Query:     1 MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVG 60
             MI+  T+ G + E +  YS M+  GV  ++FT+P V+K+ A I+S+ +GK++H+ V+K+G
Sbjct:   101 MIKGFTSCGLYIEAVQFYSRMVFAGVKADTFTYPFVIKSVAGISSLEEGKKIHAMVIKLG 160

Query:    61 FQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLND--EAI 118
             F  D +V   LI +Y K      + KV +EMP R   +VSWNS+IS +    L D   ++
Sbjct:   161 FVSDVYVCNSLISLYMKLGCAWDAEKVFEEMPER--DIVSWNSMISGY--LALGDGFSSL 216

Query:   119 LVLKEMWVLGLELSASTFVSVVSGCSF----RQGISMHCCVYKLGLLNNEIPLANSVMSM 174
             ++ KEM   G +    + +S +  CS     + G  +HC   +  +   ++ +  S++ M
Sbjct:   217 MLFKEMLKCGFKPDRFSTMSALGACSHVYSPKMGKEIHCHAVRSRIETGDVMVMTSILDM 276

Query:   175 YAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQM--RRMSVTPDLV 232
             Y+K+G+V+ A  IF+ + + +IV+W  +IG Y   G V +AF LC Q    +  + PD++
Sbjct:   277 YSKYGEVSYAERIFNGMIQRNIVAWNVMIGCYARNGRVTDAF-LCFQKMSEQNGLQPDVI 335

Query:   233 VFLNLILGCAQVGNXXXXXXXXXXXXXXGYNNEDPLDNLLVSMYTKCGDLELARRVFDAV 292
               +NL+   A +                G+     L+  L+ MY +CG L+ A  +FD +
Sbjct:   336 TSINLLPASAILEGRTIHGYAMRR----GFLPHMVLETALIDMYGECGQLKSAEVIFDRM 391

Query:   293 LEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGK 352
              EK+V  W S+I  Y Q G    A+ LF+ L  +S+ P+  T+A+ L A AE  SLS+G+
Sbjct:   392 AEKNVISWNSIIAAYVQNGKNYSALELFQELWDSSLVPDSTTIASILPAYAESLSLSEGR 451

Query:   353 EIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHG 412
             EI  YIV +   SN  +  SL+HM++ CG +  A++ F  +  KD+  W+++I  YA+HG
Sbjct:   452 EIHAYIVKSRYWSNTIILNSLVHMYAMCGDLEDARKCFNHILLKDVVSWNSIIMAYAVHG 511

Query:   413 MGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEH 472
              G  ++ LF +M     + P+   + S+L+ACS SGMVD+G  +F+SM+  +GI+P IEH
Sbjct:   512 FGRISVWLFSEMI-ASRVNPNKSTFASLLAACSISGMVDEGWEYFESMKREYGIDPGIEH 570

Query:   473 YLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLN 532
             Y C++DL+GR G F  A + + EMP    A++W  LL+A   H ++ + E+AA+ +  + 
Sbjct:   571 YGCMLDLIGRTGNFSAAKRFLEEMPFVPTARIWGSLLNASRNHKDITIAEFAAEQIFKME 630

Query:   533 PGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSH 592
               +TG Y+L+ N++  AG W++    + LM+ + +++    S VE  G   VF  GDRSH
Sbjct:   631 HDNTGCYVLLLNMYAEAGRWEDVNRIKLLMESKGISRTSSRSTVEAKGKSHVFTNGDRSH 690

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:4515103421 AT4G19191 "AT4G19191" [Arabidopsis thaliana (taxid:3702)]

 Score = 979 (349.7 bits), Expect = 1.3e-98, P = 1.3e-98
 Identities = 205/613 (33%), Positives = 336/613 (54%)

Query:     2 IRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGF 61
             IR + N     E+L  +  M + G   N+FTFP V KACA +  +   + VH+H++K  F
Sbjct:    24 IREAVNRNDPVESLLLFREMKRGGFEPNNFTFPFVAKACARLADVGCCEMVHAHLIKSPF 83

Query:    62 QQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVL 121
               D FV T  +DM+ KC+    + KV + MP R     +WN+++S   ++   D+A  + 
Sbjct:    84 WSDVFVGTATVDMFVKCNSVDYAAKVFERMPER--DATTWNAMLSGFCQSGHTDKAFSLF 141

Query:   122 KEMWVLGLELSASTFVSVVSGCSFRQGI----SMHCCVYKLGLLNNEIPLANSVMSMYAK 177
             +EM +  +   + T ++++   SF + +    +MH    +LG+ + ++ +AN+ +S Y K
Sbjct:   142 REMRLNEITPDSVTVMTLIQSASFEKSLKLLEAMHAVGIRLGV-DVQVTVANTWISTYGK 200

Query:   178 FGKVNEARSIFDEI--GETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFL 235
              G ++ A+ +F+ I  G+ ++VSW ++   Y   G   +AFGL   M R    PDL  F+
Sbjct:   201 CGDLDSAKLVFEAIDRGDRTVVSWNSMFKAYSVFGEAFDAFGLYCLMLREEFKPDLSTFI 260

Query:   236 NLILGCAQVGNXXXXXXXXXXXXXXGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEK 295
             NL   C                   G + +    N  +SMY+K  D   AR +FD +  +
Sbjct:   261 NLAASCQNPETLTQGRLIHSHAIHLGTDQDIEAINTFISMYSKSEDTCSARLLFDIMTSR 320

Query:   296 SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIE 355
             +   WT MI GYA+ G   EA+ LF  ++K+  +P+  TL + +S C + GSL  GK I+
Sbjct:   321 TCVSWTVMISGYAEKGDMDEALALFHAMIKSGEKPDLVTLLSLISGCGKFGSLETGKWID 380

Query:   356 EYIVLNGLE-SNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMG 414
                 + G +  N  +  +LI M+SKCG I++A+++F+  P+K +  W+ MI GYA++G+ 
Sbjct:   381 ARADIYGCKRDNVMICNALIDMYSKCGSIHEARDIFDNTPEKTVVTWTTMIAGYALNGIF 440

Query:   415 DQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYL 474
              +AL LF KM  ++  KP+ + + ++L AC+HSG ++ G  +F  M+  + I P ++HY 
Sbjct:   441 LEALKLFSKMIDLD-YKPNHITFLAVLQACAHSGSLEKGWEYFHIMKQVYNISPGLDHYS 499

Query:   475 CLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG 534
             C+VDLLGR G+ + AL+ I  M  +  A +W  LL+AC  H NV++ E AA++L  L P 
Sbjct:   500 CMVDLLGRKGKLEEALELIRNMSAKPDAGIWGALLNACKIHRNVKIAEQAAESLFNLEPQ 559

Query:   535 STGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHL 594
                 Y+ MAN++ +AGMW   A  R +M  R + K PG S ++++G    F  G+  H  
Sbjct:   560 MAAPYVEMANIYAAAGMWDGFARIRSIMKQRNIKKYPGESVIQVNGKNHSFTVGEHGHVE 619

Query:   595 SVDIRKTLKELHI 607
             +  I  TL  L +
Sbjct:   620 NEVIYFTLNGLSL 632

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2202074 CRR22 "CHLORORESPIRATORY REDUCTION22" [Arabidopsis thaliana (taxid:3702)]

 Score = 955 (341.2 bits), Expect = 4.7e-96, P = 4.7e-96
 Identities = 214/626 (34%), Positives = 343/626 (54%)

Query:     1 MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVG 60
             M++        ++ L  +  M    V    + F  +LK C +   +  GK +H  ++K G
Sbjct:   106 MLKGFAKVSDLDKALQFFVRMRYDDVEPVVYNFTYLLKVCGDEAELRVGKEIHGLLVKSG 165

Query:    61 FQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILV 120
             F  D F  TGL +MY+KC     +RKV D MP R   +VSWN+I++ +S+  +   A+ +
Sbjct:   166 FSLDLFAMTGLENMYAKCRQVNEARKVFDRMPER--DLVSWNTIVAGYSQNGMARMALEM 223

Query:   121 LKEMWVLGLELSASTFVSVVSGCSFRQGISM----HCCVYKLGLLNNEIPLANSVMSMYA 176
             +K M    L+ S  T VSV+   S  + IS+    H    + G  ++ + ++ +++ MYA
Sbjct:   224 VKSMCEENLKPSFITIVSVLPAVSALRLISVGKEIHGYAMRSGF-DSLVNISTALVDMYA 282

Query:   177 KFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLN 236
             K G +  AR +FD + E ++VSW ++I  YV   N  EA  +  +M    V P  V  + 
Sbjct:   283 KCGSLETARQLFDGMLERNVVSWNSMIDAYVQNENPKEAMLIFQKMLDEGVKPTDVSVMG 342

Query:   237 LILGCAQVGNXXXXXXXXXXXXXXGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKS 296
              +  CA +G+              G +    + N L+SMY KC +++ A  +F  +  ++
Sbjct:   343 ALHACADLGDLERGRFIHKLSVELGLDRNVSVVNSLISMYCKCKEVDTAASMFGKLQSRT 402

Query:   297 VFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEE 356
             +  W +MI G+AQ G P +A+N F ++   +V+P+  T  + ++A AEL      K I  
Sbjct:   403 LVSWNAMILGFAQNGRPIDALNYFSQMRSRTVKPDTFTYVSVITAIAELSITHHAKWIHG 462

Query:   357 YIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQ 416
              ++ + L+ N  V T+L+ M++KCG I  A+ +F+ + ++ +  W+AMI+GY  HG G  
Sbjct:   463 VVMRSCLDKNVFVTTALVDMYAKCGAIMIARLIFDMMSERHVTTWNAMIDGYGTHGFGKA 522

Query:   417 ALNLFYKMQHVEG-LKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLC 475
             AL LF +MQ  +G +KP+ V + S++SACSHSG+V+ GL  F  M+ N+ IE S++HY  
Sbjct:   523 ALELFEEMQ--KGTIKPNGVTFLSVISACSHSGLVEAGLKCFYMMKENYSIELSMDHYGA 580

Query:   476 LVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS 535
             +VDLLGRAGR + A   I +MPV+    V+  +L AC  H NV   E AA+ L  LNP  
Sbjct:   581 MVDLLGRAGRLNEAWDFIMQMPVKPAVNVYGAMLGACQIHKNVNFAEKAAERLFELNPDD 640

Query:   536 TGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLS 595
              G ++L+AN++ +A MW++    R  M  + L K PG S VEI   V  F +G  +H  S
Sbjct:   641 GGYHVLLANIYRAASMWEKVGQVRVSMLRQGLRKTPGCSMVEIKNEVHSFFSGSTAHPDS 700

Query:   596 VDIRKTLKELHIKLLEAGYIAEADIV 621
               I   L++L   + EAGY+ + ++V
Sbjct:   701 KKIYAFLEKLICHIKEAGYVPDTNLV 726

GO:0005739 "mitochondrion" evidence=ISM

GO:0004519 "endonuclease activity" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0016556 "mRNA modification" evidence=RCA;IMP

TAIR|locus:2175653 AT5G39350 "AT5G39350" [Arabidopsis thaliana (taxid:3702)]

 Score = 950 (339.5 bits), Expect = 1.6e-95, P = 1.6e-95
 Identities = 203/587 (34%), Positives = 322/587 (54%)

Query:     1 MIRNSTNNGSFEETLSTYSSMLQTGVH--GNSFTFPLVLKACANINSIWDGKRVHSHVLK 58
             +IR     G + + +S +  M+  GV    + +T+P V KA   + S+  G  VH  +L+
Sbjct:    86 VIRMYVREGLYHDAISVFIRMVSEGVKCVPDGYTYPFVAKAAGELKSMKLGLVVHGRILR 145

Query:    59 VGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAI 118
               F +D +VQ  L+ MY        +R V D M  + R V+SWN++IS + R    ++A+
Sbjct:   146 SWFGRDKYVQNALLAMYMNFGKVEMARDVFDVM--KNRDVISWNTMISGYYRNGYMNDAL 203

Query:   119 LVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKL---GLLNNEIPLANSVMSMY 175
             ++   M    ++L  +T VS++  C   + + M   V+KL     L ++I + N++++MY
Sbjct:   204 MMFDWMVNESVDLDHATIVSMLPVCGHLKDLEMGRNVHKLVEEKRLGDKIEVKNALVNMY 263

Query:   176 AKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFL 235
              K G+++EAR +FD +    +++WT +I GY   G+V  A  LC  M+   V P+ V   
Sbjct:   264 LKCGRMDEARFVFDRMERRDVITWTCMINGYTEDGDVENALELCRLMQFEGVRPNAVTIA 323

Query:   236 NLILGCAQVGNXXXXXXXXXXXXXXGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEK 295
             +L+  C                      ++  ++  L+SMY KC  ++L  RVF    + 
Sbjct:   324 SLVSVCGDALKVNDGKCLHGWAVRQQVYSDIIIETSLISMYAKCKRVDLCFRVFSGASKY 383

Query:   296 SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIE 355
                 W+++I G  Q    S+A+ LFKR+ +  V PN ATL + L A A L  L +   I 
Sbjct:   384 HTGPWSAIIAGCVQNELVSDALGLFKRMRREDVEPNIATLNSLLPAYAALADLRQAMNIH 443

Query:   356 EYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVF----ERVPDKDLAVWSAMINGYAIH 411
              Y+   G  S+    T L+H++SKCG +  A ++F    E+   KD+ +W A+I+GY +H
Sbjct:   444 CYLTKTGFMSSLDAATGLVHVYSKCGTLESAHKIFNGIQEKHKSKDVVLWGALISGYGMH 503

Query:   412 GMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIE 471
             G G  AL +F +M    G+ P+ + +TS L+ACSHSG+V++GL+ F+ M  ++       
Sbjct:   504 GDGHNALQVFMEMVR-SGVTPNEITFTSALNACSHSGLVEEGLTLFRFMLEHYKTLARSN 562

Query:   472 HYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTL 531
             HY C+VDLLGRAGR D A   I  +P E  + VW  LL+AC+ H NV+LGE AA  L  L
Sbjct:   563 HYTCIVDLLGRAGRLDEAYNLITTIPFEPTSTVWGALLAACVTHENVQLGEMAANKLFEL 622

Query:   532 NPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEI 578
              P +TGNY+L+AN++ + G WK+    R +M++  L K+PG S +EI
Sbjct:   623 EPENTGNYVLLANIYAALGRWKDMEKVRSMMENVGLRKKPGHSTIEI 669

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2196583 ECB2 "EARLY CHLOROPLAST BIOGENESIS2" [Arabidopsis thaliana (taxid:3702)]

 Score = 946 (338.1 bits), Expect = 4.2e-95, P = 4.2e-95
 Identities = 209/618 (33%), Positives = 325/618 (52%)

Query:     1 MIRNSTNNGSFEETLSTYSSMLQTG-VHGNSFTFPLVLKACANINSIWDGKRVHSHVLKV 59
             ++      G F+E +  Y  ML  G V  + +TFP VL+ C  I  +  GK VH HV++ 
Sbjct:   166 LVGGYAKQGYFDEAMCLYHRMLWVGGVKPDVYTFPCVLRTCGGIPDLARGKEVHVHVVRY 225

Query:    60 GFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAIL 119
             G++ D  V   LI MY KC D  S+R + D MP   R ++SWN++IS +    +  E + 
Sbjct:   226 GYELDIDVVNALITMYVKCGDVKSARLLFDRMP--RRDIISWNAMISGYFENGMCHEGLE 283

Query:   120 VLKEMWVLGLELSASTFVSVVSGCSF----RQGISMHCCVYKLGLLNNEIPLANSVMSMY 175
             +   M  L ++    T  SV+S C      R G  +H  V   G    +I + NS+  MY
Sbjct:   284 LFFAMRGLSVDPDLMTLTSVISACELLGDRRLGRDIHAYVITTGFAV-DISVCNSLTQMY 342

Query:   176 AKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFL 235
                G   EA  +F  +    IVSWTT+I GY      ++A      M + SV PD +   
Sbjct:   343 LNAGSWREAEKLFSRMERKDIVSWTTMISGYEYNFLPDKAIDTYRMMDQDSVKPDEITVA 402

Query:   236 NLILGCAQVGNXXXXXXXXXXXXXXGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEK 295
              ++  CA +G+                 +   + N L++MY+KC  ++ A  +F  +  K
Sbjct:   403 AVLSACATLGDLDTGVELHKLAIKARLISYVIVANNLINMYSKCKCIDKALDIFHNIPRK 462

Query:   296 SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIE 355
             +V  WTS+I G        EA+ +F R +K +++PN  TL   L+ACA +G+L  GKEI 
Sbjct:   463 NVISWTSIIAGLRLNNRCFEAL-IFLRQMKMTLQPNAITLTAALAACARIGALMCGKEIH 521

Query:   356 EYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGD 415
              +++  G+  +  +  +L+ M+ +CGR+N A   F     KD+  W+ ++ GY+  G G 
Sbjct:   522 AHVLRTGVGLDDFLPNALLDMYVRCGRMNTAWSQFNS-QKKDVTSWNILLTGYSERGQGS 580

Query:   416 QALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLC 475
               + LF +M     ++PD + + S+L  CS S MV  GL +F  M+ ++G+ P+++HY C
Sbjct:   581 MVVELFDRMVKSR-VRPDEITFISLLCGCSKSQMVRQGLMYFSKME-DYGVTPNLKHYAC 638

Query:   476 LVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS 535
             +VDLLGRAG    A K I +MPV     VW  LL+AC  HH ++LGE +A+++  L+  S
Sbjct:   639 VVDLLGRAGELQEAHKFIQKMPVTPDPAVWGALLNACRIHHKIDLGELSAQHIFELDKKS 698

Query:   536 TGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLS 595
              G YIL+ NL+   G W+E A  R +M +  LT + G S VE+ G V  F++ D+ H  +
Sbjct:   699 VGYYILLCNLYADCGKWREVAKVRRMMKENGLTVDAGCSWVEVKGKVHAFLSDDKYHPQT 758

Query:   596 VDIRKTLKELHIKLLEAG 613
              +I   L+  + K+ E G
Sbjct:   759 KEINTVLEGFYEKMSEVG 776

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

GO:0009658 "chloroplast organization" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0009416 "response to light stimulus" evidence=IEP

TAIR|locus:2038603 AT2G27610 "AT2G27610" [Arabidopsis thaliana (taxid:3702)]

 Score = 939 (335.6 bits), Expect = 2.3e-94, P = 2.3e-94
 Identities = 209/625 (33%), Positives = 343/625 (54%)

Query:     3 RNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQ 62
             RNS N    +E L+ +  M   G   NSFTF   L   A       G +VH+ V+K G  
Sbjct:   171 RNSMN----DEVLTLFMRMQNEGTQPNSFTFAAALGVLAEEGVGGRGLQVHTVVVKNGLD 226

Query:    63 QDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLK 122
             +   V   LI++Y KC +   +R + D+  V+  SVV+WNS+IS ++   L+ EA+ +  
Sbjct:   227 KTIPVSNSLINLYLKCGNVRKARILFDKTEVK--SVVTWNSMISGYAANGLDLEALGMFY 284

Query:   123 EMWVLGLELSASTFVSVVSGCS----FRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKF 178
              M +  + LS S+F SV+  C+     R    +HC V K G L ++  +  ++M  Y+K 
Sbjct:   285 SMRLNYVRLSESSFASVIKLCANLKELRFTEQLHCSVVKYGFLFDQ-NIRTALMVAYSKC 343

Query:   179 GKVNEARSIFDEIGET-SIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNL 237
               + +A  +F EIG   ++VSWT +I G++      EA  L ++M+R  V P+   + ++
Sbjct:   344 TAMLDALRLFKEIGCVGNVVSWTAMISGFLQNDGKEEAVDLFSEMKRKGVRPNEFTY-SV 402

Query:   238 ILGCAQVGNXXXXXXXXXXXXXXGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSV 297
             IL    V                 Y     +   L+  Y K G +E A +VF  + +K +
Sbjct:   403 ILTALPV---ISPSEVHAQVVKTNYERSSTVGTALLDAYVKLGKVEEAAKVFSGIDDKDI 459

Query:   298 FLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELG-SLSKGKEIEE 356
               W++M+ GYAQ G    A+ +F  L K  ++PNE T ++ L+ CA    S+ +GK+   
Sbjct:   460 VAWSAMLAGYAQTGETEAAIKMFGELTKGGIKPNEFTFSSILNVCAATNASMGQGKQFHG 519

Query:   357 YIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQ 416
             + + + L+S+  V ++L+ M++K G I  A+EVF+R  +KDL  W++MI+GYA HG   +
Sbjct:   520 FAIKSRLDSSLCVSSALLTMYAKKGNIESAEEVFKRQREKDLVSWNSMISGYAQHGQAMK 579

Query:   417 ALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCL 476
             AL++F +M+  + +K D V +  + +AC+H+G+V++G  +F  M  +  I P+ EH  C+
Sbjct:   580 ALDVFKEMKKRK-VKMDGVTFIGVFAACTHAGLVEEGEKYFDIMVRDCKIAPTKEHNSCM 638

Query:   477 VDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGST 536
             VDL  RAG+ + A+K I  MP    + +W  +L+AC  H   ELG  AA+ ++ + P  +
Sbjct:   639 VDLYSRAGQLEKAMKVIENMPNPAGSTIWRTILAACRVHKKTELGRLAAEKIIAMKPEDS 698

Query:   537 GNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSV 596
               Y+L++N++  +G W+E A  R LM++R + KEPG+S +E+      F+AGDRSH L  
Sbjct:   699 AAYVLLSNMYAESGDWQERAKVRKLMNERNVKKEPGYSWIEVKNKTYSFLAGDRSHPLKD 758

Query:   597 DIRKTLKELHIKLLEAGYIAEADIV 621
              I   L++L  +L + GY  +   V
Sbjct:   759 QIYMKLEDLSTRLKDLGYEPDTSYV 783

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2122551 AT4G39530 [Arabidopsis thaliana (taxid:3702)]

 Score = 937 (334.9 bits), Expect = 3.8e-94, P = 3.8e-94
 Identities = 199/616 (32%), Positives = 335/616 (54%)

Query:     1 MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVG 60
             MI      G    +L  +  +++  V  + +    VL AC+ +  +  GK++H+H+L+ G
Sbjct:   220 MISGCVKMGRSYVSLQLFYQLMEDNVVPDGYILSTVLSACSILPFLEGGKQIHAHILRYG 279

Query:    61 FQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILV 120
              + DA +   LID Y KC   +++ K+ + MP +  +++SW +++S + +  L+ EA+ +
Sbjct:   280 LEMDASLMNVLIDSYVKCGRVIAAHKLFNGMPNK--NIISWTTLLSGYKQNALHKEAMEL 337

Query:   121 LKEMWVLGLELSASTFVSVVSGCSFRQ----GISMHCCVYKLGLLNNEIPLANSVMSMYA 176
                M   GL+       S+++ C+       G  +H    K  L  N+  + NS++ MYA
Sbjct:   338 FTSMSKFGLKPDMYACSSILTSCASLHALGFGTQVHAYTIKANL-GNDSYVTNSLIDMYA 396

Query:   177 KFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGN---VNEAFGLCNQMRRMSVTPDLVV 233
             K   + +AR +FD      +V +  +I GY  +G    ++EA  +   MR   + P L+ 
Sbjct:   397 KCDCLTDARKVFDIFAAADVVLFNAMIEGYSRLGTQWELHEALNIFRDMRFRLIRPSLLT 456

Query:   234 FLNLILGCAQVGNXXXXXXXXXXXXXXGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVL 293
             F++L+   A + +              G N +    + L+ +Y+ C  L+ +R VFD + 
Sbjct:   457 FVSLLRASASLTSLGLSKQIHGLMFKYGLNLDIFAGSALIDVYSNCYCLKDSRLVFDEMK 516

Query:   294 EKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKE 353
              K + +W SM  GY Q     EA+NLF  L  +  RP+E T A  ++A   L S+  G+E
Sbjct:   517 VKDLVIWNSMFAGYVQQSENEEALNLFLELQLSRERPDEFTFANMVTAAGNLASVQLGQE 576

Query:   354 IEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGM 413
                 ++  GLE N  +  +L+ M++KCG    A + F+    +D+  W+++I+ YA HG 
Sbjct:   577 FHCQLLKRGLECNPYITNALLDMYAKCGSPEDAHKAFDSAASRDVVCWNSVISSYANHGE 636

Query:   414 GDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHY 473
             G +AL +  KM   EG++P+ + +  +LSACSH+G+V+DGL  F+ M   FGIEP  EHY
Sbjct:   637 GKKALQMLEKMMS-EGIEPNYITFVGVLSACSHAGLVEDGLKQFELML-RFGIEPETEHY 694

Query:   474 LCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNP 533
             +C+V LLGRAGR + A + I +MP +  A VW  LLS C K  NVEL E+AA+  +  +P
Sbjct:   695 VCMVSLLGRAGRLNKARELIEKMPTKPAAIVWRSLLSGCAKAGNVELAEHAAEMAILSDP 754

Query:   534 GSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHH 593
               +G++ +++N++ S GMW EA   R  M    + KEPG S + I+  V +F++ D+SH 
Sbjct:   755 KDSGSFTMLSNIYASKGMWTEAKKVRERMKVEGVVKEPGRSWIGINKEVHIFLSKDKSHC 814

Query:   594 LSVDIRKTLKELHIKL 609
              +  I + L +L +++
Sbjct:   815 KANQIYEVLDDLLVQI 830

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 927 (331.4 bits), Expect = 4.3e-93, P = 4.3e-93
 Identities = 207/631 (32%), Positives = 349/631 (55%)

Query:    11 FEETLSTYSSMLQTGVHGNSFTFPLVLKACANI---NSIWDGKRVHSHVLKVGFQQDAFV 67
             +E  L  +  ML   V  +SFT   V+ AC+N+     +  GK+VH++ L+ G + ++F+
Sbjct:   180 WEMALEAFRCMLDENVEPSSFTLVSVVTACSNLPMPEGLMMGKQVHAYGLRKG-ELNSFI 238

Query:    68 QTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVL 127
                L+ MY K     SS+ +L     R   +V+WN+++S+  +     EA+  L+EM + 
Sbjct:   239 INTLVAMYGKLGKLASSKVLLGSFGGR--DLVTWNTVLSSLCQNEQLLEALEYLREMVLE 296

Query:   128 GLELSASTFVSVVSGCS----FRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNE 183
             G+E    T  SV+  CS     R G  +H    K G L+    + ++++ MY    +V  
Sbjct:   297 GVEPDEFTISSVLPACSHLEMLRTGKELHAYALKNGSLDENSFVGSALVDMYCNCKQVLS 356

Query:   184 ARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMS-VTPDLVVFLNLILGCA 242
              R +FD + +  I  W  +I GY    +  EA  L   M   + +  +      ++  C 
Sbjct:   357 GRRVFDGMFDRKIGLWNAMIAGYSQNEHDKEALLLFIGMEESAGLLANSTTMAGVVPACV 416

Query:   243 QVGNXXXXXXXXXXXXXXGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTS 302
             + G               G + +  + N L+ MY++ G +++A R+F  + ++ +  W +
Sbjct:   417 RSGAFSRKEAIHGFVVKRGLDRDRFVQNTLMDMYSRLGKIDIAMRIFGKMEDRDLVTWNT 476

Query:   303 MIGGYAQLGYPSEAV-------NLFKRLLK----TSVRPNEATLATTLSACAELGSLSKG 351
             MI GY    +  +A+       NL +++ K     S++PN  TL T L +CA L +L+KG
Sbjct:   477 MITGYVFSEHHEDALLLLHKMQNLERKVSKGASRVSLKPNSITLMTILPSCAALSALAKG 536

Query:   352 KEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIH 411
             KEI  Y + N L ++  V ++L+ M++KCG +  +++VF+++P K++  W+ +I  Y +H
Sbjct:   537 KEIHAYAIKNNLATDVAVGSALVDMYAKCGCLQMSRKVFDQIPQKNVITWNVIIMAYGMH 596

Query:   412 GMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIE 471
             G G +A++L  +M  V+G+KP+ V + S+ +ACSHSGMVD+GL  F  M+ ++G+EPS +
Sbjct:   597 GNGQEAIDLL-RMMMVQGVKPNEVTFISVFAACSHSGMVDEGLRIFYVMKPDYGVEPSSD 655

Query:   472 HYLCLVDLLGRAGRFDLALKTIHEMPVEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLT 530
             HY C+VDLLGRAGR   A + ++ MP +  +A  W+ LL A   H+N+E+GE AA+NL+ 
Sbjct:   656 HYACVVDLLGRAGRIKEAYQLMNMMPRDFNKAGAWSSLLGASRIHNNLEIGEIAAQNLIQ 715

Query:   531 LNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDR 590
             L P    +Y+L+AN+++SAG+W +A   R  M ++ + KEPG S +E    V  FVAGD 
Sbjct:   716 LEPNVASHYVLLANIYSSAGLWDKATEVRRNMKEQGVRKEPGCSWIEHGDEVHKFVAGDS 775

Query:   591 SHHLSVDIRKTLKELHIKLLEAGYIAEADIV 621
             SH  S  +   L+ L  ++ + GY+ +   V
Sbjct:   776 SHPQSEKLSGYLETLWERMRKEGYVPDTSCV 806

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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	622
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-147
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-108
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-74
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	5e-61
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	9e-35
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-13
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-12
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	2e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.002
pfam01535	31	pfam01535, PPR, PPR repeat	0.002
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.003
pfam01535	31	pfam01535, PPR, PPR repeat	0.003
pfam01535	31	pfam01535, PPR, PPR repeat	0.004

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

 Score =  446 bits (1149), Expect = e-147
 Identities = 231/623 (37%), Positives = 341/623 (54%), Gaps = 20/623 (3%)

Query: 1   MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVG 60
           ++      G F+E L  Y  ML  GV  + +TFP VL+ C  I  +  G+ VH+HV++ G
Sbjct: 158 LVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFG 217

Query: 61  FQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILV 120
           F+ D  V   LI MY KC D VS+R V D MP R    +SWN++IS +     N E +  
Sbjct: 218 FELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDC--ISWNAMISGYFE---NGECLEG 272

Query: 121 LKEMWVLGLELSAS----TFVSVVSGCSF----RQGISMHCCVYKLGLLNNEIPLANSVM 172
           L E++    ELS      T  SV+S C      R G  MH  V K G   + + + NS++
Sbjct: 273 L-ELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVD-VSVCNSLI 330

Query: 173 SMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLV 232
            MY   G   EA  +F  +     VSWT +I GY   G  ++A      M + +V+PD +
Sbjct: 331 QMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEI 390

Query: 233 VFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAV 292
              +++  CA +G+L + + +H L  + G  +   + N L+ MY+KC  ++ A  VF  +
Sbjct: 391 TIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNI 450

Query: 293 LEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGK 352
            EK V  WTS+I G  +L        +F R +  +++PN  TL   LSACA +G+L  GK
Sbjct: 451 PEKDVISWTSIIAGL-RLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGK 509

Query: 353 EIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHG 412
           EI  +++  G+  +  +  +L+ ++ +CGR+N A   F    +KD+  W+ ++ GY  HG
Sbjct: 510 EIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFN-SHEKDVVSWNILLTGYVAHG 568

Query: 413 MGDQALNLFYKMQHVE-GLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIE 471
            G  A+ LF +M  VE G+ PD V + S+L ACS SGMV  GL +F SM+  + I P+++
Sbjct: 569 KGSMAVELFNRM--VESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLK 626

Query: 472 HYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTL 531
           HY C+VDLLGRAG+   A   I++MP+     VW  LL+AC  H +VELGE AA+++  L
Sbjct: 627 HYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFEL 686

Query: 532 NPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRS 591
           +P S G YIL+ NL+  AG W E A  R  M +  LT +PG S VE+ G V  F+  D S
Sbjct: 687 DPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDES 746

Query: 592 HHLSVDIRKTLKELHIKLLEAGY 614
           H    +I   L+  + K+  +G 
Sbjct: 747 HPQIKEINTVLEGFYEKMKASGL 769

Length = 857

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

 Score =  340 bits (874), Expect = e-108
 Identities = 170/490 (34%), Positives = 267/490 (54%), Gaps = 4/490 (0%)

Query: 131 LSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIP---LANSVMSMYAKFGKVNEARSI 187
           L AST+ ++V  C   + I     VY     +   P   + N V+ M+ K G + +AR +
Sbjct: 121 LPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRL 180

Query: 188 FDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNL 247
           FDE+ E ++ SW TIIGG V+ GN  EAF L  +M       +   F+ ++   A +G+ 
Sbjct: 181 FDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSA 240

Query: 248 FLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGY 307
                +H  +LK+G   +  +   L+ MY+KCGD+E AR VFD + EK+   W SM+ GY
Sbjct: 241 RAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGY 300

Query: 308 AQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNR 367
           A  GY  EA+ L+  +  + V  ++ T +  +   + L  L   K+    ++  G   + 
Sbjct: 301 ALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDI 360

Query: 368 QVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHV 427
              T+L+ ++SK GR+  A+ VF+R+P K+L  W+A+I GY  HG G +A+ +F +M   
Sbjct: 361 VANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIA- 419

Query: 428 EGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFD 487
           EG+ P+ V + ++LSAC +SG+ + G   F+SM  N  I+P   HY C+++LLGR G  D
Sbjct: 420 EGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLD 479

Query: 488 LALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFT 547
            A   I   P +    +WA LL+AC  H N+ELG  AA+ L  + P    NY+++ NL+ 
Sbjct: 480 EAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYN 539

Query: 548 SAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHI 607
           S+G   EAA     +  + L+  P  + +E+      F +GDR H  S +I + L EL  
Sbjct: 540 SSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMK 599

Query: 608 KLLEAGYIAE 617
           ++ E GY+AE
Sbjct: 600 EISEYGYVAE 609

Length = 697

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

 Score =  253 bits (647), Expect = 8e-74
 Identities = 137/450 (30%), Positives = 226/450 (50%), Gaps = 9/450 (2%)

Query: 8   NGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFV 67
           +G  E+ L    SM +  V  +   +  + + C    ++ +G RV S  L         +
Sbjct: 64  HGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRL 123

Query: 68  QTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVL 127
              ++ M+ +  + V +  V  +MP R   + SWN ++  +++A   DEA+ +   M   
Sbjct: 124 GNAMLSMFVRFGELVHAWYVFGKMPER--DLFSWNVLVGGYAKAGYFDEALCLYHRMLWA 181

Query: 128 GLELSASTFVSVVSGCS----FRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNE 183
           G+     TF  V+  C       +G  +H  V + G    ++ + N++++MY K G V  
Sbjct: 182 GVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGF-ELDVDVVNALITMYVKCGDVVS 240

Query: 184 ARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQ 243
           AR +FD +     +SW  +I GY   G   E   L   MR +SV PDL+   ++I  C  
Sbjct: 241 ARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACEL 300

Query: 244 VGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSM 303
           +G+  L   MH  ++K+G+  +  + N L+ MY   G    A +VF  +  K    WT+M
Sbjct: 301 LGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAM 360

Query: 304 IGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGL 363
           I GY + G P +A+  +  + + +V P+E T+A+ LSACA LG L  G ++ E     GL
Sbjct: 361 ISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGL 420

Query: 364 ESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYK 423
            S   V  +LI M+SKC  I+KA EVF  +P+KD+  W+++I G  ++    +AL  F +
Sbjct: 421 ISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQ 480

Query: 424 MQHVEGLKPDAVVYTSILSACSHSGMVDDG 453
           M  +  LKP++V   + LSAC+  G +  G
Sbjct: 481 M--LLTLKPNSVTLIAALSACARIGALMCG 508

Length = 857

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

 Score =  215 bits (548), Expect = 5e-61
 Identities = 132/457 (28%), Positives = 227/457 (49%), Gaps = 34/457 (7%)

Query: 32  TFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEM 91
           T+  +++AC  + SI   K V+ HV   GF+ D ++   ++ M+ KC   + +R++ DEM
Sbjct: 125 TYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM 184

Query: 92  PVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGC----SFRQ 147
           P   R++ SW +II     A    EA  + +EMW  G +    TFV ++       S R 
Sbjct: 185 PE--RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARA 242

Query: 148 GISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYV 207
           G  +HCCV K G++ +   ++ +++ MY+K G + +AR +FD + E + V+W +++ GY 
Sbjct: 243 GQQLHCCVLKTGVVGDTF-VSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYA 301

Query: 208 NVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDP 267
             G   EA  L  +MR   V+ D   F  +I   +++  L  A   H+ L+++G+  +  
Sbjct: 302 LHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIV 361

Query: 268 LDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTS 327
            +  LV +Y+K G +E AR VFD +  K++  W ++I GY   G  ++AV +F+R++   
Sbjct: 362 ANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEG 421

Query: 328 VRPNEATLATTLSACAELGSLSKGKEIEEYIVLN-GLESNRQVQTSLIHMFSKCGRINKA 386
           V PN  T    LSAC   G   +G EI + +  N  ++        +I +  + G +++A
Sbjct: 422 VAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEA 481

Query: 387 KEVFERVPDKDLA-VWSAMINGYAIH--------------GMGDQALN---LFYKMQHVE 428
             +  R P K    +W+A++    IH              GMG + LN   +   + +  
Sbjct: 482 YAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSS 541

Query: 429 GLKPDA--VVYT------SILSACSHSGMVDDGLSFF 457
           G + +A  VV T      S+  AC+   +     SFF
Sbjct: 542 GRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFF 578

Length = 697

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

 Score =  139 bits (352), Expect = 9e-35
 Identities = 77/249 (30%), Positives = 131/249 (52%), Gaps = 7/249 (2%)

Query: 1   MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVG 60
           +I    + G++ E  + +  M + G      TF ++L+A A + S   G+++H  VLK G
Sbjct: 195 IIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTG 254

Query: 61  FQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILV 120
              D FV   LIDMYSKC D   +R V D MP   ++ V+WNS+++ ++    ++EA+ +
Sbjct: 255 VVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE--KTTVAWNSMLAGYALHGYSEEALCL 312

Query: 121 LKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPL---ANSVM-SMYA 176
             EM   G+ +   TF S++     R  +  H      GL+    PL   AN+ +  +Y+
Sbjct: 313 YYEMRDSGVSIDQFTF-SIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYS 371

Query: 177 KFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLN 236
           K+G++ +AR++FD +   +++SW  +I GY N G   +A  +  +M    V P+ V FL 
Sbjct: 372 KWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLA 431

Query: 237 LILGCAQVG 245
           ++  C   G
Sbjct: 432 VLSACRYSG 440

Length = 697

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

 Score = 72.2 bits (177), Expect = 4e-13
 Identities = 84/340 (24%), Positives = 152/340 (44%), Gaps = 22/340 (6%)

Query: 167 LANSVMSMYAKFGKVNEARSIFDEIG----ETSIVSWTTIIGGYVNVGNVNEAFGLCNQM 222
           L  +++S  AK GKV+    +F E+     E ++ ++  +I G    G V +AFG    M
Sbjct: 474 LYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIM 533

Query: 223 RRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNL----LVSMYTK 278
           R  +V PD VVF  LI  C Q G +  A  + +  +K+  +  DP D++    L+     
Sbjct: 534 RSKNVKPDRVVFNALISACGQSGAVDRAFDVLA-EMKAETHPIDP-DHITVGALMKACAN 591

Query: 279 CGDLELARRVFDAVLEKSV----FLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEAT 334
            G ++ A+ V+  + E ++     ++T  +   +Q G    A++++  + K  V+P+E  
Sbjct: 592 AGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVF 651

Query: 335 LATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVP 394
            +  +      G L K  EI +     G++      +SL+   S      KA E++E + 
Sbjct: 652 FSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIK 711

Query: 395 DKDLAVWSAMINGYAIHGM--GDQALNLFYKMQHVE--GLKPDAVVYTSILSACSHSGMV 450
              L    + +N   I  +  G+Q       +  ++  GL P+ + Y+ +L A       
Sbjct: 712 SIKLRPTVSTMNAL-ITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDA 770

Query: 451 DDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLAL 490
           D GL      + + GI+P++    C+  L  R  RF+ A 
Sbjct: 771 DVGLDLLSQAKED-GIKPNLVMCRCITGLCLR--RFEKAC 807

Length = 1060

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

 Score = 71.1 bits (174), Expect = 1e-12
 Identities = 63/257 (24%), Positives = 116/257 (45%), Gaps = 17/257 (6%)

Query: 270 NLLVSMYTKCGDLELARRVFDAVLEKSVF-----LWTSMIGGYAQLGYPSEAVNLFKRLL 324
           N+L+S+     D++ A RV   +++++       L+T++I   A+ G       +F  ++
Sbjct: 441 NMLMSVCASSQDIDGALRVL-RLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMV 499

Query: 325 KTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRIN 384
              V  N  T    +  CA  G ++K       +    ++ +R V  +LI    + G ++
Sbjct: 500 NAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVD 559

Query: 385 KAKEVF-----ERVP-DKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYT 438
           +A +V      E  P D D     A++   A  G  D+A  + Y+M H   +K    VYT
Sbjct: 560 RAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEV-YQMIHEYNIKGTPEVYT 618

Query: 439 SILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPV 498
             +++CS  G  D  LS +  M+   G++P    +  LVD+ G AG  D A + + +   
Sbjct: 619 IAVNSCSQKGDWDFALSIYDDMKKK-GVKPDEVFFSALVDVAGHAGDLDKAFEILQDARK 677

Query: 499 E---VQAQVWAPLLSAC 512
           +   +    ++ L+ AC
Sbjct: 678 QGIKLGTVSYSSLMGAC 694

Length = 1060

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

 Score = 48.9 bits (118), Expect = 5e-08
 Identities = 16/49 (32%), Positives = 28/49 (57%)

Query: 195 SIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQ 243
            +V++ T+I GY   G V EA  L N+M++  + P++  +  LI G  +
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 46.6 bits (112), Expect = 4e-07
 Identities = 14/51 (27%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 396 KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSH 446
            D+  ++ +I+GY   G  ++AL LF +M+   G+KP+   Y+ ++     
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKK-RGIKPNVYTYSILIDGLCK 50

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

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

 Score = 41.6 bits (99), Expect = 2e-05
 Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 1/47 (2%)

Query: 432 PDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVD 478
           PD V Y +++      G V++ L  F  M+   GI+P++  Y  L+D
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKR-GIKPNVYTYSILID 46

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

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

 Score = 40.5 bits (96), Expect = 7e-05
 Identities = 13/49 (26%), Positives = 23/49 (46%)

Query: 295 KSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACA 343
             V  + ++I GY + G   EA+ LF  + K  ++PN  T +  +    
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 38.9 bits (92), Expect = 2e-04
 Identities = 11/47 (23%), Positives = 26/47 (55%)

Query: 97  SVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGC 143
            VV++N++I  + +    +EA+ +  EM   G++ +  T+  ++ G 
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 39.0 bits (92), Expect = 2e-04
 Identities = 12/34 (35%), Positives = 18/34 (52%)

Query: 197 VSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPD 230
           V++ T+I G    G V EA  L  +M+   + PD
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

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

 Score = 38.6 bits (91), Expect = 2e-04
 Identities = 12/36 (33%), Positives = 20/36 (55%), Gaps = 1/36 (2%)

Query: 435 VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSI 470
           V Y +++     +G V++ L  FK M+   GIEP +
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKER-GIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

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

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 10/31 (32%), Positives = 17/31 (54%)

Query: 197 VSWTTIIGGYVNVGNVNEAFGLCNQMRRMSV 227
           V++ ++I GY   G + EA  L  +M+   V
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 9/26 (34%), Positives = 18/26 (69%)

Query: 400 VWSAMINGYAIHGMGDQALNLFYKMQ 425
            ++++I+GY   G  ++AL LF +M+
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMK 27

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

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

 Score = 35.1 bits (82), Expect = 0.003
 Identities = 11/35 (31%), Positives = 21/35 (60%), Gaps = 1/35 (2%)

Query: 400 VWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDA 434
            ++ +I+G    G  ++AL LF +M+   G++PD 
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKE-RGIEPDV 35

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR. Length = 35

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

 Score = 35.1 bits (82), Expect = 0.003
 Identities = 10/28 (35%), Positives = 16/28 (57%)

Query: 298 FLWTSMIGGYAQLGYPSEAVNLFKRLLK 325
             + S+I GY + G   EA+ LFK + +
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKE 28

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

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

 Score = 34.7 bits (81), Expect = 0.004
 Identities = 9/29 (31%), Positives = 16/29 (55%)

Query: 435 VVYTSILSACSHSGMVDDGLSFFKSMQSN 463
           V Y S++S    +G +++ L  FK M+  
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEK 29

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	622
PLN03077	857	Protein ECB2; Provisional	100.0
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
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.97
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.97
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.95
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.95
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.95
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.93
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.91
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.9
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.88
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.88
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.88
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.87
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.87
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.87
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.87
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.86
PRK14574	822	hmsH outer membrane protein; Provisional	99.84
PRK14574	822	hmsH outer membrane protein; Provisional	99.83
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.83
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.81
KOG2076	895	consensus RNA polymerase III transcription factor	99.79
KOG2003	840	consensus TPR repeat-containing protein [General f	99.78
KOG2003	840	consensus TPR repeat-containing protein [General f	99.76
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.76
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.74
KOG2076	895	consensus RNA polymerase III transcription factor	99.74
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.73
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.73
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.72
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.71
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.68
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.67
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.65
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.65
KOG1126	638	consensus DNA-binding cell division cycle control	99.63
KOG1126	638	consensus DNA-binding cell division cycle control	99.62
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.61
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.61
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.6
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.59
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.59
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.54
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.52
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.52
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.51
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.5
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.48
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.47
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.47
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.46
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.45
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.44
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.44
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.43
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.39
KOG1129	478	consensus TPR repeat-containing protein [General f	99.39
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.38
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.37
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.35
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.35
PRK12370	553	invasion protein regulator; Provisional	99.34
PRK11189	296	lipoprotein NlpI; Provisional	99.3
PRK12370	553	invasion protein regulator; Provisional	99.29
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.28
KOG1129	478	consensus TPR repeat-containing protein [General f	99.28
PF13041	50	PPR_2: PPR repeat family	99.27
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.27
PRK11189	296	lipoprotein NlpI; Provisional	99.26
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.26
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.24
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.23
PF13041	50	PPR_2: PPR repeat family	99.21
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.2
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.2
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.18
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.18
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.17
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.17
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.16
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.16
KOG1125	579	consensus TPR repeat-containing protein [General f	99.14
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.14
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.11
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.08
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.07
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.06
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.01
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.01
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.0
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.0
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.99
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.97
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.95
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.95
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.93
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.92
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.92
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.92
PRK15359	144	type III secretion system chaperone protein SscB;	98.92
PRK15359	144	type III secretion system chaperone protein SscB;	98.91
KOG1125	579	consensus TPR repeat-containing protein [General f	98.9
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.9
PRK04841	903	transcriptional regulator MalT; Provisional	98.87
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.83
PRK04841	903	transcriptional regulator MalT; Provisional	98.76
PLN02789	320	farnesyltranstransferase	98.72
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.71
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.66
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.66
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.65
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.65
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.64
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.6
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.59
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.58
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.56
PLN02789	320	farnesyltranstransferase	98.54
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.51
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.51
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.49
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.48
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.48
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.46
PF12854	34	PPR_1: PPR repeat	98.44
PF12854	34	PPR_1: PPR repeat	98.43
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.43
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.42
KOG0553	304	consensus TPR repeat-containing protein [General f	98.39
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.38
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.36
PRK15331	165	chaperone protein SicA; Provisional	98.35
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.32
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.31
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.28
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.27
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.27
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.26
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.25
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.23
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.23
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.21
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.17
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.13
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.12
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.1
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.08
COG4700	251	Uncharacterized protein conserved in bacteria cont	98.07
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.07
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.04
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.04
KOG0553	304	consensus TPR repeat-containing protein [General f	98.04
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.03
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.03
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.03
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.02
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.99
PF13371	73	TPR_9: Tetratricopeptide repeat	97.99
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.98
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.92
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.91
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.87
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.86
PF13431	34	TPR_17: Tetratricopeptide repeat	97.84
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.82
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.81
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.8
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.78
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.77
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.77
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.77
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.76
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.73
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.72
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.72
PF12688	120	TPR_5: Tetratrico peptide repeat	97.69
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.68
PRK10803	263	tol-pal system protein YbgF; Provisional	97.68
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.68
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.64
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.63
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.62
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.59
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.58
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.58
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.58
PF13428	44	TPR_14: Tetratricopeptide repeat	97.57
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.56
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.55
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.55
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.54
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.54
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.5
PF13371	73	TPR_9: Tetratricopeptide repeat	97.5
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.44
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.38
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.37
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.36
PRK10803	263	tol-pal system protein YbgF; Provisional	97.36
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.33
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.32
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.29
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.27
PF12688	120	TPR_5: Tetratrico peptide repeat	97.19
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.15
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.08
KOG4555	175	consensus TPR repeat-containing protein [Function	97.07
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.06
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.05
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.03
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.01
PRK11906	458	transcriptional regulator; Provisional	96.99
PF13512	142	TPR_18: Tetratricopeptide repeat	96.97
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.95
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.89
PRK11906	458	transcriptional regulator; Provisional	96.84
KOG1585	308	consensus Protein required for fusion of vesicles	96.83
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.79
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.77
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.75
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.72
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.71
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.66
PRK11619	644	lytic murein transglycosylase; Provisional	96.63
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.57
KOG4234	271	consensus TPR repeat-containing protein [General f	96.53
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.53
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.49
PRK15331	165	chaperone protein SicA; Provisional	96.42
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	96.38
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.36
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.34
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.34
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	96.31
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.25
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.23
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	96.23
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	96.2
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.16
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.15
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	96.13
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.12
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.11
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.07
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.02
KOG1258	577	consensus mRNA processing protein [RNA processing	96.01
KOG4555	175	consensus TPR repeat-containing protein [Function	95.93
PF13512	142	TPR_18: Tetratricopeptide repeat	95.87
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.85
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.85
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.83
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	95.68
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.55
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.55
KOG1258	577	consensus mRNA processing protein [RNA processing	95.49
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.44
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.31
KOG1586	288	consensus Protein required for fusion of vesicles	95.29
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.26
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	95.2
COG1747	711	Uncharacterized N-terminal domain of the transcrip	95.17
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.04
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.02
KOG3941	406	consensus Intermediate in Toll signal transduction	94.99
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.97
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.95
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.93
PF13428	44	TPR_14: Tetratricopeptide repeat	94.89
KOG4648	536	consensus Uncharacterized conserved protein, conta	94.79
COG1747	711	Uncharacterized N-terminal domain of the transcrip	94.69
KOG4648	536	consensus Uncharacterized conserved protein, conta	94.67
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	94.65
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.47
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.35
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.34
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.06
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.04
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	93.93
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	93.84
KOG3941	406	consensus Intermediate in Toll signal transduction	93.64
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	93.58
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	93.52
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	93.46
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	93.44
PRK10941	269	hypothetical protein; Provisional	93.4
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.38
KOG1585	308	consensus Protein required for fusion of vesicles	93.3
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	92.7
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	92.66
KOG4234	271	consensus TPR repeat-containing protein [General f	92.56
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	92.51
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.46
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	92.45
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	92.37
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	92.35
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	92.3
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	92.2
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	92.2
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	92.1
COG3629	280	DnrI DNA-binding transcriptional activator of the	91.77
KOG1550	552	consensus Extracellular protein SEL-1 and related	91.64
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	91.58
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	91.52
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	91.41
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	91.37
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	91.35
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	90.85
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	90.84
PRK09687	280	putative lyase; Provisional	90.73
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	90.72
COG3629	280	DnrI DNA-binding transcriptional activator of the	90.72
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	90.56
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	90.41
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	90.21
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	89.91
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	89.85
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	89.69
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	89.56
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	89.45
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	89.44
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	89.34
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	89.2
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	88.89
KOG4507	886	consensus Uncharacterized conserved protein, conta	88.87
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	88.87
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	88.24
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	87.95
PRK09687	280	putative lyase; Provisional	87.91
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	87.84
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	87.81
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	87.71
KOG4570	418	consensus Uncharacterized conserved protein [Funct	87.54
PF13431	34	TPR_17: Tetratricopeptide repeat	87.41
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	87.22
KOG3364	149	consensus Membrane protein involved in organellar	87.13
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	87.08
PF04190	260	DUF410: Protein of unknown function (DUF410) ; Int	86.75
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	86.65
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	86.62
PRK11619	644	lytic murein transglycosylase; Provisional	86.32
COG3947	361	Response regulator containing CheY-like receiver a	86.15
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	86.02
KOG4570	418	consensus Uncharacterized conserved protein [Funct	85.75
KOG1586	288	consensus Protein required for fusion of vesicles	85.47
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	85.42
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	85.33
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	85.18
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	84.85
COG4455	273	ImpE Protein of avirulence locus involved in tempe	84.59
smart00386	33	HAT HAT (Half-A-TPR) repeats. Present in several R	84.48
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	84.4
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	84.07
COG4976	287	Predicted methyltransferase (contains TPR repeat)	84.02
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	83.83
KOG3824	472	consensus Huntingtin interacting protein HYPE [Gen	83.64
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	83.54
PRK12798	421	chemotaxis protein; Reviewed	83.5
KOG4279	1226	consensus Serine/threonine protein kinase [Signal	82.71
PHA02875	413	ankyrin repeat protein; Provisional	82.01
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	81.94
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	81.9
KOG0551	390	consensus Hsp90 co-chaperone CNS1 (contains TPR re	81.34
KOG4507	886	consensus Uncharacterized conserved protein, conta	81.3
COG4105	254	ComL DNA uptake lipoprotein [General function pred	81.13
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	80.42
PRK10941	269	hypothetical protein; Provisional	80.07

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.3e-96  Score=791.59  Aligned_cols=616  Identities=37%  Similarity=0.668  Sum_probs=606.0

Q ss_pred             CccchhhcCCchhHHHHHHHHHhCCCCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCC
Q 006997            1 MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSD   80 (622)
Q Consensus         1 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   80 (622)
                      ||++|.+.|++++|+++|++|...|+.||..||+.++++|+..+++..+.+++..+.+.|+.||..+++.|+.+|+++|+
T Consensus       158 li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~  237 (857)
T PLN03077        158 LVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGD  237 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCC
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHhccCCCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhh----hhhhHHHHHHHH
Q 006997           81 FVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCS----FRQGISMHCCVY  156 (622)
Q Consensus        81 ~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~----~~~~~~~~~~~~  156 (622)
                      +++|.++|++|+  .+|+.+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|.    .+.+.+++..+.
T Consensus       238 ~~~A~~lf~~m~--~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~  315 (857)
T PLN03077        238 VVSARLVFDRMP--RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVV  315 (857)
T ss_pred             HHHHHHHHhcCC--CCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHH
Confidence            999999999999  89999999999999999999999999999999999999999999999998    889999999999


Q ss_pred             HhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHH
Q 006997          157 KLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLN  236 (622)
Q Consensus       157 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  236 (622)
                      +.|+.| |..+|++|+.+|++.|++++|.++|++|..||..+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.
T Consensus       316 ~~g~~~-d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~  394 (857)
T PLN03077        316 KTGFAV-DVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIAS  394 (857)
T ss_pred             HhCCcc-chHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHH
Confidence            999999 9999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHH
Q 006997          237 LILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEA  316 (622)
Q Consensus       237 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  316 (622)
                      ++.+|++.|+++.|.++++.+.+.|+.|+..++++|+.+|+++|++++|.++|++|.++|+++|+++|.+|++.|+.++|
T Consensus       395 ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA  474 (857)
T PLN03077        395 VLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEA  474 (857)
T ss_pred             HHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCC
Q 006997          317 VNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDK  396 (622)
Q Consensus       317 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  396 (622)
                      +.+|++|.. ++.||..||+.++.+|++.|+++.+.+++..+.+.|+.++..++++|+++|+++|++++|.++|+.+ .+
T Consensus       475 ~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-~~  552 (857)
T PLN03077        475 LIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EK  552 (857)
T ss_pred             HHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-CC
Confidence            999999986 5899999999999999999999999999999999999999999999999999999999999999999 89


Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHH
Q 006997          397 DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCL  476 (622)
Q Consensus       397 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  476 (622)
                      |..+||+++.+|++.|+.++|+++|++|.+ .|+.||..||+.++.+|.+.|++++|.++|+.|.+.+|+.|+..+|+++
T Consensus       553 d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~-~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~l  631 (857)
T PLN03077        553 DVVSWNILLTGYVAHGKGSMAVELFNRMVE-SGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACV  631 (857)
T ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHH-cCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHH
Confidence            999999999999999999999999999999 9999999999999999999999999999999999777999999999999


Q ss_pred             HHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHH
Q 006997          477 VDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAA  556 (622)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  556 (622)
                      +++|.+.|++++|.+++++|+.+|+..+|++|+.+|..+|+.+.++.+.+++++++|+++..|..++++|.+.|+|++|.
T Consensus       632 v~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~  711 (857)
T PLN03077        632 VDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVA  711 (857)
T ss_pred             HHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhCCCccCCCceEEEECCeEEEEEecCCCCcchHHHHHHHHHHHHHHHHcCcccCCCCCC
Q 006997          557 TARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLLEAGYIAEADIVP  622 (622)
Q Consensus       557 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~g~~pd~~~~~  622 (622)
                      ++++.|.++|+++.||+||+++++.+|.|.+++.+||+.+++|+.|.++.++|++.||+||++.++
T Consensus       712 ~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~g~~~~~~~~~  777 (857)
T PLN03077        712 RVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSM  777 (857)
T ss_pred             HHHHHHHHcCCCCCCCccEEEECCEEEEEecCCCCCcchHHHHHHHHHHHHHHHhCCcCCCcchhc
Confidence            999999999999999999999999999999999999999999999999999999999999998763

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

Probab=100.00  E-value=1.8e-81  Score=660.07  Aligned_cols=526  Identities=33%  Similarity=0.571  Sum_probs=514.3

Q ss_pred             CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcC-CCCChhhHHHHHhhhh----hhhhHHHHHHHHHhCCCCCChhhHh
Q 006997           95 LRSVVSWNSIISAHSRACLNDEAILVLKEMWVLG-LELSASTFVSVVSGCS----FRQGISMHCCVYKLGLLNNEIPLAN  169 (622)
Q Consensus        95 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~-~~p~~~t~~~ll~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~  169 (622)
                      .++..+|+.+|.++.+.|++++|+++|+.|...+ ..||..||+.++.+|.    ...+.+++..+.+.|+.| |..+++
T Consensus        84 ~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~-~~~~~n  162 (697)
T PLN03081         84 RKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEP-DQYMMN  162 (697)
T ss_pred             CCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCc-chHHHH
Confidence            4566799999999999999999999999998764 7899999999999998    778899999999999999 999999


Q ss_pred             HHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHH
Q 006997          170 SVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFL  249 (622)
Q Consensus       170 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  249 (622)
                      .|+.+|++.|+++.|.++|++|++||.++||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+..|..+.
T Consensus       163 ~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~  242 (697)
T PLN03081        163 RVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARA  242 (697)
T ss_pred             HHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 006997          250 ALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVR  329 (622)
Q Consensus       250 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~  329 (622)
                      +.+++..+.+.|+.+|..++++|+++|+++|++++|.++|+.|..+|+++||++|.+|++.|++++|+++|++|.+.|+.
T Consensus       243 ~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~  322 (697)
T PLN03081        243 GQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVS  322 (697)
T ss_pred             HHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHH
Q 006997          330 PNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYA  409 (622)
Q Consensus       330 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~  409 (622)
                      ||..||+.++.+|++.|+++.|.+++..+.+.|++++..++++|+++|+++|++++|.++|++|.++|..+||+|+.+|+
T Consensus       323 pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~  402 (697)
T PLN03081        323 IDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYG  402 (697)
T ss_pred             CCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHH
Q 006997          410 IHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLA  489 (622)
Q Consensus       410 ~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  489 (622)
                      ++|+.++|+++|++|.+ .|+.||..||+.++.+|.+.|.+++|.++|+.|.+++|+.|+..+|++++++|.+.|++++|
T Consensus       403 ~~G~~~~A~~lf~~M~~-~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA  481 (697)
T PLN03081        403 NHGRGTKAVEMFERMIA-EGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEA  481 (697)
T ss_pred             HcCCHHHHHHHHHHHHH-hCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHH
Confidence            99999999999999999 99999999999999999999999999999999998889999999999999999999999999


Q ss_pred             HHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcc
Q 006997          490 LKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTK  569 (622)
Q Consensus       490 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  569 (622)
                      .+++++++..|+..+|++|+.+|..+|+++.|..++++++++.|++...|..++++|.+.|+|++|.++++.|.++|+++
T Consensus       482 ~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k  561 (697)
T PLN03081        482 YAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSM  561 (697)
T ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCceEEEECCeEEEEEecCCCCcchHHHHHHHHHHHHHHHHcCcccCCCCCC
Q 006997          570 EPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLLEAGYIAEADIVP  622 (622)
Q Consensus       570 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~g~~pd~~~~~  622 (622)
                      .||++|+++++.++.|++++.+||...++|+.|.++..+|++.||+||+++++
T Consensus       562 ~~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~~~~  614 (697)
T PLN03081        562 HPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELL  614 (697)
T ss_pred             CCCeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcchhh
Confidence            99999999999999999999999999999999999999999999999998764

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.7e-80  Score=665.91  Aligned_cols=562  Identities=28%  Similarity=0.480  Sum_probs=542.8

Q ss_pred             CccchhhcCCchhHHHHHHHHHhCCCCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCC
Q 006997            1 MIRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSD   80 (622)
Q Consensus         1 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   80 (622)
                      +|+++.+.|++++|+.+|+.|.+.|+.|+..+|..++.+|.+.+.+..+.+++..+.+.+..++..++|.++..|++.|+
T Consensus        57 ~i~~l~~~g~~~~A~~l~~~m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~~~~g~  136 (857)
T PLN03077         57 QLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGE  136 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcCCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHhCCC
Confidence            36789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHhccCCCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhh----hhhhHHHHHHHH
Q 006997           81 FVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCS----FRQGISMHCCVY  156 (622)
Q Consensus        81 ~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~----~~~~~~~~~~~~  156 (622)
                      ++.|.++|++|+  .||+.+||++|.+|++.|++++|+++|++|...|+.||..||+.++++|.    ...+.+++..+.
T Consensus       137 ~~~A~~~f~~m~--~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~  214 (857)
T PLN03077        137 LVHAWYVFGKMP--ERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVV  214 (857)
T ss_pred             hHHHHHHHhcCC--CCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHH
Confidence            999999999999  89999999999999999999999999999999999999999999999998    788999999999


Q ss_pred             HhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHH
Q 006997          157 KLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLN  236 (622)
Q Consensus       157 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  236 (622)
                      +.|+.+ |..++++|+.+|++.|++++|.++|++|+.+|.++||++|.+|++.|++++|+++|.+|...|+.||..||+.
T Consensus       215 ~~g~~~-~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~  293 (857)
T PLN03077        215 RFGFEL-DVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITS  293 (857)
T ss_pred             HcCCCc-ccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHH
Confidence            999999 9999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHH
Q 006997          237 LILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEA  316 (622)
Q Consensus       237 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  316 (622)
                      ++.+|++.|+.+.+.+++..+.+.|+.||..+|++|+.+|++.|++++|.++|++|..+|+.+||++|.+|++.|++++|
T Consensus       294 ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A  373 (857)
T PLN03077        294 VISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKA  373 (857)
T ss_pred             HHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCC
Q 006997          317 VNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDK  396 (622)
Q Consensus       317 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  396 (622)
                      +++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|+.++..++++|+++|+++|++++|.++|++|.++
T Consensus       374 ~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~  453 (857)
T PLN03077        374 LETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK  453 (857)
T ss_pred             HHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHH
Q 006997          397 DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCL  476 (622)
Q Consensus       397 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  476 (622)
                      |..+|+.++.+|++.|+.++|+.+|++|..  ++.||..||+.++.+|++.|+++.+.+++..+.+. |+.++..++++|
T Consensus       454 d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~--~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~-g~~~~~~~~naL  530 (857)
T PLN03077        454 DVISWTSIIAGLRLNNRCFEALIFFRQMLL--TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRT-GIGFDGFLPNAL  530 (857)
T ss_pred             CeeeHHHHHHHHHHCCCHHHHHHHHHHHHh--CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHh-CCCccceechHH
Confidence            999999999999999999999999999985  69999999999999999999999999999999976 999999999999


Q ss_pred             HHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHc--cCCCCCchHHHHHHHHHhcCChHH
Q 006997          477 VDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLT--LNPGSTGNYILMANLFTSAGMWKE  554 (622)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~p~~~~~~~~l~~~~~~~g~~~~  554 (622)
                      +++|.++|++++|.++|+++  .||..+|++++.+|.++|+.++|.++|+++.+  ..| |..+|..++.+|.+.|++++
T Consensus       531 i~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~P-d~~T~~~ll~a~~~~g~v~e  607 (857)
T PLN03077        531 LDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNP-DEVTFISLLCACSRSGMVTQ  607 (857)
T ss_pred             HHHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CcccHHHHHHHHhhcChHHH
Confidence            99999999999999999998  78999999999999999999999999999887  456 67789999999999999999


Q ss_pred             HHHHHHHhh-hCCCccCC
Q 006997          555 AATARGLMD-DRRLTKEP  571 (622)
Q Consensus       555 A~~~~~~~~-~~~~~~~~  571 (622)
                      |.++|+.|. +.|+.+..
T Consensus       608 a~~~f~~M~~~~gi~P~~  625 (857)
T PLN03077        608 GLEYFHSMEEKYSITPNL  625 (857)
T ss_pred             HHHHHHHHHHHhCCCCch
Confidence            999999998 56776643

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

Probab=100.00  E-value=5.2e-67  Score=550.52  Aligned_cols=460  Identities=27%  Similarity=0.483  Sum_probs=445.5

Q ss_pred             ccchhhcCCchhHHHHHHHHHhCC-CCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCC
Q 006997            2 IRNSTNNGSFEETLSTYSSMLQTG-VHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSD   80 (622)
Q Consensus         2 i~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   80 (622)
                      |.++.+.|++++|+++|+.|...+ ..||..+|+.++.+|++.++++.+.+++..|.+.|+.||..+++.+++.|+++|+
T Consensus        94 i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~  173 (697)
T PLN03081         94 IEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGM  173 (697)
T ss_pred             HHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCC
Confidence            567899999999999999998864 7899999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHhccCCCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhh----hhhhHHHHHHHH
Q 006997           81 FVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCS----FRQGISMHCCVY  156 (622)
Q Consensus        81 ~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~----~~~~~~~~~~~~  156 (622)
                      +++|.++|++|+  .||..+||++|.+|++.|++++|+++|++|.+.|+.|+..||..++.+|.    ...+.+++..+.
T Consensus       174 ~~~A~~lf~~m~--~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~  251 (697)
T PLN03081        174 LIDARRLFDEMP--ERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVL  251 (697)
T ss_pred             HHHHHHHHhcCC--CCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHH
Confidence            999999999999  89999999999999999999999999999999999999999999999998    788999999999


Q ss_pred             HhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHH
Q 006997          157 KLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLN  236 (622)
Q Consensus       157 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  236 (622)
                      +.|+.+ |..++++|+++|+++|++++|.++|++|..+|+++||++|.+|++.|++++|+++|++|.+.|+.||..||+.
T Consensus       252 ~~g~~~-d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~  330 (697)
T PLN03081        252 KTGVVG-DTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSI  330 (697)
T ss_pred             HhCCCc-cceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            999999 9999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHH
Q 006997          237 LILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEA  316 (622)
Q Consensus       237 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  316 (622)
                      ++.+|++.|+++.|.+++..|.+.|++||..++++|+++|+++|++++|.++|++|.++|+.+||+||.+|++.|+.++|
T Consensus       331 ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A  410 (697)
T PLN03081        331 MIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKA  410 (697)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHH-cCCCCchhHHHHHHHHHHhcCChHHHHHHhccCC-
Q 006997          317 VNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVL-NGLESNRQVQTSLIHMFSKCGRINKAKEVFERVP-  394 (622)
Q Consensus       317 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-  394 (622)
                      +++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+ .|+.|+..+|+.++++|++.|++++|.++++++. 
T Consensus       411 ~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~  490 (697)
T PLN03081        411 VEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPF  490 (697)
T ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCC
Confidence            99999999999999999999999999999999999999999976 5999999999999999999999999999999997 


Q ss_pred             CCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC
Q 006997          395 DKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP  468 (622)
Q Consensus       395 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p  468 (622)
                      .|+..+|++++.+|...|+.+.|..+++++.+   +.|+ ..+|..+++.|++.|++++|.++++.|.++ |+..
T Consensus       491 ~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~---~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~-g~~k  561 (697)
T PLN03081        491 KPTVNMWAALLTACRIHKNLELGRLAAEKLYG---MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRK-GLSM  561 (697)
T ss_pred             CCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhC---CCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHc-CCcc
Confidence            58999999999999999999999999999876   6775 578999999999999999999999999977 7754

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.2e-65  Score=539.16  Aligned_cols=509  Identities=20%  Similarity=0.267  Sum_probs=465.2

Q ss_pred             CCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcC-CCCchhHHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHH
Q 006997           26 VHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGF-QQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSI  104 (622)
Q Consensus        26 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~l  104 (622)
                      ..++...|..++..|++.|+++.|.++|+.|.+.|+ +++..+++.++..|.+.|.+++|..+|+.|+  .|+..+|+.+
T Consensus       366 ~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~--~pd~~Tyn~L  443 (1060)
T PLN03218        366 GKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIR--NPTLSTFNML  443 (1060)
T ss_pred             CCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcC--CCCHHHHHHH
Confidence            345667899999999999999999999999999985 5778888999999999999999999999999  6999999999


Q ss_pred             HHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHH
Q 006997          105 ISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEA  184 (622)
Q Consensus       105 i~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  184 (622)
                      +.+|++.|+++.|.++|++|.+.|+.||..+|                                ++||.+|++.|++++|
T Consensus       444 L~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~ty--------------------------------nsLI~~y~k~G~vd~A  491 (1060)
T PLN03218        444 MSVCASSQDIDGALRVLRLVQEAGLKADCKLY--------------------------------TTLISTCAKSGKVDAM  491 (1060)
T ss_pred             HHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHH--------------------------------HHHHHHHHhCcCHHHH
Confidence            99999999999999999999999988877776                                8888999999999999


Q ss_pred             HHHHhhcC----CCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHH-
Q 006997          185 RSIFDEIG----ETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLK-  259 (622)
Q Consensus       185 ~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-  259 (622)
                      .++|++|.    .||..+|+.+|.+|++.|++++|.++|++|...|+.||..+|+.++.+|++.|++++|.++|++|.. 
T Consensus       492 ~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~  571 (1060)
T PLN03218        492 FEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAE  571 (1060)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999997    4899999999999999999999999999999999999999999999999999999999999999986 


Q ss_pred             -hCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCC----CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH
Q 006997          260 -SGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLE----KSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEAT  334 (622)
Q Consensus       260 -~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~  334 (622)
                       .|+.||..+|++++.+|++.|++++|.++|+.|.+    ++..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+
T Consensus       572 ~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~T  651 (1060)
T PLN03218        572 THPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVF  651 (1060)
T ss_pred             cCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHH
Confidence             67899999999999999999999999999999954    4679999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCC----CCChhHHHHHHHHHHH
Q 006997          335 LATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVP----DKDLAVWSAMINGYAI  410 (622)
Q Consensus       335 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~  410 (622)
                      |+.++.+|++.|++++|.++++.|.+.|+.|+..+|++|+.+|+++|++++|.++|++|.    .||..+|+.|+.+|++
T Consensus       652 ynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k  731 (1060)
T PLN03218        652 FSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCE  731 (1060)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999985    5899999999999999


Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh----c---
Q 006997          411 HGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGR----A---  483 (622)
Q Consensus       411 ~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~---  483 (622)
                      .|++++|.++|++|.+ .|+.||..||+.++.+|++.|+++.|.+++++|.+. |+.||..+|++++..|.+    +   
T Consensus       732 ~G~~eeAlelf~eM~~-~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~-Gi~pd~~tynsLIglc~~~y~ka~~l  809 (1060)
T PLN03218        732 GNQLPKALEVLSEMKR-LGLCPNTITYSILLVASERKDDADVGLDLLSQAKED-GIKPNLVMCRCITGLCLRRFEKACAL  809 (1060)
T ss_pred             CCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHHHHHHhhh
Confidence            9999999999999998 999999999999999999999999999999999977 999999999999876432    2   


Q ss_pred             ----------------CChHHHHHHHHhCC---CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHc-cCCCCCchHHHHH
Q 006997          484 ----------------GRFDLALKTIHEMP---VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLT-LNPGSTGNYILMA  543 (622)
Q Consensus       484 ----------------g~~~~A~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~p~~~~~~~~l~  543 (622)
                                      +..++|..+|++|.   ..||..+|+.++.++.+.+..+.+..+++.+.. -.+.+..+|..++
T Consensus       810 ~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li  889 (1060)
T PLN03218        810 GEPVVSFDSGRPQIENKWTSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLV  889 (1060)
T ss_pred             hhhhhhhhccccccccchHHHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHH
Confidence                            23468999999997   789999999999888788888888888876543 3344678899999


Q ss_pred             HHHHhcCChHHHHHHHHHhhhCCCccCCC
Q 006997          544 NLFTSAGMWKEAATARGLMDDRRLTKEPG  572 (622)
Q Consensus       544 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  572 (622)
                      +.+.+.  .++|..+++.|...|+.+...
T Consensus       890 ~g~~~~--~~~A~~l~~em~~~Gi~p~~~  916 (1060)
T PLN03218        890 DGFGEY--DPRAFSLLEEAASLGVVPSVS  916 (1060)
T ss_pred             HhhccC--hHHHHHHHHHHHHcCCCCCcc
Confidence            987332  368999999999999977653

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=5e-64  Score=528.88  Aligned_cols=493  Identities=16%  Similarity=0.251  Sum_probs=411.9

Q ss_pred             ccchhhcCCchhHHHHHHHHHhCCC-CCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCC
Q 006997            2 IRNSTNNGSFEETLSTYSSMLQTGV-HGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSD   80 (622)
Q Consensus         2 i~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   80 (622)
                      +..+.+.|++++|+++|+.|.+.|+ .|+..+++.++..|.+.|..+.|..+++.|..    ||..+|+.++.+|++.|+
T Consensus       377 y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~LL~a~~k~g~  452 (1060)
T PLN03218        377 YNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNMLMSVCASSQD  452 (1060)
T ss_pred             HHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHHHHHHHHhCcC
Confidence            4567889999999999999999986 56777888899999999999999999998864    999999999999999999


Q ss_pred             hhHHHHHhccCCCC--CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHh
Q 006997           81 FVSSRKVLDEMPVR--LRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKL  158 (622)
Q Consensus        81 ~~~A~~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~  158 (622)
                      ++.|.++|+.|.+.  .||..+|+.||.+|++.|++++|.++|++|.+.|+.||..||                      
T Consensus       453 ~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTy----------------------  510 (1060)
T PLN03218        453 IDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTF----------------------  510 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHH----------------------
Confidence            99999999999876  799999999999999999999999999999999999887777                      


Q ss_pred             CCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCC----CCcchHHHHHHHHHcCCChhHHHHHHHHHHH--CCCCCCHh
Q 006997          159 GLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGE----TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRR--MSVTPDLV  232 (622)
Q Consensus       159 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~p~~~  232 (622)
                                +.+|.+|++.|++++|.++|++|..    ||..+||.+|.+|++.|++++|.++|++|..  .|+.||..
T Consensus       511 ----------naLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~v  580 (1060)
T PLN03218        511 ----------GALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHI  580 (1060)
T ss_pred             ----------HHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHH
Confidence                      6777777888888888888877753    6777888888888888888888888888865  56778888


Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcC----CCCHHHHHHHHHHHH
Q 006997          233 VFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVL----EKSVFLWTSMIGGYA  308 (622)
Q Consensus       233 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~l~~~~~  308 (622)
                      +|+.++.+|++.|++++|.++|+.|.+.|++|+..+|+.++.+|++.|++++|.++|++|.    .||..+|+.++.+|+
T Consensus       581 TynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~  660 (1060)
T PLN03218        581 TVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAG  660 (1060)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            8888888888888888888888888888888888888888888888888888888887774    457778888888888


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHH
Q 006997          309 QLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKE  388 (622)
Q Consensus       309 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  388 (622)
                      +.|++++|.++|++|.+.|+.|+..+|+.++.+|++.|++++|.++|+.|.+.|+.|+..+|+.||.+|++.|++++|.+
T Consensus       661 k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAle  740 (1060)
T PLN03218        661 HAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALE  740 (1060)
T ss_pred             hCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            88888888888888888888888888888888888888888888888888877788888888888888888888888888


Q ss_pred             HhccCC----CCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhc------------------
Q 006997          389 VFERVP----DKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSH------------------  446 (622)
Q Consensus       389 ~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~------------------  446 (622)
                      +|++|.    .||..+|+.++.+|++.|+.++|.+++.+|.+ .|+.||..+|+.++..|.+                  
T Consensus       741 lf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k-~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g  819 (1060)
T PLN03218        741 VLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKE-DGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSG  819 (1060)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhcc
Confidence            888775    37778888888888888888888888888887 7888888888877765432                  


Q ss_pred             -----cCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC---CCCcHHhHHHHHHHHHhcCCH
Q 006997          447 -----SGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP---VEVQAQVWAPLLSACMKHHNV  518 (622)
Q Consensus       447 -----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~  518 (622)
                           .+..+.|..+|++|.+. |+.||..+|+.++.++.+.+....+..+++.|.   ..|+..+|++++.++.+.  .
T Consensus       820 ~~~~~n~w~~~Al~lf~eM~~~-Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~  896 (1060)
T PLN03218        820 RPQIENKWTSWALMVYRETISA-GTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--D  896 (1060)
T ss_pred             ccccccchHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--h
Confidence                 12246799999999987 999999999999999989999999999999886   566788999999988432  4


Q ss_pred             HHHHHHHHHHHcc--CCC
Q 006997          519 ELGEYAAKNLLTL--NPG  534 (622)
Q Consensus       519 ~~a~~~~~~~~~~--~p~  534 (622)
                      ++|..+++.+.+.  .|+
T Consensus       897 ~~A~~l~~em~~~Gi~p~  914 (1060)
T PLN03218        897 PRAFSLLEEAASLGVVPS  914 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCC
Confidence            6899999999874  454

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

Probab=100.00  E-value=1.2e-34  Score=321.31  Aligned_cols=549  Identities=15%  Similarity=0.103  Sum_probs=362.8

Q ss_pred             chhhcCCchhHHHHHHHHHhCCCCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhH
Q 006997            4 NSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVS   83 (622)
Q Consensus         4 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   83 (622)
                      .+...|++++|...|+.+.+.. +.+...+..+...+...|+++.|...++.+.... +.+...+..+...+.+.|++++
T Consensus       304 ~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~  381 (899)
T TIGR02917       304 SEYQLGNLEQAYQYLNQILKYA-PNSHQARRLLASIQLRLGRVDEAIATLSPALGLD-PDDPAALSLLGEAYLALGDFEK  381 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCCCHHH
Confidence            3556788888888888877753 2244456666777778888888888888877665 4566777778888888888888


Q ss_pred             HHHHhccCCCC-CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhh----hhhhHHHHHHHHHh
Q 006997           84 SRKVLDEMPVR-LRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCS----FRQGISMHCCVYKL  158 (622)
Q Consensus        84 A~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~----~~~~~~~~~~~~~~  158 (622)
                      |.+.|+.+... +.+...|..+...+...|++++|++.++.+.+.+..+.. ....+...+.    .+.+..++..+.+.
T Consensus       382 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~  460 (899)
T TIGR02917       382 AAEYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGR-ADLLLILSYLRSGQFDKALAAAKKLEKK  460 (899)
T ss_pred             HHHHHHHHHhcCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCcchh-hHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            88888877654 445566777777778888888888888877764322211 1112222222    56666666666553


Q ss_pred             CCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCC---CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHH
Q 006997          159 GLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGE---TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFL  235 (622)
Q Consensus       159 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  235 (622)
                      .  |++..++..+...|...|++++|.+.|+++.+   .+...+..+...+...|++++|.+.++++...+ +.+..++.
T Consensus       461 ~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~  537 (899)
T TIGR02917       461 Q--PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAIL  537 (899)
T ss_pred             C--CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHH
Confidence            2  33566677777777777777777777776643   334556666777777777777777777776643 33455666


Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhcCC
Q 006997          236 NLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLE---KSVFLWTSMIGGYAQLGY  312 (622)
Q Consensus       236 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~  312 (622)
                      .+...+...|+.++|...+..+.+.+ +.+...+..++..|.+.|++++|..+++.+..   .+...|..++..+...|+
T Consensus       538 ~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  616 (899)
T TIGR02917       538 ALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGD  616 (899)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCC
Confidence            67777777777777777777776654 44555666677777777777777777776642   345667777777777777


Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhcc
Q 006997          313 PSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFER  392 (622)
Q Consensus       313 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  392 (622)
                      +++|+..|+++.+.. +.+...+..+...+...|++++|..+++.+.+.. +.+...+..++..+...|++++|.++++.
T Consensus       617 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  694 (899)
T TIGR02917       617 LNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKS  694 (899)
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            777777777776643 2345556666666777777777777777766554 44556666677777777777777777766


Q ss_pred             CCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC
Q 006997          393 VPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS  469 (622)
Q Consensus       393 ~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~  469 (622)
                      +.+   .+...+..+...+...|++++|.+.|+++..   ..|+..++..+..++.+.|++++|.+.++++.+.  .+.+
T Consensus       695 ~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~--~~~~  769 (899)
T TIGR02917       695 LQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALK---RAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKT--HPND  769 (899)
T ss_pred             HHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCC
Confidence            653   2445566666666677777777777777666   4455555666666666777777777777666643  2334


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHH
Q 006997          470 IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFT  547 (622)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (622)
                      ...+..+...|...|++++|.++|+++.  .++++..++.++..+...|+ ++|+..+++++++.|+++..+..++.++.
T Consensus       770 ~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  848 (899)
T TIGR02917       770 AVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLV  848 (899)
T ss_pred             HHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHH
Confidence            5666666666777777777777776664  33445566666666666666 55666666666666666666666666666


Q ss_pred             hcCChHHHHHHHHHhhhCCC
Q 006997          548 SAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       548 ~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ..|++++|.+.++++.+.++
T Consensus       849 ~~g~~~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       849 EKGEADRALPLLRKAVNIAP  868 (899)
T ss_pred             HcCCHHHHHHHHHHHHhhCC
Confidence            66666666666666666544

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=100.00  E-value=2.1e-34  Score=319.53  Aligned_cols=544  Identities=11%  Similarity=0.016  Sum_probs=383.8

Q ss_pred             hhhcCCchhHHHHHHHHHhCCCCCC-cccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhH
Q 006997            5 STNNGSFEETLSTYSSMLQTGVHGN-SFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVS   83 (622)
Q Consensus         5 ~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   83 (622)
                      +...|++++|++.|+.+.+.+  |+ ...+..+...+...|+++.|...++.+.+.. +.+...+..+...+.+.|++++
T Consensus       271 ~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~~  347 (899)
T TIGR02917       271 DFQKKNYEDARETLQDALKSA--PEYLPALLLAGASEYQLGNLEQAYQYLNQILKYA-PNSHQARRLLASIQLRLGRVDE  347 (899)
T ss_pred             HHHhcCHHHHHHHHHHHHHhC--CCchhHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHH
Confidence            346677888888887777643  22 2233344455667778888888888777664 4455666677777778888888


Q ss_pred             HHHHhccCCCC-CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhh-hh----hhhhHHHHHHHHH
Q 006997           84 SRKVLDEMPVR-LRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSG-CS----FRQGISMHCCVYK  157 (622)
Q Consensus        84 A~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~-~~----~~~~~~~~~~~~~  157 (622)
                      |...++.+... +.+...++.+...+.+.|++++|.++|+++.+.  .|+.......+.. +.    ...+...+..+.+
T Consensus       348 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  425 (899)
T TIGR02917       348 AIATLSPALGLDPDDPAALSLLGEAYLALGDFEKAAEYLAKATEL--DPENAAARTQLGISKLSQGDPSEAIADLETAAQ  425 (899)
T ss_pred             HHHHHHHHHhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            88887776554 445667777777788888888888888877664  3433332222222 22    5666666766665


Q ss_pred             hCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCC---CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHH
Q 006997          158 LGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGE---TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVF  234 (622)
Q Consensus       158 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  234 (622)
                      ....  .......++..+.+.|++++|..+++.+..   .+...|+.+...+...|++++|.+.|+++.+.. +.+...+
T Consensus       426 ~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~  502 (899)
T TIGR02917       426 LDPE--LGRADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAA  502 (899)
T ss_pred             hCCc--chhhHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHH
Confidence            5432  344555667777788888888888877754   345677777788888888888888888777643 2344556


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhcC
Q 006997          235 LNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLE---KSVFLWTSMIGGYAQLG  311 (622)
Q Consensus       235 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~  311 (622)
                      ..+...+...|++++|.+.++.+.+.+ +.+..++..+...+.+.|+.++|...|+++..   .+...+..++..|...|
T Consensus       503 ~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  581 (899)
T TIGR02917       503 ANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKG  581 (899)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCC
Confidence            667777777788888888888777665 55666777777778888888888888777633   24556677777788888


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhc
Q 006997          312 YPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFE  391 (622)
Q Consensus       312 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  391 (622)
                      ++++|..+++++.+.. +.+...+..+...+...|++++|...++.+.+.. +.++..+..+..+|.+.|++++|...|+
T Consensus       582 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  659 (899)
T TIGR02917       582 QLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLK  659 (899)
T ss_pred             CHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            8888888888777653 4456677777777888888888888887777654 4456667777777888888888888887


Q ss_pred             cCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC
Q 006997          392 RVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP  468 (622)
Q Consensus       392 ~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p  468 (622)
                      ++.+   .+..++..++..+...|++++|.++++.+.+ .. +++...+..+...+...|++++|.+.|+.+...   .|
T Consensus       660 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~---~~  734 (899)
T TIGR02917       660 RALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQK-QH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKR---AP  734 (899)
T ss_pred             HHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh-hC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh---CC
Confidence            7653   3456777777778888888888888888776 22 334566677777777888888888888877743   56


Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHH
Q 006997          469 SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLF  546 (622)
Q Consensus       469 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (622)
                      +..++..++.++.+.|++++|.+.++++.  .+.+...+..++..+...|++++|.+.|+++++..|+++.++..+++++
T Consensus       735 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  814 (899)
T TIGR02917       735 SSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLY  814 (899)
T ss_pred             CchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            55667777777888888888888777765  3445667777777777788888888888888888887777888888888


Q ss_pred             HhcCChHHHHHHHHHhhhC
Q 006997          547 TSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       547 ~~~g~~~~A~~~~~~~~~~  565 (622)
                      ...|+ ++|+..++++.+.
T Consensus       815 ~~~~~-~~A~~~~~~~~~~  832 (899)
T TIGR02917       815 LELKD-PRALEYAEKALKL  832 (899)
T ss_pred             HhcCc-HHHHHHHHHHHhh
Confidence            88888 7788888777654

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.

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.97  E-value=4.6e-26  Score=252.18  Aligned_cols=543  Identities=11%  Similarity=0.033  Sum_probs=400.5

Q ss_pred             chhhcCCchhHHHHHHHHHhCCCCCCccc-HHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChh
Q 006997            4 NSTNNGSFEETLSTYSSMLQTGVHGNSFT-FPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFV   82 (622)
Q Consensus         4 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   82 (622)
                      .+...|++++|++.|+++.+.+ +|+... ...........++.++|.+.++.+.+.. +.+...+..+...+...|+.+
T Consensus       121 ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~ll~~~g~~~  198 (1157)
T PRK11447        121 LLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLALLLFSSGRRD  198 (1157)
T ss_pred             HHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHccCCHH
Confidence            4667899999999999998753 333221 1111222334689999999999999885 556778888999999999999


Q ss_pred             HHHHHhccCCCCCCC----cchH-----------------HHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHh
Q 006997           83 SSRKVLDEMPVRLRS----VVSW-----------------NSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVS  141 (622)
Q Consensus        83 ~A~~~~~~~~~~~~~----~~~~-----------------~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~  141 (622)
                      +|+..|+++....+.    ...|                 ...+..+-.......|...+..+......|+......-..
T Consensus       199 eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~~G~~  278 (1157)
T PRK11447        199 EGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARAQGLA  278 (1157)
T ss_pred             HHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHHHHHH
Confidence            999999987543211    0111                 1111111122223445555555443322232221110011


Q ss_pred             hhh---hhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCC--CCc---chHHH------------
Q 006997          142 GCS---FRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGE--TSI---VSWTT------------  201 (622)
Q Consensus       142 ~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~---~~~~~------------  201 (622)
                      ...   .+.+...+...++..  |.+..++..+...|.+.|++++|+..|++..+  |+.   ..|..            
T Consensus       279 ~~~~g~~~~A~~~l~~aL~~~--P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~  356 (1157)
T PRK11447        279 AVDSGQGGKAIPELQQAVRAN--PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQ  356 (1157)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHH
Confidence            111   778888888888753  44788889999999999999999999998765  322   12222            


Q ss_pred             HHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCC
Q 006997          202 IIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGD  281 (622)
Q Consensus       202 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  281 (622)
                      ....+.+.|++++|+..|++..... +.+...+..+...+...|++++|++.|+++.+.. +.+...+..+...|. .++
T Consensus       357 ~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~-~~~  433 (1157)
T PRK11447        357 QGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYR-QQS  433 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-hcC
Confidence            2346778999999999999998863 3345667778889999999999999999998875 455666777777775 467


Q ss_pred             HHHHHHHHhhcCCCC------------HHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChH
Q 006997          282 LELARRVFDAVLEKS------------VFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLS  349 (622)
Q Consensus       282 ~~~a~~~~~~~~~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~  349 (622)
                      .++|..+++.+....            ...+..+...+...|++++|++.|++.++.. +-+...+..+...+...|+++
T Consensus       434 ~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~  512 (1157)
T PRK11447        434 PEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRS  512 (1157)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            899999988775432            1234556778889999999999999998864 224566778888999999999


Q ss_pred             HHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCC----h---------hHHHHHHHHHHHcCCHHH
Q 006997          350 KGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKD----L---------AVWSAMINGYAIHGMGDQ  416 (622)
Q Consensus       350 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~----~---------~~~~~l~~~~~~~~~~~~  416 (622)
                      +|...++.+.+.. +.++..+..+...+...++.++|...++.+....    .         ..+......+...|+.++
T Consensus       513 ~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~e  591 (1157)
T PRK11447        513 QADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAE  591 (1157)
T ss_pred             HHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHH
Confidence            9999999998765 4455555566667788999999999999886421    1         112344567889999999


Q ss_pred             HHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHh
Q 006997          417 ALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHE  495 (622)
Q Consensus       417 a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~  495 (622)
                      |.++++   .   .+++...+..+...+.+.|++++|+..|+++.+.   .| +...+..++..|...|++++|++.++.
T Consensus       592 A~~~l~---~---~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~---~P~~~~a~~~la~~~~~~g~~~eA~~~l~~  662 (1157)
T PRK11447        592 AEALLR---Q---QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR---EPGNADARLGLIEVDIAQGDLAAARAQLAK  662 (1157)
T ss_pred             HHHHHH---h---CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            999987   2   3345567778889999999999999999999954   45 578888999999999999999999998


Q ss_pred             CC-CCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCc------hHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          496 MP-VEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTG------NYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       496 ~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~------~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      .. ..| +...+..+..++...|++++|.++++++++..|+++.      ++..++.++.+.|++++|++.|++...
T Consensus       663 ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        663 LPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             HhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            87 444 4666778888999999999999999999998776543      667789999999999999999998864

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.97  E-value=2.4e-26  Score=254.48  Aligned_cols=550  Identities=12%  Similarity=0.031  Sum_probs=406.9

Q ss_pred             cchhhcCCchhHHHHHHHHHhCCCCCCcccH-----------------HHHHHHhhccCChhhHHHHHHHHHHhcCCCCc
Q 006997            3 RNSTNNGSFEETLSTYSSMLQTGVHGNSFTF-----------------PLVLKACANINSIWDGKRVHSHVLKVGFQQDA   65 (622)
Q Consensus         3 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-----------------~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~   65 (622)
                      ..+.+.|+.++|.+.++++.+.  .|+...+                 ..+.+.+...|++++|.+.++.+.+.+ +++.
T Consensus        70 ~~~l~~g~~~~A~~~l~~l~~~--~P~~~~~~~~~~~~~~~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~  146 (1157)
T PRK11447         70 RLLLRQGDSDGAQKLLDRLSQL--APDSNAYRSSRTTMLLSTPEGRQALQQARLLATTGRTEEALASYDKLFNGA-PPEL  146 (1157)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhh--CCCChHHHHHHHHHHhcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHccCC-CCCh
Confidence            4567899999999999999985  3444332                 223446788999999999999998765 4443


Q ss_pred             hhHHHHHH-HhhcCCChhHHHHHhccCCCC-CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCC--hhhHHHH--
Q 006997           66 FVQTGLID-MYSKCSDFVSSRKVLDEMPVR-LRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELS--ASTFVSV--  139 (622)
Q Consensus        66 ~~~~~l~~-~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~--~~t~~~l--  139 (622)
                      ........ .....|+.++|++.|+.+.+. +.+...+..+...+...|++++|+..++++.+......  ...+...  
T Consensus       147 ~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~  226 (1157)
T PRK11447        147 DLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNTLALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIK  226 (1157)
T ss_pred             HHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHh
Confidence            32111222 223459999999999998876 55677788899999999999999999999865321100  0011010  


Q ss_pred             -----------Hhh----hh----hhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCC--C-Ccc
Q 006997          140 -----------VSG----CS----FRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGE--T-SIV  197 (622)
Q Consensus       140 -----------l~~----~~----~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~  197 (622)
                                 +..    +.    ...+...+.........| + .........+...|++++|+..|++..+  | +..
T Consensus       227 ~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp-~-~~~~~~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~  304 (1157)
T PRK11447        227 DMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADP-A-FRARAQGLAAVDSGQGGKAIPELQQAVRANPKDSE  304 (1157)
T ss_pred             ccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCc-c-hHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH
Confidence                       111    11    112223333322222222 1 1122345677889999999999998865  3 567


Q ss_pred             hHHHHHHHHHcCCChhHHHHHHHHHHHCCCCC-CHhHH------------HHHHHHHhccCChHHHHHHHHHHHHhCCCC
Q 006997          198 SWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTP-DLVVF------------LNLILGCAQVGNLFLALSMHSLLLKSGYNN  264 (622)
Q Consensus       198 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~------------~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  264 (622)
                      .+..+..++.+.|++++|+..|++..+..... +...+            ......+.+.|++++|...++++++.. +.
T Consensus       305 a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~  383 (1157)
T PRK11447        305 ALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVD-NT  383 (1157)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CC
Confidence            88999999999999999999999988753221 11111            122345678899999999999999875 56


Q ss_pred             CchhHHHHHHHHHhcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC--------CCHH
Q 006997          265 EDPLDNLLVSMYTKCGDLELARRVFDAVLE---KSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVR--------PNEA  333 (622)
Q Consensus       265 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~--------~~~~  333 (622)
                      +...+..+...+...|++++|++.|+++.+   .+..++..+...|. .++.++|+..++.+......        ....
T Consensus       384 ~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~  462 (1157)
T PRK11447        384 DSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQND  462 (1157)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhh
Confidence            677788899999999999999999999864   24567777777774 46789999988775432100        0112


Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC--C-ChhHHHHHHHHHHH
Q 006997          334 TLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD--K-DLAVWSAMINGYAI  410 (622)
Q Consensus       334 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~  410 (622)
                      .+..+...+...|++++|.+.++++.+.. |.++.++..+...|.+.|++++|...++++.+  | +...+..+...+..
T Consensus       463 ~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~  541 (1157)
T PRK11447        463 RLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSG  541 (1157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence            34556677888999999999999999876 55677888899999999999999999998753  3 44455555556678


Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCCHH---------HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHH
Q 006997          411 HGMGDQALNLFYKMQHVEGLKPDAV---------VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLG  481 (622)
Q Consensus       411 ~~~~~~a~~~~~~~~~~~~~~p~~~---------~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  481 (622)
                      .++.++|+..++++.. ....++..         .+......+...|+.++|..+++.      .+++...+..+...+.
T Consensus       542 ~~~~~~Al~~l~~l~~-~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~------~p~~~~~~~~La~~~~  614 (1157)
T PRK11447        542 SDRDRAALAHLNTLPR-AQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ------QPPSTRIDLTLADWAQ  614 (1157)
T ss_pred             CCCHHHHHHHHHhCCc-hhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh------CCCCchHHHHHHHHHH
Confidence            8999999999998764 22222221         123456678899999999999872      2456677788999999


Q ss_pred             hcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHH
Q 006997          482 RAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATAR  559 (622)
Q Consensus       482 ~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  559 (622)
                      +.|++++|++.++++.  .+.+...+..++..+...|++++|++.++++++..|+++..+..++.++.+.|++++|.+++
T Consensus       615 ~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~  694 (1157)
T PRK11447        615 QRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTF  694 (1157)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHH
Confidence            9999999999999987  34457889999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhCCC
Q 006997          560 GLMDDRRL  567 (622)
Q Consensus       560 ~~~~~~~~  567 (622)
                      +++.....
T Consensus       695 ~~al~~~~  702 (1157)
T PRK11447        695 NRLIPQAK  702 (1157)
T ss_pred             HHHhhhCc
Confidence            99987544

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.95  E-value=1.1e-22  Score=214.78  Aligned_cols=538  Identities=10%  Similarity=-0.014  Sum_probs=353.1

Q ss_pred             hhcCCchhHHHHHHHHHhCCCCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHH
Q 006997            6 TNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSR   85 (622)
Q Consensus         6 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~   85 (622)
                      ...|++++|++.|+...+.... ++.++..+...+...|+.++|+...++..+..  |+...+..++..+   +++++|.
T Consensus        55 ~~~Gd~~~A~~~l~~Al~~dP~-n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ld--P~n~~~~~~La~i---~~~~kA~  128 (987)
T PRK09782         55 QKNNDEATAIREFEYIHQQVPD-NIPLTLYLAEAYRHFGHDDRARLLLEDQLKRH--PGDARLERSLAAI---PVEVKSV  128 (987)
T ss_pred             HhCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--cccHHHHHHHHHh---ccChhHH
Confidence            3458888999999988885433 35567778888888999999999988888774  4433333333222   8888888


Q ss_pred             HHhccCCCC-CCCcchHHHHHHH--------HHhCCCchHHHHHHHHHHHcCCCCChhhHHHH-Hhhhh----hhhhHHH
Q 006997           86 KVLDEMPVR-LRSVVSWNSIISA--------HSRACLNDEAILVLKEMWVLGLELSASTFVSV-VSGCS----FRQGISM  151 (622)
Q Consensus        86 ~~~~~~~~~-~~~~~~~~~li~~--------~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~l-l~~~~----~~~~~~~  151 (622)
                      .+++++... +.+...+..+...        |.+.   ++|.+.++ .......|+..+.... ...+.    ++.+..+
T Consensus       129 ~~ye~l~~~~P~n~~~~~~la~~~~~~~~l~y~q~---eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~l  204 (987)
T PRK09782        129 TTVEELLAQQKACDAVPTLRCRSEVGQNALRLAQL---PVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQADTL  204 (987)
T ss_pred             HHHHHHHHhCCCChhHHHHHHHHhhccchhhhhhH---HHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHH
Confidence            888888766 3345555555554        4444   44444444 3332233334333333 33333    5667777


Q ss_pred             HHHHHHhCCCCCChhhHhHHHHHHHh-cCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCC-C
Q 006997          152 HCCVYKLGLLNNEIPLANSVMSMYAK-FGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVT-P  229 (622)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p  229 (622)
                      +..+.+.+..  +......|...|.. .++ +.+..+++...+.+...+..+...|.+.|+.++|.++++++...... |
T Consensus       205 L~~L~k~~pl--~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~  281 (987)
T PRK09782        205 YNEARQQNTL--SAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDA  281 (987)
T ss_pred             HHHHHhcCCC--CHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCC
Confidence            7777777643  44445566667776 366 77777766544456777778888888888888888888776443211 2


Q ss_pred             CHhHHHHH------------------------------HHHHhccCChHHHHHH--------------------------
Q 006997          230 DLVVFLNL------------------------------ILGCAQVGNLFLALSM--------------------------  253 (622)
Q Consensus       230 ~~~~~~~l------------------------------l~~~~~~~~~~~a~~~--------------------------  253 (622)
                      +..++..+                              +..+.+.++++.++++                          
T Consensus       282 ~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~  361 (987)
T PRK09782        282 QEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEA  361 (987)
T ss_pred             ccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHH
Confidence            22222111                              2333333444433333                          


Q ss_pred             ---HHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCC-C-----CHHHHHHHHHHHHhcCC---hHHHHHH--
Q 006997          254 ---HSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLE-K-----SVFLWTSMIGGYAQLGY---PSEAVNL--  319 (622)
Q Consensus       254 ---~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~-----~~~~~~~l~~~~~~~~~---~~~a~~~--  319 (622)
                         +..+.+.. +-+.....-+.-...+.|+.++|..+|+.... +     +...-+-++..|.+.+.   ..++..+  
T Consensus       362 ~~~~~~~y~~~-~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  440 (987)
T PRK09782        362 LRLARLLYQQE-PANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSK  440 (987)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhcc
Confidence               22221110 22333333344445667888888888887754 1     22344466667766655   3333322  


Q ss_pred             --------------------HHHHHh-CCC-CC--CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006997          320 --------------------FKRLLK-TSV-RP--NEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIH  375 (622)
Q Consensus       320 --------------------~~~m~~-~~~-~~--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  375 (622)
                                          +..... .+. ++  +...+..+..++.. ++.++|...+.......  |+......+..
T Consensus       441 ~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~  517 (987)
T PRK09782        441 PLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAY  517 (987)
T ss_pred             ccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHH
Confidence                                111111 111 22  45566666666655 78888888777776654  34333334455


Q ss_pred             HHHhcCChHHHHHHhccCCC--CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH-HHHHHHHHHHhccCchHH
Q 006997          376 MFSKCGRINKAKEVFERVPD--KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDA-VVYTSILSACSHSGMVDD  452 (622)
Q Consensus       376 ~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~ll~~~~~~g~~~~  452 (622)
                      .+...|++++|...|+++..  ++...+..+...+.+.|++++|...+++..+   ..|+. ..+..+.......|++++
T Consensus       518 al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~---l~P~~~~l~~~La~~l~~~Gr~~e  594 (987)
T PRK09782        518 QAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQ---RGLGDNALYWWLHAQRYIPGQPEL  594 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCccHHHHHHHHHHHHhCCCHHH
Confidence            55688999999999987663  3445566677788889999999999999887   44554 333344445556799999


Q ss_pred             HHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHc
Q 006997          453 GLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLT  530 (622)
Q Consensus       453 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  530 (622)
                      |...+++..+   +.|+...+..+..++.+.|++++|+..+++.. ..| +...+..+..++...|++++|+..++++++
T Consensus       595 Al~~~~~AL~---l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~  671 (987)
T PRK09782        595 ALNDLTRSLN---IAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHK  671 (987)
T ss_pred             HHHHHHHHHH---hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            9999999884   47788888889999999999999999999886 444 466788888889999999999999999999


Q ss_pred             cCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          531 LNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       531 ~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      ++|+++.++..++.++...|++++|+..+++..+..
T Consensus       672 l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        672 GLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999887644

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

Probab=99.95  E-value=4.1e-24  Score=200.01  Aligned_cols=379  Identities=15%  Similarity=0.177  Sum_probs=329.4

Q ss_pred             ChhhHhHHHHHHHhcCChHHHHHHHhhcCC---CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHH-HHH
Q 006997          164 EIPLANSVMSMYAKFGKVNEARSIFDEIGE---TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLN-LIL  239 (622)
Q Consensus       164 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-ll~  239 (622)
                      -..+|+.+.+.+-..|++++|+.+++.+.+   ..+.+|-.+..++...|+.+.|.+.|.+..+  +.|+.....+ +..
T Consensus       115 ~ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alq--lnP~l~ca~s~lgn  192 (966)
T KOG4626|consen  115 GAEAYSNLANILKERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQ--LNPDLYCARSDLGN  192 (966)
T ss_pred             HHHHHHHHHHHHHHhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHh--cCcchhhhhcchhH
Confidence            566788999999999999999999999876   4568899999999999999999999999887  4677665443 333


Q ss_pred             HHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCH---HHHHHHHHHHHhcCChHHH
Q 006997          240 GCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSV---FLWTSMIGGYAQLGYPSEA  316 (622)
Q Consensus       240 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a  316 (622)
                      .....|++++|...+.+.++.. +.-...|..|...+-..|+...|+..|++..+-|+   .+|-.|...|...+.+++|
T Consensus       193 Llka~Grl~ea~~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~A  271 (966)
T KOG4626|consen  193 LLKAEGRLEEAKACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRA  271 (966)
T ss_pred             HHHhhcccchhHHHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHH
Confidence            4445799999999998888764 44566788899999999999999999999976554   6899999999999999999


Q ss_pred             HHHHHHHHhCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC
Q 006997          317 VNLFKRLLKTSVRPN-EATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD  395 (622)
Q Consensus       317 ~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  395 (622)
                      +..|.+....  .|+ ...+..+...|-..|.++.|+..+++..+.. |.-+..|+.|..++...|++.+|...|.+...
T Consensus       272 vs~Y~rAl~l--rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~  348 (966)
T KOG4626|consen  272 VSCYLRALNL--RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALR  348 (966)
T ss_pred             HHHHHHHHhc--CCcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHH
Confidence            9999988775  454 4677788888999999999999999998875 44578999999999999999999999998774


Q ss_pred             --C-ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC-h
Q 006997          396 --K-DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS-I  470 (622)
Q Consensus       396 --~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~  470 (622)
                        | -..+.+.+...|...|.+++|..+|.+..+   +.|. ...++.+...|-+.|++++|+..|++..   .+.|+ .
T Consensus       349 l~p~hadam~NLgni~~E~~~~e~A~~ly~~al~---v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P~fA  422 (966)
T KOG4626|consen  349 LCPNHADAMNNLGNIYREQGKIEEATRLYLKALE---VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIKPTFA  422 (966)
T ss_pred             hCCccHHHHHHHHHHHHHhccchHHHHHHHHHHh---hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcCchHH
Confidence              3 446788899999999999999999999998   8888 4679999999999999999999999998   67887 6


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHh
Q 006997          471 EHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTS  548 (622)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (622)
                      ..|+.+...|...|+...|++.+.+++ ..|. ....+.|...|...|+..+|+..|+.++.+.|+.+.++-.++.++.-
T Consensus       423 da~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~  502 (966)
T KOG4626|consen  423 DALSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQI  502 (966)
T ss_pred             HHHHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHH
Confidence            789999999999999999999999987 5665 66899999999999999999999999999999999999999988766


Q ss_pred             cCChHH
Q 006997          549 AGMWKE  554 (622)
Q Consensus       549 ~g~~~~  554 (622)
                      -.+|.+
T Consensus       503 vcdw~D  508 (966)
T KOG4626|consen  503 VCDWTD  508 (966)
T ss_pred             Hhcccc
Confidence            655555

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.95  E-value=8.8e-22  Score=208.05  Aligned_cols=540  Identities=10%  Similarity=-0.014  Sum_probs=388.3

Q ss_pred             ccchhhcCCchhHHHHHHHHHhCCCCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHH-------
Q 006997            2 IRNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDM-------   74 (622)
Q Consensus         2 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~-------   74 (622)
                      .+.|...|++++|+..+++..+.  .|+...|..++..+   ++.+.|..+++++.+.. +.+..++..+...       
T Consensus        85 A~~yl~~g~~~~A~~~~~kAv~l--dP~n~~~~~~La~i---~~~~kA~~~ye~l~~~~-P~n~~~~~~la~~~~~~~~l  158 (987)
T PRK09782         85 AEAYRHFGHDDRARLLLEDQLKR--HPGDARLERSLAAI---PVEVKSVTTVEELLAQQ-KACDAVPTLRCRSEVGQNAL  158 (987)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhc--CcccHHHHHHHHHh---ccChhHHHHHHHHHHhC-CCChhHHHHHHHHhhccchh
Confidence            46789999999999999999985  45555555555333   88889999999999986 5566777777666       


Q ss_pred             -hhcCCChhHHHHHhccCCCCCCCcchHHHH-HHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhh-hhh--hhhH
Q 006997           75 -YSKCSDFVSSRKVLDEMPVRLRSVVSWNSI-ISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSG-CSF--RQGI  149 (622)
Q Consensus        75 -~~~~~~~~~A~~~~~~~~~~~~~~~~~~~l-i~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~-~~~--~~~~  149 (622)
                       |.+.++..++++ ..... ..|+....... ...|.+.|++++|++.+.++.+.+  |....+...+.. +.-  .. .
T Consensus       159 ~y~q~eqAl~AL~-lr~~~-~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~--pl~~~~~~~L~~ay~q~l~~-~  233 (987)
T PRK09782        159 RLAQLPVARAQLN-DATFA-ASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQN--TLSAAERRQWFDVLLAGQLD-D  233 (987)
T ss_pred             hhhhHHHHHHHHH-HhhhC-CCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHhhCH-H
Confidence             777766666666 22222 12234444444 889999999999999999999975  333333222222 221  11 2


Q ss_pred             HHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCC-----CCcc---------------------------
Q 006997          150 SMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGE-----TSIV---------------------------  197 (622)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~---------------------------  197 (622)
                      ++... .+..+. .+..++..++..|.+.|+.++|.+++++++.     |+..                           
T Consensus       234 ~a~al-~~~~lk-~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~  311 (987)
T PRK09782        234 RLLAL-QSQGIF-TDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADN  311 (987)
T ss_pred             HHHHH-hchhcc-cCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHH
Confidence            22222 222333 3888999999999999999999999998864     1111                           


Q ss_pred             ---hHHHHHHHHHcCCChhHHHHHHH-----------------------------HHHHCCCCCCHhHHHHHHHHHhccC
Q 006997          198 ---SWTTIIGGYVNVGNVNEAFGLCN-----------------------------QMRRMSVTPDLVVFLNLILGCAQVG  245 (622)
Q Consensus       198 ---~~~~li~~~~~~~~~~~a~~~~~-----------------------------~m~~~~~~p~~~~~~~ll~~~~~~~  245 (622)
                         ..-.++..+.+.++++.+.++..                             .|... .+-+......+.-.....|
T Consensus       312 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~-~~~~~~~l~q~~~~~~~~~  390 (987)
T PRK09782        312 RQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQ-EPANLTRLDQLTWQLMQNG  390 (987)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHcc
Confidence               11222455666666665554421                             11110 0112222223333345678


Q ss_pred             ChHHHHHHHHHHHHh-C-CCCCchhHHHHHHHHHhcCC---HHHHHHH-------------------------HhhcCC-
Q 006997          246 NLFLALSMHSLLLKS-G-YNNEDPLDNLLVSMYTKCGD---LELARRV-------------------------FDAVLE-  294 (622)
Q Consensus       246 ~~~~a~~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~---~~~a~~~-------------------------~~~~~~-  294 (622)
                      +.++|.++++..... + -..+....+-|+..|.+.+.   ..++..+                         +..... 
T Consensus       391 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~  470 (987)
T PRK09782        391 QSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGD  470 (987)
T ss_pred             cHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhccc
Confidence            899999999988763 1 22344556678888887766   3333333                         222221 


Q ss_pred             --C--CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHH
Q 006997          295 --K--SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQ  370 (622)
Q Consensus       295 --~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  370 (622)
                        +  +...|..+..++.. +++++|+..+.+....  .|+......+...+...|++++|...++.+...  +|+...+
T Consensus       471 ~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~  545 (987)
T PRK09782        471 MSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDL  545 (987)
T ss_pred             CCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHH
Confidence              2  56678888888776 8999999988888775  466655445555667899999999999987654  3444456


Q ss_pred             HHHHHHHHhcCChHHHHHHhccCCCCChhHHHHH---HHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhcc
Q 006997          371 TSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAM---INGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHS  447 (622)
Q Consensus       371 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l---~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~  447 (622)
                      ..+..++.+.|++++|...|+...+.++......   .......|++++|+..+++..+   ..|+...+..+..++.+.
T Consensus       546 ~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~---l~P~~~a~~~LA~~l~~l  622 (987)
T PRK09782        546 LAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLN---IAPSANAYVARATIYRQR  622 (987)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH---hCCCHHHHHHHHHHHHHC
Confidence            6778888999999999999998875443333333   2333455999999999999998   778888899999999999


Q ss_pred             CchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-cHHhHHHHHHHHHhcCCHHHHHHH
Q 006997          448 GMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEV-QAQVWAPLLSACMKHHNVELGEYA  524 (622)
Q Consensus       448 g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~  524 (622)
                      |++++|+..+++....   .| +...+..+...+...|++++|++.++++. ..| +...+..+..++...|++++|+..
T Consensus       623 G~~deA~~~l~~AL~l---~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~  699 (987)
T PRK09782        623 HNVPAAVSDLRAALEL---EPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHY  699 (987)
T ss_pred             CCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999999999954   66 57778888999999999999999999886 444 577899999999999999999999


Q ss_pred             HHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          525 AKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       525 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      ++++++++|+++.+....+++..+..+++.|.+.+++.-.-.
T Consensus       700 l~~Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~~  741 (987)
T PRK09782        700 ARLVIDDIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWTFS  741 (987)
T ss_pred             HHHHHhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhcC
Confidence            999999999999999999999999999999999998665533

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

Probab=99.93  E-value=4.5e-23  Score=193.14  Aligned_cols=361  Identities=14%  Similarity=0.176  Sum_probs=311.7

Q ss_pred             chHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCC-HhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHH
Q 006997          197 VSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPD-LVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSM  275 (622)
Q Consensus       197 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  275 (622)
                      .+|..+...+-..|++++|+.+++.+.+.  +|+ ...|..+..++...|+.+.|.+.|.+.++.+ |........+...
T Consensus       117 e~ysn~aN~~kerg~~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alqln-P~l~ca~s~lgnL  193 (966)
T KOG4626|consen  117 EAYSNLANILKERGQLQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLN-PDLYCARSDLGNL  193 (966)
T ss_pred             HHHHHHHHHHHHhchHHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC-cchhhhhcchhHH
Confidence            46888899999999999999999999885  454 6688889999999999999999999888764 2223344456666


Q ss_pred             HHhcCCHHHHHHHHhhcCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCChHHH
Q 006997          276 YTKCGDLELARRVFDAVLEKS---VFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNE-ATLATTLSACAELGSLSKG  351 (622)
Q Consensus       276 ~~~~~~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~~~~~~a  351 (622)
                      ....|++.+|...|.+....+   .++|+.|...+..+|+...|+..|++..+.  .|+. ..|..|...|...+.++.|
T Consensus       194 lka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~A  271 (966)
T KOG4626|consen  194 LKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRA  271 (966)
T ss_pred             HHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHH
Confidence            777899999999888775443   378999999999999999999999999875  4543 5788889999999999999


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC--CC-hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhc
Q 006997          352 KEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD--KD-LAVWSAMINGYAIHGMGDQALNLFYKMQHVE  428 (622)
Q Consensus       352 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  428 (622)
                      ...+..+.... +....++..+...|..+|.++-|+..|++..+  |+ +..|+.|..++-..|+..+|...+.+...  
T Consensus       272 vs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~--  348 (966)
T KOG4626|consen  272 VSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALR--  348 (966)
T ss_pred             HHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHH--
Confidence            99998887665 45667788888889999999999999999875  33 46899999999999999999999999998  


Q ss_pred             CCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHh
Q 006997          429 GLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS-IEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQV  504 (622)
Q Consensus       429 ~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~  504 (622)
                       +.|+ ....+.+...+...|.++.|..+|....   .+.|. ....+.|...|-.+|++++|+..++++. +.|. ...
T Consensus       349 -l~p~hadam~NLgni~~E~~~~e~A~~ly~~al---~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda  424 (966)
T KOG4626|consen  349 -LCPNHADAMNNLGNIYREQGKIEEATRLYLKAL---EVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADA  424 (966)
T ss_pred             -hCCccHHHHHHHHHHHHHhccchHHHHHHHHHH---hhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHH
Confidence             7777 5688999999999999999999999988   44665 6778899999999999999999999987 7777 678


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcc
Q 006997          505 WAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTK  569 (622)
Q Consensus       505 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  569 (622)
                      ++.++..|...|+.+.|.+.+.+++..+|.-++++..|+.+|...|++.+|++-|+..++-.+..
T Consensus       425 ~~NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDf  489 (966)
T KOG4626|consen  425 LSNMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDF  489 (966)
T ss_pred             HHhcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCC
Confidence            99999999999999999999999999999999999999999999999999999999988754433

>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=99.91  E-value=2.2e-20  Score=194.51  Aligned_cols=417  Identities=14%  Similarity=0.022  Sum_probs=291.5

Q ss_pred             HHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCC
Q 006997          101 WNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGK  180 (622)
Q Consensus       101 ~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  180 (622)
                      +......+.+.|++++|+..|++..+.  .|+                                ...|..+..+|.+.|+
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~--------------------------------~~~~~n~a~~~~~l~~  175 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPD--------------------------------PVYYSNRAACHNALGD  175 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc--------------------------------hHHHHHHHHHHHHhCC
Confidence            445667788889999999999887753  343                                3344677778888899


Q ss_pred             hHHHHHHHhhcCC---CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHH
Q 006997          181 VNEARSIFDEIGE---TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLL  257 (622)
Q Consensus       181 ~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  257 (622)
                      +++|+..++...+   .+..+|..+..+|...|++++|+..|......+. .+......++.....    ..+.......
T Consensus       176 ~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~lg~~~eA~~~~~~~~~~~~-~~~~~~~~~~~~~l~----~~a~~~~~~~  250 (615)
T TIGR00990       176 WEKVVEDTTAALELDPDYSKALNRRANAYDGLGKYADALLDLTASCIIDG-FRNEQSAQAVERLLK----KFAESKAKEI  250 (615)
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CccHHHHHHHHHHHH----HHHHHHHHHH
Confidence            9999998888765   2445788888889999999999888876654321 111111122221111    1222222222


Q ss_pred             HHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCH---HHHHHHHHH---HHhcCChHHHHHHHHHHHhCC-CCC
Q 006997          258 LKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSV---FLWTSMIGG---YAQLGYPSEAVNLFKRLLKTS-VRP  330 (622)
Q Consensus       258 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~---~~~~~~~~~a~~~~~~m~~~~-~~~  330 (622)
                      .+.. +++...+..+.. |...........-+....+.+.   ..+..+...   ....+++++|.+.|++..+.+ ..|
T Consensus       251 l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~  328 (615)
T TIGR00990       251 LETK-PENLPSVTFVGN-YLQSFRPKPRPAGLEDSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGE  328 (615)
T ss_pred             HhcC-CCCCCCHHHHHH-HHHHccCCcchhhhhcccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCCh
Confidence            2222 233333333322 2221111111111111111111   111111111   123478999999999998865 233


Q ss_pred             -CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHH
Q 006997          331 -NEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMIN  406 (622)
Q Consensus       331 -~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~  406 (622)
                       ....+..+...+...|++++|...++.+.+.. +.....+..+..++...|++++|...|+++.+   .+...|..+..
T Consensus       329 ~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~  407 (615)
T TIGR00990       329 KEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQ  407 (615)
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence             34567777778888999999999999998765 44566788889999999999999999987763   35678888999


Q ss_pred             HHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcC
Q 006997          407 GYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAG  484 (622)
Q Consensus       407 ~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g  484 (622)
                      .+...|++++|+..|++..+   ..|+ ...+..+..++.+.|++++|+..|++....   .| ++..++.+..++...|
T Consensus       408 ~~~~~g~~~~A~~~~~kal~---l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~---~P~~~~~~~~lg~~~~~~g  481 (615)
T TIGR00990       408 LHFIKGEFAQAGKDYQKSID---LDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN---FPEAPDVYNYYGELLLDQN  481 (615)
T ss_pred             HHHHcCCHHHHHHHHHHHHH---cCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcc
Confidence            99999999999999999998   6675 567778888999999999999999999854   45 5788899999999999


Q ss_pred             ChHHHHHHHHhCC-CCCcH-Hh-------HHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHH
Q 006997          485 RFDLALKTIHEMP-VEVQA-QV-------WAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEA  555 (622)
Q Consensus       485 ~~~~A~~~~~~~~-~~~~~-~~-------~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  555 (622)
                      ++++|++.|++.. ..|+. ..       ++.....+...|++++|+..++++++++|++...+..++.++.+.|++++|
T Consensus       482 ~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eA  561 (615)
T TIGR00990       482 KFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEA  561 (615)
T ss_pred             CHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHH
Confidence            9999999999875 33331 11       122222334469999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhC
Q 006997          556 ATARGLMDDR  565 (622)
Q Consensus       556 ~~~~~~~~~~  565 (622)
                      .+.|++..+.
T Consensus       562 i~~~e~A~~l  571 (615)
T TIGR00990       562 LKLFERAAEL  571 (615)
T ss_pred             HHHHHHHHHH
Confidence            9999998763

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

Probab=99.90  E-value=3.7e-19  Score=176.04  Aligned_cols=541  Identities=12%  Similarity=0.064  Sum_probs=364.5

Q ss_pred             chhHHHHHHHHHhCCCCCCcccHHHHHHHhh--ccCChhhHHHHHHHHHHhc--CCCCchhHHHHHHHhhcCCChhHHHH
Q 006997           11 FEETLSTYSSMLQTGVHGNSFTFPLVLKACA--NINSIWDGKRVHSHVLKVG--FQQDAFVQTGLIDMYSKCSDFVSSRK   86 (622)
Q Consensus        11 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~   86 (622)
                      .+.|...|....+.  .|+. ....+.++|.  ..+++..|..+|..++...  .+||+.+  .+-..+.+.|+.+.|+.
T Consensus       146 ~~~A~a~F~~Vl~~--sp~N-il~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~rI--gig~Cf~kl~~~~~a~~  220 (1018)
T KOG2002|consen  146 MDDADAQFHFVLKQ--SPDN-ILALLGKARIAYNKKDYRGALKYYKKALRINPACKADVRI--GIGHCFWKLGMSEKALL  220 (1018)
T ss_pred             HHHHHHHHHHHHhh--CCcc-hHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCccc--hhhhHHHhccchhhHHH
Confidence            46777777777663  2222 2444555554  5568888888888866554  3444433  23345567788888888


Q ss_pred             HhccCCCCCC-CcchHHHHHHHHHhCCC---chHHHHHHHHHHHcCCCCChhhHHHHHhhhh-----hhhhHHHHHHHHH
Q 006997           87 VLDEMPVRLR-SVVSWNSIISAHSRACL---NDEAILVLKEMWVLGLELSASTFVSVVSGCS-----FRQGISMHCCVYK  157 (622)
Q Consensus        87 ~~~~~~~~~~-~~~~~~~li~~~~~~~~---~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~-----~~~~~~~~~~~~~  157 (622)
                      .|+...+..| ++.++-.|...-....+   +..++.++...-.  ..|+.......+....     ...+..+...++.
T Consensus       221 a~~ralqLdp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~--~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~  298 (1018)
T KOG2002|consen  221 AFERALQLDPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYK--ENNENPVALNHLANHFYFKKDYERVWHLAEHAIK  298 (1018)
T ss_pred             HHHHHHhcChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHh--hcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHH
Confidence            8887774422 33333333333233333   3444444444433  2233222333333322     5556666666555


Q ss_pred             hCCCC-CChhhHhHHHHHHHhcCChHHHHHHHhhcCC--CC--cchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHh
Q 006997          158 LGLLN-NEIPLANSVMSMYAKFGKVNEARSIFDEIGE--TS--IVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLV  232 (622)
Q Consensus       158 ~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  232 (622)
                      ..... --...+--+.++|...|++++|...|-+..+  ++  +..+--+...+.+.|+++.+...|+..... .+-+..
T Consensus       299 ~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~-~p~~~e  377 (1018)
T KOG2002|consen  299 NTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQ-LPNNYE  377 (1018)
T ss_pred             hhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHh-CcchHH
Confidence            44211 0233456788999999999999999987765  22  345666788999999999999999998875 234466


Q ss_pred             HHHHHHHHHhccC----ChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhc--------CCCCHHHH
Q 006997          233 VFLNLILGCAQVG----NLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAV--------LEKSVFLW  300 (622)
Q Consensus       233 ~~~~ll~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~--------~~~~~~~~  300 (622)
                      |...|...|+..+    ..+.|..++....+.. +.|...|-.+...|-...-+. ++.+|..+        ....+...
T Consensus       378 tm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~~~-sL~~~~~A~d~L~~~~~~ip~E~L  455 (1018)
T KOG2002|consen  378 TMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDPWA-SLDAYGNALDILESKGKQIPPEVL  455 (1018)
T ss_pred             HHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcChHH-HHHHHHHHHHHHHHcCCCCCHHHH
Confidence            7777777777664    4566777777766654 667777777777766554433 25544433        23467788


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhC---CCCCCH------HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHH
Q 006997          301 TSMIGGYAQLGYPSEAVNLFKRLLKT---SVRPNE------ATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQT  371 (622)
Q Consensus       301 ~~l~~~~~~~~~~~~a~~~~~~m~~~---~~~~~~------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  371 (622)
                      |.+...+...|++.+|...|......   ...++.      .+-..+....-..++.+.|.+.|..+.+.. |.-+..|-
T Consensus       456 NNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh-p~YId~yl  534 (1018)
T KOG2002|consen  456 NNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH-PGYIDAYL  534 (1018)
T ss_pred             HhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC-chhHHHHH
Confidence            99999999999999999999887654   122333      223345556667788999999999988764 22233344


Q ss_pred             HHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhc--
Q 006997          372 SLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSH--  446 (622)
Q Consensus       372 ~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~--  446 (622)
                      .++.+-...+...+|...+..+..   .++..+..+...+.+...+..|.+-|..+.+.....+|..+...|.+.|..  
T Consensus       535 Rl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l  614 (1018)
T KOG2002|consen  535 RLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQAL  614 (1018)
T ss_pred             HhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHh
Confidence            444333344677888888887763   567778878888888888988988887777634445677777777776543  


Q ss_pred             ----------cCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHH
Q 006997          447 ----------SGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACM  513 (622)
Q Consensus       447 ----------~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~  513 (622)
                                .+..++|+++|.++++.   .| |...-+-+.-+++..|++.+|..+|.++.  ......+|..++.+|.
T Consensus       615 ~~~~rn~ek~kk~~~KAlq~y~kvL~~---dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~  691 (1018)
T KOG2002|consen  615 HNPSRNPEKEKKHQEKALQLYGKVLRN---DPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYV  691 (1018)
T ss_pred             cccccChHHHHHHHHHHHHHHHHHHhc---CcchhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHH
Confidence                      23467788888887742   44 67777778888999999999999999886  3345678999999999


Q ss_pred             hcCCHHHHHHHHHHHHcc--CCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          514 KHHNVELGEYAAKNLLTL--NPGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       514 ~~~~~~~a~~~~~~~~~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      ..|++-.|+++|+..+..  ..+++.+...|+.++.+.|++.+|.+........
T Consensus       692 e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~  745 (1018)
T KOG2002|consen  692 EQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHL  745 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            999999999999998873  3457788999999999999999999988877653

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.88  E-value=3.5e-20  Score=183.65  Aligned_cols=266  Identities=15%  Similarity=0.147  Sum_probs=177.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006997          299 LWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPN---EATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIH  375 (622)
Q Consensus       299 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  375 (622)
                      ++..+...+...|++++|..+++.+...+..++   ...+..+...+...|+++.|..+++.+.+.. +.+..+++.++.
T Consensus        71 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~  149 (389)
T PRK11788         71 LHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLE  149 (389)
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHH
Confidence            344444444444444444444444443221111   1233344444444455555555544444332 233444445555


Q ss_pred             HHHhcCChHHHHHHhccCCCCC--------hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhc
Q 006997          376 MFSKCGRINKAKEVFERVPDKD--------LAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSH  446 (622)
Q Consensus       376 ~~~~~~~~~~A~~~~~~~~~~~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~  446 (622)
                      ++.+.|++++|.+.++.+.+.+        ...+..+...+...|++++|...|+++.+   ..|+ ...+..+...+.+
T Consensus       150 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~la~~~~~  226 (389)
T PRK11788        150 IYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALA---ADPQCVRASILLGDLALA  226 (389)
T ss_pred             HHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHh---HCcCCHHHHHHHHHHHHH
Confidence            5555555555555555443211        11344566777888999999999999887   4455 4577778888999


Q ss_pred             cCchHHHHHHHHHhHHhcCCCCC--hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCcHHhHHHHHHHHHhcCCHHHHHH
Q 006997          447 SGMVDDGLSFFKSMQSNFGIEPS--IEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQAQVWAPLLSACMKHHNVELGEY  523 (622)
Q Consensus       447 ~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~  523 (622)
                      .|++++|.++++++...   .|+  ...+..++.+|...|++++|.+.++++. ..|+...+..++..+.+.|++++|..
T Consensus       227 ~g~~~~A~~~~~~~~~~---~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~~  303 (389)
T PRK11788        227 QGDYAAAIEALERVEEQ---DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQEGPEAAQA  303 (389)
T ss_pred             CCCHHHHHHHHHHHHHH---ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhCCHHHHHH
Confidence            99999999999998854   443  4567888899999999999999999876 56776777888999999999999999


Q ss_pred             HHHHHHccCCCCCchHHHHHHHHHh---cCChHHHHHHHHHhhhCCCccCCC
Q 006997          524 AAKNLLTLNPGSTGNYILMANLFTS---AGMWKEAATARGLMDDRRLTKEPG  572 (622)
Q Consensus       524 ~~~~~~~~~p~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~  572 (622)
                      .++++++..|+++. +..+...+..   .|+.+++..+++++.+++++++|.
T Consensus       304 ~l~~~l~~~P~~~~-~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        304 LLREQLRRHPSLRG-FHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             HHHHHHHhCcCHHH-HHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            99999999997664 4444444443   569999999999999999988885

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

Probab=99.88  E-value=4.7e-18  Score=168.31  Aligned_cols=508  Identities=12%  Similarity=0.075  Sum_probs=370.5

Q ss_pred             ChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCC----CCCcchHHHHHHHHHhCCCchHHHHH
Q 006997           45 SIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVR----LRSVVSWNSIISAHSRACLNDEAILV  120 (622)
Q Consensus        45 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~A~~~  120 (622)
                      +.+.|.+.|..+++.. ++|.-..-.-.......+++..|+.+|+.....    ++|+.  -.+..++.+.|+.+.|+..
T Consensus       145 ~~~~A~a~F~~Vl~~s-p~Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~r--Igig~Cf~kl~~~~~a~~a  221 (1018)
T KOG2002|consen  145 SMDDADAQFHFVLKQS-PDNILALLGKARIAYNKKDYRGALKYYKKALRINPACKADVR--IGIGHCFWKLGMSEKALLA  221 (1018)
T ss_pred             cHHHHHHHHHHHHhhC-CcchHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCcc--chhhhHHHhccchhhHHHH
Confidence            3688999999988875 455444333333344568999999999985433    33432  2233566788999999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHhhhh--------hhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcC
Q 006997          121 LKEMWVLGLELSASTFVSVVSGCS--------FRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIG  192 (622)
Q Consensus       121 ~~~m~~~~~~p~~~t~~~ll~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  192 (622)
                      |.+..+.  .|+...-...|..+.        ...+.+++......  .+.++.+.+.|.+.|...|++..+..+...+.
T Consensus       222 ~~ralqL--dp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~--n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai  297 (1018)
T KOG2002|consen  222 FERALQL--DPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKE--NNENPVALNHLANHFYFKKDYERVWHLAEHAI  297 (1018)
T ss_pred             HHHHHhc--ChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhh--cCCCcHHHHHHHHHHhhcccHHHHHHHHHHHH
Confidence            9999874  443322222222222        44455555554443  34478888999999999999999999988876


Q ss_pred             CCC------cchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhH--HHHHHHHHhccCChHHHHHHHHHHHHhCCCC
Q 006997          193 ETS------IVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVV--FLNLILGCAQVGNLFLALSMHSLLLKSGYNN  264 (622)
Q Consensus       193 ~~~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  264 (622)
                      ..+      ..+|..+.++|-..|++++|...|.+..+.  .||.++  +.-+.+.+...|+++.+...|+.+.+.. |.
T Consensus       298 ~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~--~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~  374 (1018)
T KOG2002|consen  298 KNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKA--DNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL-PN  374 (1018)
T ss_pred             HhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc--CCCCccccccchhHHHHHhchHHHHHHHHHHHHHhC-cc
Confidence            532      245888999999999999999999887764  455544  4467788999999999999999998875 77


Q ss_pred             CchhHHHHHHHHHhcC----CHHHHHHHHhhcCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHH----hCCCCCCHH
Q 006997          265 EDPLDNLLVSMYTKCG----DLELARRVFDAVLEK---SVFLWTSMIGGYAQLGYPSEAVNLFKRLL----KTSVRPNEA  333 (622)
Q Consensus       265 ~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~----~~~~~~~~~  333 (622)
                      +..+...|...|...+    ..+.|..++.....+   |+.+|-.+...+-...- ..++..|....    ..+-.+...
T Consensus       375 ~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laql~e~~d~-~~sL~~~~~A~d~L~~~~~~ip~E  453 (1018)
T KOG2002|consen  375 NYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQLLEQTDP-WASLDAYGNALDILESKGKQIPPE  453 (1018)
T ss_pred             hHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHhcCh-HHHHHHHHHHHHHHHHcCCCCCHH
Confidence            7788888888888775    567777777776554   56677777777655444 44477776544    455567888


Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHc---CCCCch------hHHHHHHHHHHhcCChHHHHHHhccCCCCCh---hHH
Q 006997          334 TLATTLSACAELGSLSKGKEIEEYIVLN---GLESNR------QVQTSLIHMFSKCGRINKAKEVFERVPDKDL---AVW  401 (622)
Q Consensus       334 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~---~~~  401 (622)
                      ..+.+...+...|+++.|...|+.+...   ...++.      .+--.+..++-..++++.|.+.|..+.+..+   ..|
T Consensus       454 ~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~YId~y  533 (1018)
T KOG2002|consen  454 VLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPGYIDAY  533 (1018)
T ss_pred             HHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCchhHHHH
Confidence            9999999999999999999999988665   112222      2233356666777899999999999886433   233


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHH
Q 006997          402 SAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLG  481 (622)
Q Consensus       402 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  481 (622)
                      .-+.......++..+|...+.....  ....++..+..+...+.+...+..|.+-|+.+.++....+|+.+.-+|.+.|.
T Consensus       534 lRl~~ma~~k~~~~ea~~~lk~~l~--~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~  611 (1018)
T KOG2002|consen  534 LRLGCMARDKNNLYEASLLLKDALN--IDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYI  611 (1018)
T ss_pred             HHhhHHHHhccCcHHHHHHHHHHHh--cccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHH
Confidence            3333233345778899999999886  23334455555677888888888888877777665344567777777777654


Q ss_pred             h------------cCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHH
Q 006997          482 R------------AGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFT  547 (622)
Q Consensus       482 ~------------~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (622)
                      +            .+..++|+++|.++.  .+.+..+-+.++-.+...|++..|..+|.++.+--.+.+++|.+++.+|.
T Consensus       612 ~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~  691 (1018)
T KOG2002|consen  612 QALHNPSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYV  691 (1018)
T ss_pred             HHhcccccChHHHHHHHHHHHHHHHHHHhcCcchhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHH
Confidence            2            346788999998876  34456666778888889999999999999999977778999999999999


Q ss_pred             hcCChHHHHHHHHHhhhC
Q 006997          548 SAGMWKEAATARGLMDDR  565 (622)
Q Consensus       548 ~~g~~~~A~~~~~~~~~~  565 (622)
                      .+|+|-.|.+.|+...+.
T Consensus       692 e~~qy~~AIqmYe~~lkk  709 (1018)
T KOG2002|consen  692 EQGQYRLAIQMYENCLKK  709 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            999999999999988764

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.88  E-value=1.2e-18  Score=180.66  Aligned_cols=367  Identities=9%  Similarity=0.031  Sum_probs=284.9

Q ss_pred             HhcCChHHHHHHHhhcCC------CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHH
Q 006997          176 AKFGKVNEARSIFDEIGE------TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFL  249 (622)
Q Consensus       176 ~~~g~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  249 (622)
                      .+..+++.-.-.|...++      .+......++..+.+.|++++|..+++........+ ...+..++.++...|+++.
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~-~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNG-RDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCc-hhHHHHHhhhHhhcCCHHH
Confidence            355666666666666554      123345567788899999999999999988764333 3445556667778999999


Q ss_pred             HHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCC--C-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006997          250 ALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLE--K-SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKT  326 (622)
Q Consensus       250 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  326 (622)
                      |...++.+.+.. |.+...+..+...+...|++++|...++++..  | +...+..+...+...|++++|...++.+...
T Consensus        95 A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~  173 (656)
T PRK15174         95 VLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQE  173 (656)
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHh
Confidence            999999999875 66777888899999999999999999998854  3 5678888999999999999999999988776


Q ss_pred             CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHH
Q 006997          327 SVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSA  403 (622)
Q Consensus       327 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~  403 (622)
                      ...+ ...+..+ ..+...|++++|...++.+.+....++......+...+.+.|++++|...|++...   .+...+..
T Consensus       174 ~P~~-~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~  251 (656)
T PRK15174        174 VPPR-GDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRS  251 (656)
T ss_pred             CCCC-HHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            4332 2233233 34778899999999999987765334444555567788899999999999998764   35567788


Q ss_pred             HHHHHHHcCCHHH----HHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHH
Q 006997          404 MINGYAIHGMGDQ----ALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLV  477 (622)
Q Consensus       404 l~~~~~~~~~~~~----a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~  477 (622)
                      +...+...|++++    |...|+++.+   ..|+ ...+..+...+...|++++|...++++...   .| +...+..+.
T Consensus       252 Lg~~l~~~G~~~eA~~~A~~~~~~Al~---l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l---~P~~~~a~~~La  325 (656)
T PRK15174        252 LGLAYYQSGRSREAKLQAAEHWRHALQ---FNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT---HPDLPYVRAMYA  325 (656)
T ss_pred             HHHHHHHcCCchhhHHHHHHHHHHHHh---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHH
Confidence            8899999999985    8999999988   6676 567888899999999999999999998854   55 466677888


Q ss_pred             HHHHhcCChHHHHHHHHhCC-CCCcHHh-HHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHH
Q 006997          478 DLLGRAGRFDLALKTIHEMP-VEVQAQV-WAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEA  555 (622)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  555 (622)
                      .+|.+.|++++|++.++++. ..|+... +..+..++...|+.++|...|+++++..|++.            ..++++|
T Consensus       326 ~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~------------~~~~~ea  393 (656)
T PRK15174        326 RALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHL------------PQSFEEG  393 (656)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhc------------hhhHHHH
Confidence            99999999999999999887 5566433 44456778899999999999999999999764            2344455


Q ss_pred             HHHHHHhhh
Q 006997          556 ATARGLMDD  564 (622)
Q Consensus       556 ~~~~~~~~~  564 (622)
                      ...+....+
T Consensus       394 ~~~~~~~~~  402 (656)
T PRK15174        394 LLALDGQIS  402 (656)
T ss_pred             HHHHHHHHH
Confidence            555555544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.87  E-value=2.4e-18  Score=182.48  Aligned_cols=394  Identities=11%  Similarity=0.045  Sum_probs=294.4

Q ss_pred             ChhhHhHHHHHHHhcCChHHHHHHHhhcCC---CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHH
Q 006997          164 EIPLANSVMSMYAKFGKVNEARSIFDEIGE---TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILG  240 (622)
Q Consensus       164 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  240 (622)
                      +.....-.+......|+.++|++++.+...   .+...+..+...+.+.|++++|.+++++..... +.+......+...
T Consensus        14 ~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~   92 (765)
T PRK10049         14 SNNQIADWLQIALWAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILT   92 (765)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            444556667778888999999999988764   233458888899999999999999999987752 3345566677788


Q ss_pred             HhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHhcCChHHHH
Q 006997          241 CAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEK---SVFLWTSMIGGYAQLGYPSEAV  317 (622)
Q Consensus       241 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~  317 (622)
                      +...|++++|...++++.+.. +.+.. +..+..++...|+.++|...++++.+.   +...+..+...+...+..++|+
T Consensus        93 l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al  170 (765)
T PRK10049         93 LADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPAL  170 (765)
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHH
Confidence            889999999999999998874 55556 888888999999999999999888543   5566677888888889999999


Q ss_pred             HHHHHHHhCCCCCCH------HHHHHHHHHHh-----ccCCh---HHHHHHHHHHHHc-CCCCchh-HH-HH---HHHHH
Q 006997          318 NLFKRLLKTSVRPNE------ATLATTLSACA-----ELGSL---SKGKEIEEYIVLN-GLESNRQ-VQ-TS---LIHMF  377 (622)
Q Consensus       318 ~~~~~m~~~~~~~~~------~~~~~ll~~~~-----~~~~~---~~a~~~~~~~~~~-~~~~~~~-~~-~~---l~~~~  377 (622)
                      +.+++...   .|+.      .....++....     ..+++   +.|.+.++.+.+. ...|+.. .+ ..   .+..+
T Consensus       171 ~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~L  247 (765)
T PRK10049        171 GAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGAL  247 (765)
T ss_pred             HHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHH
Confidence            98886654   2321      01112222221     12233   6677788887754 2222221 11 11   12344


Q ss_pred             HhcCChHHHHHHhccCCCCC---hh-HHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-----HHHHHHHHHHHhccC
Q 006997          378 SKCGRINKAKEVFERVPDKD---LA-VWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-----AVVYTSILSACSHSG  448 (622)
Q Consensus       378 ~~~~~~~~A~~~~~~~~~~~---~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-----~~~~~~ll~~~~~~g  448 (622)
                      ...|++++|...|+.+.+.+   +. ....+..+|...|++++|+..|+++.+   ..|.     ......+..++...|
T Consensus       248 l~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~---~~p~~~~~~~~~~~~L~~a~~~~g  324 (765)
T PRK10049        248 LARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFY---HPETIADLSDEELADLFYSLLESE  324 (765)
T ss_pred             HHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhh---cCCCCCCCChHHHHHHHHHHHhcc
Confidence            57799999999999988532   21 222256789999999999999999876   3332     234666777889999


Q ss_pred             chHHHHHHHHHhHHhcC----------CCCC---hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHH
Q 006997          449 MVDDGLSFFKSMQSNFG----------IEPS---IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACM  513 (622)
Q Consensus       449 ~~~~a~~~~~~~~~~~~----------~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~  513 (622)
                      ++++|.+.++.+.+...          -.|+   ...+..++..+...|++++|++.++++.  .+.+...+..++..+.
T Consensus       325 ~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~  404 (765)
T PRK10049        325 NYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQ  404 (765)
T ss_pred             cHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            99999999999885410          0122   2345567788999999999999999986  4445778899999999


Q ss_pred             hcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          514 KHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       514 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      ..|++++|++.++++++++|+++..+..++.++.+.|++++|..+++.+++..
T Consensus       405 ~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~  457 (765)
T PRK10049        405 ARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVARE  457 (765)
T ss_pred             hcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999999998653

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.87  E-value=1e-17  Score=177.68  Aligned_cols=367  Identities=10%  Similarity=0.006  Sum_probs=245.1

Q ss_pred             hHhHHHHHHHhcCChHHHHHHHhhcCC---CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhc
Q 006997          167 LANSVMSMYAKFGKVNEARSIFDEIGE---TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQ  243 (622)
Q Consensus       167 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  243 (622)
                      .+..+...+...|++++|..+|++..+   .+...+..+...+...|++++|+..+++..+.. +.+.. +..+...+..
T Consensus        51 ~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~  128 (765)
T PRK10049         51 GYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKR  128 (765)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHH
Confidence            345555555666666666666665432   233445555566666666666666666666541 22333 5555666666


Q ss_pred             cCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHH--------HHHHHHHHHH-----hc
Q 006997          244 VGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVF--------LWTSMIGGYA-----QL  310 (622)
Q Consensus       244 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--------~~~~l~~~~~-----~~  310 (622)
                      .|+.++|...++++.+.. |.+...+..+..++...+..+.|.+.++.... ++.        ....++....     ..
T Consensus       129 ~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~-~p~~~~~l~~~~~~~~~r~~~~~~~~~~  206 (765)
T PRK10049        129 AGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDANL-TPAEKRDLEADAAAELVRLSFMPTRSEK  206 (765)
T ss_pred             CCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHhhcccccChh
Confidence            677777777777666654 44455555566667777777777777776654 211        1122222221     12


Q ss_pred             CCh---HHHHHHHHHHHhC-CCCCCHH-HHH----HHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 006997          311 GYP---SEAVNLFKRLLKT-SVRPNEA-TLA----TTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCG  381 (622)
Q Consensus       311 ~~~---~~a~~~~~~m~~~-~~~~~~~-~~~----~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  381 (622)
                      +++   ++|++.++.+.+. ...|+.. .+.    ..+.++...|++++|...|+.+.+.+.+........+...|...|
T Consensus       207 ~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g  286 (765)
T PRK10049        207 ERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLH  286 (765)
T ss_pred             HHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcC
Confidence            233   6788888888754 2223221 111    113345667899999999999887753211122233577899999


Q ss_pred             ChHHHHHHhccCCCCC-------hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcC-----------CCCCH---HHHHHH
Q 006997          382 RINKAKEVFERVPDKD-------LAVWSAMINGYAIHGMGDQALNLFYKMQHVEG-----------LKPDA---VVYTSI  440 (622)
Q Consensus       382 ~~~~A~~~~~~~~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----------~~p~~---~~~~~l  440 (622)
                      ++++|...|+++.+.+       ......+..++...|++++|.+.++.+.+ ..           -.|+.   ..+..+
T Consensus       287 ~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~-~~P~~~~~~~~~~~~p~~~~~~a~~~~  365 (765)
T PRK10049        287 QPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTIN-NSPPFLRLYGSPTSIPNDDWLQGQSLL  365 (765)
T ss_pred             CcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhh-cCCceEeecCCCCCCCCchHHHHHHHH
Confidence            9999999998876422       12455566678899999999999999887 21           11232   245567


Q ss_pred             HHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCH
Q 006997          441 LSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNV  518 (622)
Q Consensus       441 l~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~  518 (622)
                      ...+...|+.++|++.++++...  .+.+...+..++..+...|++++|++.++++. ..|+ ...+..++..+...|++
T Consensus       366 a~~l~~~g~~~eA~~~l~~al~~--~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~  443 (765)
T PRK10049        366 SQVAKYSNDLPQAEMRARELAYN--APGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEW  443 (765)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCH
Confidence            77888999999999999999854  23467888899999999999999999999987 4555 66777788888999999


Q ss_pred             HHHHHHHHHHHccCCCCCchHH
Q 006997          519 ELGEYAAKNLLTLNPGSTGNYI  540 (622)
Q Consensus       519 ~~a~~~~~~~~~~~p~~~~~~~  540 (622)
                      ++|+.+++++++..|+++.+..
T Consensus       444 ~~A~~~~~~ll~~~Pd~~~~~~  465 (765)
T PRK10049        444 RQMDVLTDDVVAREPQDPGVQR  465 (765)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHH
Confidence            9999999999999998885544

>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=99.87  E-value=2.5e-18  Score=179.19  Aligned_cols=419  Identities=11%  Similarity=-0.006  Sum_probs=291.9

Q ss_pred             HHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhh
Q 006997           68 QTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQ  147 (622)
Q Consensus        68 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~  147 (622)
                      +......|.+.|+++.|+..|+......|+...|..+..+|...|++++|++.++...+.  .|+               
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l--~p~---------------  192 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALEL--DPD---------------  192 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHc--CCC---------------
Confidence            345667788889999999999988766777888889999999999999999999998763  333               


Q ss_pred             hHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCCC---cchHHHHHHHHHcCCChhHHHHHHHHHHH
Q 006997          148 GISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETS---IVSWTTIIGGYVNVGNVNEAFGLCNQMRR  224 (622)
Q Consensus       148 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~  224 (622)
                                      +..++..+..+|...|++++|...|......+   ......++..+..    ..+........+
T Consensus       193 ----------------~~~a~~~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~a~~~~~~~l~  252 (615)
T TIGR00990       193 ----------------YSKALNRRANAYDGLGKYADALLDLTASCIIDGFRNEQSAQAVERLLK----KFAESKAKEILE  252 (615)
T ss_pred             ----------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHH----HHHHHHHHHHHh
Confidence                            66677888889999999999988876543211   1111111111111    122222222222


Q ss_pred             CCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCc-hhHHHHHHH---HHhcCCHHHHHHHHhhcCCC-----
Q 006997          225 MSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNED-PLDNLLVSM---YTKCGDLELARRVFDAVLEK-----  295 (622)
Q Consensus       225 ~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~---~~~~~~~~~a~~~~~~~~~~-----  295 (622)
                      .. +++...+..+.. +...........-+....+  ..+.. ..+..+...   ....+++++|.+.|+.....     
T Consensus       253 ~~-~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~  328 (615)
T TIGR00990       253 TK-PENLPSVTFVGN-YLQSFRPKPRPAGLEDSNE--LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGE  328 (615)
T ss_pred             cC-CCCCCCHHHHHH-HHHHccCCcchhhhhcccc--cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCCh
Confidence            21 122222222211 1111111111111111111  11111 111111111   12346889999999887542     


Q ss_pred             -CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHH
Q 006997          296 -SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPN-EATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSL  373 (622)
Q Consensus       296 -~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  373 (622)
                       ....|+.+...+...|++++|+..|++.++.  .|+ ...|..+...+...|++++|...++.+.+.. +.+..++..+
T Consensus       329 ~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~l  405 (615)
T TIGR00990       329 KEAIALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHR  405 (615)
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence             3467888888999999999999999999876  344 5577888888899999999999999998775 5567888999


Q ss_pred             HHHHHhcCChHHHHHHhccCCC--C-ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCc
Q 006997          374 IHMFSKCGRINKAKEVFERVPD--K-DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGM  449 (622)
Q Consensus       374 ~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~  449 (622)
                      ..++...|++++|...|++..+  | +...+..+...+.+.|++++|+..|++..+   ..|+ ...+..+..++...|+
T Consensus       406 g~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~---~~P~~~~~~~~lg~~~~~~g~  482 (615)
T TIGR00990       406 AQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKK---NFPEAPDVYNYYGELLLDQNK  482 (615)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHHccC
Confidence            9999999999999999998864  3 456777788899999999999999999987   5565 6788889999999999


Q ss_pred             hHHHHHHHHHhHHhcCCCCCh-h-------HHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHH
Q 006997          450 VDDGLSFFKSMQSNFGIEPSI-E-------HYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVE  519 (622)
Q Consensus       450 ~~~a~~~~~~~~~~~~~~p~~-~-------~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~  519 (622)
                      +++|+..|++....   .|+. .       .++.....+...|++++|.+++++.. ..|+ ...+..++..+...|+++
T Consensus       483 ~~~A~~~~~~Al~l---~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~  559 (615)
T TIGR00990       483 FDEAIEKFDTAIEL---EKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVD  559 (615)
T ss_pred             HHHHHHHHHHHHhc---CCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHH
Confidence            99999999998843   4431 1       11222233445799999999999865 4454 557889999999999999


Q ss_pred             HHHHHHHHHHccCCCCC
Q 006997          520 LGEYAAKNLLTLNPGST  536 (622)
Q Consensus       520 ~a~~~~~~~~~~~p~~~  536 (622)
                      +|+..|++++++.+...
T Consensus       560 eAi~~~e~A~~l~~~~~  576 (615)
T TIGR00990       560 EALKLFERAAELARTEG  576 (615)
T ss_pred             HHHHHHHHHHHHhccHH
Confidence            99999999999887543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.87  E-value=1.5e-18  Score=179.88  Aligned_cols=352  Identities=11%  Similarity=-0.002  Sum_probs=279.8

Q ss_pred             HcCCChhHHHHHHHHHHHC--CCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHH
Q 006997          207 VNVGNVNEAFGLCNQMRRM--SVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLEL  284 (622)
Q Consensus       207 ~~~~~~~~a~~~~~~m~~~--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  284 (622)
                      .++.+++.---+|....++  .-.-+..-...++..+.+.|+++.|..++...+... +.+......++.+....|++++
T Consensus        16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~-p~~~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         16 LKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTA-KNGRDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhC-CCchhHHHHHhhhHhhcCCHHH
Confidence            4455555444444433221  011233345566778889999999999999998876 4455566666677788999999


Q ss_pred             HHHHHhhcCC--C-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHc
Q 006997          285 ARRVFDAVLE--K-SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLN  361 (622)
Q Consensus       285 a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  361 (622)
                      |...|+++..  | +...+..+...+...|++++|+..|+++.+.. +.+...+..+...+...|++++|...++.+...
T Consensus        95 A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~  173 (656)
T PRK15174         95 VLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQE  173 (656)
T ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHh
Confidence            9999999854  3 56788889999999999999999999998863 335567778888999999999999999988776


Q ss_pred             CCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCC----ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHH
Q 006997          362 GLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDK----DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVV  436 (622)
Q Consensus       362 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~  436 (622)
                      .. .+...+..+ ..+...|++++|...++.+.+.    +...+..+...+...|++++|+..++++.+   ..|+ ...
T Consensus       174 ~P-~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~---~~p~~~~~  248 (656)
T PRK15174        174 VP-PRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALA---RGLDGAAL  248 (656)
T ss_pred             CC-CCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCCHHH
Confidence            53 333344333 3478899999999999987643    233445556788899999999999999998   5565 567


Q ss_pred             HHHHHHHHhccCchHH----HHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHH
Q 006997          437 YTSILSACSHSGMVDD----GLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLL  509 (622)
Q Consensus       437 ~~~ll~~~~~~g~~~~----a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~  509 (622)
                      +..+...+...|++++    |...|+++...   .| +...+..+...+.+.|++++|+..++++. ..|+ ...+..+.
T Consensus       249 ~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l---~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La  325 (656)
T PRK15174        249 RRSLGLAYYQSGRSREAKLQAAEHWRHALQF---NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYA  325 (656)
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHHHHhh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            7888999999999986    89999999843   55 57788899999999999999999999986 4444 66788889


Q ss_pred             HHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCc
Q 006997          510 SACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLT  568 (622)
Q Consensus       510 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  568 (622)
                      .++...|++++|+..++++++..|+++..+..++.++...|++++|...|++..+..++
T Consensus       326 ~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~  384 (656)
T PRK15174        326 RALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARAS  384 (656)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChh
Confidence            99999999999999999999999988877777899999999999999999999876554

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.86  E-value=3.5e-19  Score=176.47  Aligned_cols=283  Identities=16%  Similarity=0.141  Sum_probs=149.5

Q ss_pred             HcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCC---chhHHHHHHHHHhcCCHH
Q 006997          207 VNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNE---DPLDNLLVSMYTKCGDLE  283 (622)
Q Consensus       207 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~  283 (622)
                      ...|++++|+..|.++.+.+ +.+..++..+...+...|++++|..+++.+...+..++   ..++..+...|.+.|+++
T Consensus        46 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~  124 (389)
T PRK11788         46 LLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLD  124 (389)
T ss_pred             HhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHH
Confidence            34444444555554444431 11223444444444455555555555544444321111   123445555555556666


Q ss_pred             HHHHHHhhcCC---CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHhccCChHHHHHHHH
Q 006997          284 LARRVFDAVLE---KSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNE----ATLATTLSACAELGSLSKGKEIEE  356 (622)
Q Consensus       284 ~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~  356 (622)
                      +|..+|+++.+   .+..+++.++..+...|++++|.+.++.+.+.+..+..    ..+..+...+...|++++|...++
T Consensus       125 ~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  204 (389)
T PRK11788        125 RAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLK  204 (389)
T ss_pred             HHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            66665555543   23445555666666666666666666666554322211    123344445555666666666666


Q ss_pred             HHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC--CC--hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC
Q 006997          357 YIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD--KD--LAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP  432 (622)
Q Consensus       357 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p  432 (622)
                      ++.+.. +.+...+..+...|.+.|++++|.+.|+++..  |+  ..+++.++.+|...|++++|...++++.+   ..|
T Consensus       205 ~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~---~~p  280 (389)
T PRK11788        205 KALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALE---EYP  280 (389)
T ss_pred             HHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCC
Confidence            665543 23344555556666666666666666666553  22  23455566666666666666666666665   345


Q ss_pred             CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh---cCChHHHHHHHHhCC
Q 006997          433 DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGR---AGRFDLALKTIHEMP  497 (622)
Q Consensus       433 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~  497 (622)
                      +...+..++..+.+.|++++|..+++++.+.   .|+...++.++..+..   .|+.++++.+++++.
T Consensus       281 ~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~---~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~  345 (389)
T PRK11788        281 GADLLLALAQLLEEQEGPEAAQALLREQLRR---HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLV  345 (389)
T ss_pred             CchHHHHHHHHHHHhCCHHHHHHHHHHHHHh---CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHH
Confidence            5555555666666666666666666666533   5665566655555443   345666666666553

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.84  E-value=2.3e-16  Score=163.93  Aligned_cols=437  Identities=10%  Similarity=0.004  Sum_probs=279.1

Q ss_pred             hhccCChhhHHHHHHHHHHhcCCCCc--hhHHHHHHHhhcCCChhHHHHHhccCCCCCCCc-chHHHH--HHHHHhCCCc
Q 006997           40 CANINSIWDGKRVHSHVLKVGFQQDA--FVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSV-VSWNSI--ISAHSRACLN  114 (622)
Q Consensus        40 ~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~l--i~~~~~~~~~  114 (622)
                      ..+.|++..|...|+++.+..  |+.  .++ .++..+...|+.++|+..+++..  .|+. ..+..+  ...+...|++
T Consensus        44 ~~r~Gd~~~Al~~L~qaL~~~--P~~~~av~-dll~l~~~~G~~~~A~~~~eka~--~p~n~~~~~llalA~ly~~~gdy  118 (822)
T PRK14574         44 RARAGDTAPVLDYLQEESKAG--PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQ--SSMNISSRGLASAARAYRNEKRW  118 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhhC--ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhc--cCCCCCHHHHHHHHHHHHHcCCH
Confidence            346677777777777777664  332  233 66677777777777777777776  3432 233333  3456666777


Q ss_pred             hHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCC-
Q 006997          115 DEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGE-  193 (622)
Q Consensus       115 ~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  193 (622)
                      ++|+++|+++.+.  .|+                               ++.++..++..|...++.++|++.++++.. 
T Consensus       119 d~Aiely~kaL~~--dP~-------------------------------n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~  165 (822)
T PRK14574        119 DQALALWQSSLKK--DPT-------------------------------NPDLISGMIMTQADAGRGGVVLKQATELAER  165 (822)
T ss_pred             HHHHHHHHHHHhh--CCC-------------------------------CHHHHHHHHHHHhhcCCHHHHHHHHHHhccc
Confidence            7777777777663  232                               555566667777777777777777777765 


Q ss_pred             -CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHH
Q 006997          194 -TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLL  272 (622)
Q Consensus       194 -~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  272 (622)
                       |+...+..++..+...++..+|++.++++.+.. +-+...+..+.....+.|-...|.++..+      .|+..+-...
T Consensus       166 dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~------~p~~f~~~~~  238 (822)
T PRK14574        166 DPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKE------NPNLVSAEHY  238 (822)
T ss_pred             CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHh------CccccCHHHH
Confidence             332333223233333445545777777776652 22344555666666666666666655443      2221111110


Q ss_pred             HHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcC---ChHHHHHHHHHHHhC-CCCCCHH-----HHHHHHHHHh
Q 006997          273 VSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLG---YPSEAVNLFKRLLKT-SVRPNEA-----TLATTLSACA  343 (622)
Q Consensus       273 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~m~~~-~~~~~~~-----~~~~ll~~~~  343 (622)
                      ..     =+.+.|.+..+....++.          ....   -.+.|+.-++.+... +..|...     ...-.+-++.
T Consensus       239 ~~-----l~~~~~a~~vr~a~~~~~----------~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~  303 (822)
T PRK14574        239 RQ-----LERDAAAEQVRMAVLPTR----------SETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALL  303 (822)
T ss_pred             HH-----HHHHHHHHHHhhcccccc----------cchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHH
Confidence            00     011122222211111100          0011   234555556665542 1123221     2223455677


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCC---------ChhHHHHHHHHHHHcCCH
Q 006997          344 ELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDK---------DLAVWSAMINGYAIHGMG  414 (622)
Q Consensus       344 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~  414 (622)
                      ..++..++.+.++.+...+.+....+-.++.++|...+++++|..+|..+..+         +......|.-+|...+++
T Consensus       304 ~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~  383 (822)
T PRK14574        304 VRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQL  383 (822)
T ss_pred             HhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccH
Confidence            78888888888888888876666677888888999999999999998877532         222346678888899999


Q ss_pred             HHHHHHHHHhHHhcCC-----------CCC--H-HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHH
Q 006997          415 DQALNLFYKMQHVEGL-----------KPD--A-VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLL  480 (622)
Q Consensus       415 ~~a~~~~~~~~~~~~~-----------~p~--~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  480 (622)
                      ++|..+++++.+ ..-           .||  - ..+..++..+...|+..+|++.++++...  -+-|......+.+.+
T Consensus       384 ~~A~~~l~~~~~-~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~--aP~n~~l~~~~A~v~  460 (822)
T PRK14574        384 DKAYQFAVNYSE-QTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSST--APANQNLRIALASIY  460 (822)
T ss_pred             HHHHHHHHHHHh-cCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            999999999886 211           122  2 23455667788999999999999999854  244788899999999


Q ss_pred             HhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchH
Q 006997          481 GRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNY  539 (622)
Q Consensus       481 ~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  539 (622)
                      ...|++.+|++.++.+. ..|+ .......+.++...+++.+|..+.+++++..|+++.+.
T Consensus       461 ~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~~~~  521 (822)
T PRK14574        461 LARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISRSPEDIPSQ  521 (822)
T ss_pred             HhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCCchhHH
Confidence            99999999999998876 4555 55677788888899999999999999999999988654

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.83  E-value=7e-16  Score=160.31  Aligned_cols=195  Identities=14%  Similarity=0.094  Sum_probs=158.9

Q ss_pred             HHHHHHhcCChHHHHHHhccCCCCC----hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcC----CCCCHHHHHHHHHHH
Q 006997          373 LIHMFSKCGRINKAKEVFERVPDKD----LAVWSAMINGYAIHGMGDQALNLFYKMQHVEG----LKPDAVVYTSILSAC  444 (622)
Q Consensus       373 l~~~~~~~~~~~~A~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~p~~~~~~~ll~~~  444 (622)
                      .+-++...|++.++++.|+.+..+.    ..+-..+.++|...+++++|+.+++.+....+    ..++......|.-++
T Consensus       298 rl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~  377 (822)
T PRK14574        298 RLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSL  377 (822)
T ss_pred             HHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHH
Confidence            3456778999999999999998532    23556688999999999999999999876221    122334457889999


Q ss_pred             hccCchHHHHHHHHHhHHhcC----------CCCC---hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHH
Q 006997          445 SHSGMVDDGLSFFKSMQSNFG----------IEPS---IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLL  509 (622)
Q Consensus       445 ~~~g~~~~a~~~~~~~~~~~~----------~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~  509 (622)
                      ...+++++|..+++.+.+...          -.|+   ...+..++..+...|+..+|++.++++.  .+-|...+..+.
T Consensus       378 ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A  457 (822)
T PRK14574        378 NESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALA  457 (822)
T ss_pred             HhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            999999999999999986311          0122   2334456788899999999999999987  455688889999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          510 SACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       510 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ..+...|.+.+|++.++.+..++|++..+....+.++...|+|++|..+.+++.+..+
T Consensus       458 ~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~P  515 (822)
T PRK14574        458 SIYLARDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISRSP  515 (822)
T ss_pred             HHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCC
Confidence            9999999999999999999999999999999999999999999999999988866433

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.83  E-value=1.6e-15  Score=136.79  Aligned_cols=432  Identities=13%  Similarity=0.112  Sum_probs=277.9

Q ss_pred             hcCCchhHHHHHHHHHhCCCCCCcccHHHHHHHhh--ccCChhhH-HHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhH
Q 006997            7 NNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACA--NINSIWDG-KRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVS   83 (622)
Q Consensus         7 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~--~~~~~~~a-~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   83 (622)
                      .+|..+++.-+|+.|.+.|+..++..-..|++.-+  ...++.-+ ++.|-.|...| +.+..+|        +.|++.+
T Consensus       127 S~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~-E~S~~sW--------K~G~vAd  197 (625)
T KOG4422|consen  127 SSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFG-EDSTSSW--------KSGAVAD  197 (625)
T ss_pred             hhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccc-ccccccc--------ccccHHH
Confidence            45667777777777777777766666555554333  22233322 23344444444 2233333        3344443


Q ss_pred             HHHHhccCCCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCC
Q 006997           84 SRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNN  163 (622)
Q Consensus        84 A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~  163 (622)
                         ++-+..  +....+|..||.++++-...+.|.++|++-.....+.+..+||.+|.+..+...+++..+|+.....| 
T Consensus       198 ---L~~E~~--PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~K~Lv~EMisqkm~P-  271 (625)
T KOG4422|consen  198 ---LLFETL--PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVGKKLVAEMISQKMTP-  271 (625)
T ss_pred             ---HHHhhc--CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhccHHHHHHHHHhhcCC-
Confidence               344444  46778999999999999999999999999999888999999999999888777788888888888888 


Q ss_pred             ChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhc
Q 006997          164 EIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQ  243 (622)
Q Consensus       164 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  243 (622)
                      |..++|+++....+.|+++.|.                           ..|++++.+|++-|+.|...+|..+|..+++
T Consensus       272 nl~TfNalL~c~akfg~F~~ar---------------------------~aalqil~EmKeiGVePsLsSyh~iik~f~r  324 (625)
T KOG4422|consen  272 NLFTFNALLSCAAKFGKFEDAR---------------------------KAALQILGEMKEIGVEPSLSSYHLIIKNFKR  324 (625)
T ss_pred             chHhHHHHHHHHHHhcchHHHH---------------------------HHHHHHHHHHHHhCCCcchhhHHHHHHHhcc
Confidence            7777777777777777776663                           3456677788888888888888888888877


Q ss_pred             cCChHH-HHHHHHHHHH----hCCCC----CchhHHHHHHHHHhcCCHHHHHHHHhhcCCC-----------CHHHHHHH
Q 006997          244 VGNLFL-ALSMHSLLLK----SGYNN----EDPLDNLLVSMYTKCGDLELARRVFDAVLEK-----------SVFLWTSM  303 (622)
Q Consensus       244 ~~~~~~-a~~~~~~~~~----~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----------~~~~~~~l  303 (622)
                      .++..+ +..++.++..    ..++|    |...+..-+..|.+..+.+.|.++-.-+...           ...-|..+
T Consensus       325 e~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~  404 (625)
T KOG4422|consen  325 ESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKF  404 (625)
T ss_pred             cCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHH
Confidence            776644 3444444433    22222    3344556667777777777777665544221           12345667


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCh
Q 006997          304 IGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRI  383 (622)
Q Consensus       304 ~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  383 (622)
                      ....|+....+.-+..|+.|.-.-+-|+..+...++++....+.++-..++|..++..|...+.....-++..+++.+  
T Consensus       405 ~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k--  482 (625)
T KOG4422|consen  405 FDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDK--  482 (625)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCC--
Confidence            777888888999999999999888889999999999999999999999999999988875544433333333333221  


Q ss_pred             HHHHHHhccCCCCChh---HHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHh
Q 006997          384 NKAKEVFERVPDKDLA---VWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSM  460 (622)
Q Consensus       384 ~~A~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  460 (622)
                                ..|+..   -+.....-++ ..-.+.....-.++.+   ..-.....+.++-.+.+.|..++|.+++..+
T Consensus       483 ----------~hp~tp~r~Ql~~~~ak~a-ad~~e~~e~~~~R~r~---~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~  548 (625)
T KOG4422|consen  483 ----------LHPLTPEREQLQVAFAKCA-ADIKEAYESQPIRQRA---QDWPATSLNCIAILLLRAGRTQKAWEMLGLF  548 (625)
T ss_pred             ----------CCCCChHHHHHHHHHHHHH-HHHHHHHHhhHHHHHh---ccCChhHHHHHHHHHHHcchHHHHHHHHHHH
Confidence                      012211   1111111110 1111112222233333   3333455666667777888888888888887


Q ss_pred             HHhcCCCCChhHHHHH---HHHHHhcCChHHHHHHHHhC
Q 006997          461 QSNFGIEPSIEHYLCL---VDLLGRAGRFDLALKTIHEM  496 (622)
Q Consensus       461 ~~~~~~~p~~~~~~~l---~~~~~~~g~~~~A~~~~~~~  496 (622)
                      .++++--|-....+++   ++.-.+.++.-.|...++-+
T Consensus       549 ~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a  587 (625)
T KOG4422|consen  549 LRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLA  587 (625)
T ss_pred             HhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            6654545555555543   34444555566666666555

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

Probab=99.81  E-value=1e-13  Score=132.01  Aligned_cols=443  Identities=14%  Similarity=0.103  Sum_probs=340.1

Q ss_pred             HHHHHHHHHHHcCCCCChh-hHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCC-
Q 006997          116 EAILVLKEMWVLGLELSAS-TFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGE-  193 (622)
Q Consensus       116 ~A~~~~~~m~~~~~~p~~~-t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  193 (622)
                      .=.++++..++.  .|++. .|-..+..-....++-++....+.-...      .-|--+|.+..-++.|.++++...+ 
T Consensus       364 ~K~RVlRKALe~--iP~sv~LWKaAVelE~~~darilL~rAveccp~s------~dLwlAlarLetYenAkkvLNkaRe~  435 (913)
T KOG0495|consen  364 NKKRVLRKALEH--IPRSVRLWKAAVELEEPEDARILLERAVECCPQS------MDLWLALARLETYENAKKVLNKAREI  435 (913)
T ss_pred             HHHHHHHHHHHh--CCchHHHHHHHHhccChHHHHHHHHHHHHhccch------HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            334555555553  34433 3333332222455777777776654333      4455667777788889988887765 


Q ss_pred             --CCcchHHHHHHHHHcCCChhHHHHHHHH----HHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCC--
Q 006997          194 --TSIVSWTTIIGGYVNVGNVNEAFGLCNQ----MRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNE--  265 (622)
Q Consensus       194 --~~~~~~~~li~~~~~~~~~~~a~~~~~~----m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--  265 (622)
                        .+...|-+-...--.+|+.+...+++.+    +...|+..+..-|..=...|-..|..-.+..+....+..|+...  
T Consensus       436 iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~  515 (913)
T KOG0495|consen  436 IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDR  515 (913)
T ss_pred             CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchh
Confidence              4666777766667778898888887765    45568888988888888899999999999999999988886543  


Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 006997          266 DPLDNLLVSMYTKCGDLELARRVFDAVLEK---SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSAC  342 (622)
Q Consensus       266 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~  342 (622)
                      ..+|..-...|.+.+.++-|..+|....+-   +...|...+..--..|..+....+|++....- +-....|......+
T Consensus       516 ~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~  594 (913)
T KOG0495|consen  516 KSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEK  594 (913)
T ss_pred             HhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHH
Confidence            457788888899999999999999887643   55778887777777899999999999998863 23444555555666


Q ss_pred             hccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC--CChhHHHHHHHHHHHcCCHHHHHHH
Q 006997          343 AELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD--KDLAVWSAMINGYAIHGMGDQALNL  420 (622)
Q Consensus       343 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~  420 (622)
                      -..|+...|..++..+.+.. +.+..++-+-+.......+++.|..+|.+...  ++...|..-+...-..++.++|+++
T Consensus       595 w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rl  673 (913)
T KOG0495|consen  595 WKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRL  673 (913)
T ss_pred             HhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHH
Confidence            77899999999999998876 45788888889999999999999999988764  6667777777777778899999999


Q ss_pred             HHHhHHhcCCCCCH-HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--
Q 006997          421 FYKMQHVEGLKPDA-VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--  497 (622)
Q Consensus       421 ~~~~~~~~~~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--  497 (622)
                      +++..+   ..|+. ..|..+.+.+-+.++.+.|...|..-.+  ..+..+..|-.|.+.=.+.|++-.|..++++..  
T Consensus       674 lEe~lk---~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k--~cP~~ipLWllLakleEk~~~~~rAR~ildrarlk  748 (913)
T KOG0495|consen  674 LEEALK---SFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK--KCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLK  748 (913)
T ss_pred             HHHHHH---hCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc--cCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhc
Confidence            999888   77885 5678888899999999999999987663  234457778888888888999999999999876  


Q ss_pred             CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC------------------------------CCchHHHHHHHHH
Q 006997          498 VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG------------------------------STGNYILMANLFT  547 (622)
Q Consensus       498 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~------------------------------~~~~~~~l~~~~~  547 (622)
                      .+.+...|...+..-.+.|+.+.|..+..++++-.|+                              |+.+....+.++.
T Consensus       749 NPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw  828 (913)
T KOG0495|consen  749 NPKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFW  828 (913)
T ss_pred             CCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHH
Confidence            5556788999999999999999999999888876665                              3567778888888


Q ss_pred             hcCChHHHHHHHHHhhhCCCccCCCceE
Q 006997          548 SAGMWKEAATARGLMDDRRLTKEPGWSQ  575 (622)
Q Consensus       548 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~  575 (622)
                      ...++++|++.|.+..+.+.  +.|-.|
T Consensus       829 ~e~k~~kar~Wf~Ravk~d~--d~GD~w  854 (913)
T KOG0495|consen  829 SEKKIEKAREWFERAVKKDP--DNGDAW  854 (913)
T ss_pred             HHHHHHHHHHHHHHHHccCC--ccchHH
Confidence            89999999999998887554  344444

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

Probab=99.79  E-value=2.5e-14  Score=141.36  Aligned_cols=557  Identities=12%  Similarity=0.089  Sum_probs=347.6

Q ss_pred             cCCchhHHHHHHHHHhCCCCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHH
Q 006997            8 NGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKV   87 (622)
Q Consensus         8 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~   87 (622)
                      .|+.++|.+++.+.++.. +.+...|.+|...|-..|+.+.+...+-.+.... +.|...|-.+.......|.++.|.-.
T Consensus       152 rg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~~c  229 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQARYC  229 (895)
T ss_pred             hCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHHHH
Confidence            499999999999999864 3356689999999999999998877665544443 56778899999999999999999999


Q ss_pred             hccCCCC-CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhh--------hhhhHHHHHHHHHh
Q 006997           88 LDEMPVR-LRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCS--------FRQGISMHCCVYKL  158 (622)
Q Consensus        88 ~~~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~--------~~~~~~~~~~~~~~  158 (622)
                      |.+..+. +++...+---+..|-+.|+...|.+.|.++.+.....|..-+..++....        .+.+.+.+......
T Consensus       230 y~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~  309 (895)
T KOG2076|consen  230 YSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSK  309 (895)
T ss_pred             HHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhh
Confidence            9998865 45544455556778899999999999999988654334444444444433        34444555555443


Q ss_pred             CCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCC----C----------------------CcchHH----HHHHHHHc
Q 006997          159 GLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGE----T----------------------SIVSWT----TIIGGYVN  208 (622)
Q Consensus       159 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~----------------------~~~~~~----~li~~~~~  208 (622)
                      +....+...++.++..|.+...++.|.........    +                      +..+|+    -++-++.+
T Consensus       310 ~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~  389 (895)
T KOG2076|consen  310 EKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVH  389 (895)
T ss_pred             ccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhc
Confidence            33333566677888888888888888777654432    1                      111121    22233444


Q ss_pred             CCChhHHHHHHHHHHHCCC--CCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHH
Q 006997          209 VGNVNEAFGLCNQMRRMSV--TPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELAR  286 (622)
Q Consensus       209 ~~~~~~a~~~~~~m~~~~~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  286 (622)
                      .+..+....+.....+..+  .-+...|..+..++...|.+.+|..++..+.......+..+|-.+..+|...|..+.|.
T Consensus       390 L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~  469 (895)
T KOG2076|consen  390 LKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAI  469 (895)
T ss_pred             ccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHH
Confidence            4444444445555555553  33456788888889999999999999998888765666778888888999999999999


Q ss_pred             HHHhhcCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHh--------CCCCCCHHHHHHHHHHHhccCChHHHHHHH
Q 006997          287 RVFDAVLEK---SVFLWTSMIGGYAQLGYPSEAVNLFKRLLK--------TSVRPNEATLATTLSACAELGSLSKGKEIE  355 (622)
Q Consensus       287 ~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~--------~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  355 (622)
                      +.|..+...   +....-.|...+.+.|+.++|.+.+..+..        .+..|+..........+...|+.++-..+.
T Consensus       470 e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t~  549 (895)
T KOG2076|consen  470 EFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINTA  549 (895)
T ss_pred             HHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            998887543   345555667778888999999988888642        223444444555556677778877765555


Q ss_pred             HHHHHcC-----CCC-----------------chhHHHHHHHHHHhcCChHHHHHHhccCC--------C---CCh-hHH
Q 006997          356 EYIVLNG-----LES-----------------NRQVQTSLIHMFSKCGRINKAKEVFERVP--------D---KDL-AVW  401 (622)
Q Consensus       356 ~~~~~~~-----~~~-----------------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--------~---~~~-~~~  401 (622)
                      ..++...     +-|                 .......++.+-.+.++.....+-...-.        .   .|. ..+
T Consensus       550 ~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsiddwfel~  629 (895)
T KOG2076|consen  550 STLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDDWFELF  629 (895)
T ss_pred             HHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHHHHHHH
Confidence            5444211     001                 11111122222222222221111111110        0   011 133


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHH---H-HHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC---hhHHH
Q 006997          402 SAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAV---V-YTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS---IEHYL  474 (622)
Q Consensus       402 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~---~-~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~  474 (622)
                      .-++.++++.+++++|+.+...+....-+.-+..   . -...+.++...+++..|...++.+...++...+   ...|+
T Consensus       630 ~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~~~q~~l~n  709 (895)
T KOG2076|consen  630 RELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLDVYQLNLWN  709 (895)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhhHHHHHHH
Confidence            4566678888999999999888876222222332   2 234455677888999999888888765443332   23344


Q ss_pred             HHHHHHHh-----------------------------------cCChHHHHHHHHhCC-CCCcHHhHHH-HHHHHH----
Q 006997          475 CLVDLLGR-----------------------------------AGRFDLALKTIHEMP-VEVQAQVWAP-LLSACM----  513 (622)
Q Consensus       475 ~l~~~~~~-----------------------------------~g~~~~A~~~~~~~~-~~~~~~~~~~-l~~~~~----  513 (622)
                      ...+.+.+                                   ++.+.-|+..+-++- ..|+.+..+- ++.++.    
T Consensus       710 ~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~~pd~Pl~nl~lglafih~a~  789 (895)
T KOG2076|consen  710 LDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQNPDSPLINLCLGLAFIHLAL  789 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHH
Confidence            22232222                                   344455555443332 2333222222 111111    


Q ss_pred             ------hcCCHHHHHHHHHHHHccCC--CCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          514 ------KHHNVELGEYAAKNLLTLNP--GSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       514 ------~~~~~~~a~~~~~~~~~~~p--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                            ++-..-.+...+++..++.-  +.-.+++++|.+|-..|-..-|..+|++++.-.
T Consensus       790 qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~~~  850 (895)
T KOG2076|consen  790 QRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLEVS  850 (895)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhCCC
Confidence                  11123344444444444322  245688999999999999999999999998754

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

Probab=99.78  E-value=3e-16  Score=142.49  Aligned_cols=483  Identities=12%  Similarity=0.107  Sum_probs=305.0

Q ss_pred             chhhcCCchhHHHHHHHHHhCCCCCCcccHHH-HHHHhhccCChhhHHHHHHHHHHhcCCCC----chhHHHHHHHhhcC
Q 006997            4 NSTNNGSFEETLSTYSSMLQTGVHGNSFTFPL-VLKACANINSIWDGKRVHSHVLKVGFQQD----AFVQTGLIDMYSKC   78 (622)
Q Consensus         4 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~   78 (622)
                      -|..+....+|+..|+-+.+....|+...... +.+.+.+.+++..|...+...+..-...+    ..+.+.+.-.+.+.
T Consensus       210 qy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtfiq~  289 (840)
T KOG2003|consen  210 QYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTFIQA  289 (840)
T ss_pred             HhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeEEec
Confidence            45566777788888888888777777765443 33566777788888888887776531112    23455555567788


Q ss_pred             CChhHHHHHhccCCCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHh
Q 006997           79 SDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKL  158 (622)
Q Consensus        79 ~~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~  158 (622)
                      |++++|+.-|+...+..||..+--.|+-++..-|+.++..+.|..|...-..||...|.                   +.
T Consensus       290 gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi-------------------~~  350 (840)
T KOG2003|consen  290 GQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYI-------------------KE  350 (840)
T ss_pred             ccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCccccc-------------------CC
Confidence            99999999988877666776655455555566788888888888888766666655440                   00


Q ss_pred             CCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHh-HHHHH
Q 006997          159 GLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLV-VFLNL  237 (622)
Q Consensus       159 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~l  237 (622)
                      .-+| +    ..|+.--.+...+       +.|...+             ..+.++++-.-.++..--+.||-. -|...
T Consensus       351 ~ddp-~----~~ll~eai~nd~l-------k~~ek~~-------------ka~aek~i~ta~kiiapvi~~~fa~g~dwc  405 (840)
T KOG2003|consen  351 KDDP-D----DNLLNEAIKNDHL-------KNMEKEN-------------KADAEKAIITAAKIIAPVIAPDFAAGCDWC  405 (840)
T ss_pred             cCCc-c----hHHHHHHHhhHHH-------HHHHHhh-------------hhhHHHHHHHHHHHhccccccchhcccHHH
Confidence            0111 1    1111111111111       1111000             011122222222222222233311 11111


Q ss_pred             HHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHH----HHHH-HHHh-cC
Q 006997          238 ILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWT----SMIG-GYAQ-LG  311 (622)
Q Consensus       238 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~l~~-~~~~-~~  311 (622)
                      +...-.....+.|..+  +|             .-..-|.+.|+++.|.++++-..+.|..+-+    .|-. -|.+ ..
T Consensus       406 le~lk~s~~~~la~dl--ei-------------~ka~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk  470 (840)
T KOG2003|consen  406 LESLKASQHAELAIDL--EI-------------NKAGELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGK  470 (840)
T ss_pred             HHHHHHhhhhhhhhhh--hh-------------hHHHHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhccc
Confidence            1111111111111111  00             1122366778888887777766655433222    2211 1222 23


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhc
Q 006997          312 YPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFE  391 (622)
Q Consensus       312 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  391 (622)
                      ++..|.+.-....... +-+......-.......|++++|.+.++++...+-.-....|| +.-.+-..|++++|++.|-
T Consensus       471 ~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~  548 (840)
T KOG2003|consen  471 DFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFL  548 (840)
T ss_pred             chhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHH
Confidence            4566665555444322 2233333333334456788999999998887765333333333 4445677899999999997


Q ss_pred             cCC---CCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCC
Q 006997          392 RVP---DKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIE  467 (622)
Q Consensus       392 ~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  467 (622)
                      ++.   ..+....-.+...|-...++.+|++++-+...   +-| |+....-+...|-+.|+-.+|.+.+-+--+  -++
T Consensus       549 klh~il~nn~evl~qianiye~led~aqaie~~~q~~s---lip~dp~ilskl~dlydqegdksqafq~~ydsyr--yfp  623 (840)
T KOG2003|consen  549 KLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANS---LIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR--YFP  623 (840)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc---cCCCCHHHHHHHHHHhhcccchhhhhhhhhhccc--ccC
Confidence            765   35666777778888889999999999988875   555 578889999999999999999998765442  345


Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCcHHhHHHHHHHH-HhcCCHHHHHHHHHHHHccCCCCCchHHHHHHH
Q 006997          468 PSIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQAQVWAPLLSAC-MKHHNVELGEYAAKNLLTLNPGSTGNYILMANL  545 (622)
Q Consensus       468 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  545 (622)
                      .+.++..-|..-|....-+++|+.+|++.. ..|+..-|..++..| ++.|++++|..+|+......|++...+..|..+
T Consensus       624 ~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri  703 (840)
T KOG2003|consen  624 CNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRI  703 (840)
T ss_pred             cchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHH
Confidence            588898889999999999999999999987 899999999888776 468999999999999999999999999999999


Q ss_pred             HHhcCCh
Q 006997          546 FTSAGMW  552 (622)
Q Consensus       546 ~~~~g~~  552 (622)
                      ....|-.
T Consensus       704 ~~dlgl~  710 (840)
T KOG2003|consen  704 AGDLGLK  710 (840)
T ss_pred             hccccch
Confidence            8887753

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

Probab=99.76  E-value=2e-15  Score=137.13  Aligned_cols=257  Identities=16%  Similarity=0.131  Sum_probs=193.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH--HHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCC
Q 006997          305 GGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATT--LSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGR  382 (622)
Q Consensus       305 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l--l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  382 (622)
                      ..|.++|+++.|+++++-+.+..-+.-...-+.|  +..+..-.++..|.++-+.+...+ ..++.....-...-...|+
T Consensus       427 ~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd  505 (840)
T KOG2003|consen  427 GELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGD  505 (840)
T ss_pred             HHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCc
Confidence            4578999999999999988775433333333322  222223446777777777665443 2233332222333345799


Q ss_pred             hHHHHHHhccCCCCChhHHHHHHH---HHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHH
Q 006997          383 INKAKEVFERVPDKDLAVWSAMIN---GYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKS  459 (622)
Q Consensus       383 ~~~A~~~~~~~~~~~~~~~~~l~~---~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  459 (622)
                      +++|.+.|.+....|...-.++..   .+-..|+.++|+..|-++..  -+..+......+.+.|....+..+|++++.+
T Consensus       506 ~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~--il~nn~evl~qianiye~led~aqaie~~~q  583 (840)
T KOG2003|consen  506 LDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHA--ILLNNAEVLVQIANIYELLEDPAQAIELLMQ  583 (840)
T ss_pred             HHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHH--HHHhhHHHHHHHHHHHHHhhCHHHHHHHHHH
Confidence            999999999999877765554443   46678999999999998875  1334567788899999999999999999988


Q ss_pred             hHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC-C-CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCc
Q 006997          460 MQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEM-P-VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTG  537 (622)
Q Consensus       460 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  537 (622)
                      ..+  -++.|+.+.+.|.+.|-+.|+...|.+..-.- . ++-+..+..=|...|....-.++|+..|+++.-+.|+...
T Consensus       584 ~~s--lip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~k  661 (840)
T KOG2003|consen  584 ANS--LIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSK  661 (840)
T ss_pred             hcc--cCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHH
Confidence            874  24457899999999999999999999886543 3 4556666666777788888889999999999999998888


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          538 NYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       538 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      ....++.++.+.|++.+|.++|+.+.++-
T Consensus       662 wqlmiasc~rrsgnyqka~d~yk~~hrkf  690 (840)
T KOG2003|consen  662 WQLMIASCFRRSGNYQKAFDLYKDIHRKF  690 (840)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHhC
Confidence            88888999999999999999999987653

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

Probab=99.76  E-value=1.7e-12  Score=123.80  Aligned_cols=368  Identities=10%  Similarity=0.054  Sum_probs=298.1

Q ss_pred             chHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHH
Q 006997          197 VSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMY  276 (622)
Q Consensus       197 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  276 (622)
                      .+|+.-...|.+.+.++-|..+|....+. .+-+...|......--..|..+....+++++...- +.....|-.....+
T Consensus       517 ~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~  594 (913)
T KOG0495|consen  517 STWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEK  594 (913)
T ss_pred             hHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHH
Confidence            57888888888889999999998887764 23344556556555566788899999999888773 56666777777888


Q ss_pred             HhcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHH
Q 006997          277 TKCGDLELARRVFDAVLE---KSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKE  353 (622)
Q Consensus       277 ~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  353 (622)
                      ...|+...|..++....+   .+...|-+-+.....+.+++.|..+|.+....  .|+...|..-+..---.++.++|.+
T Consensus       595 w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~r  672 (913)
T KOG0495|consen  595 WKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALR  672 (913)
T ss_pred             HhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHH
Confidence            889999999999887743   35678888888899999999999999988764  5677777666666666789999999


Q ss_pred             HHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC--C-ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCC
Q 006997          354 IEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD--K-DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGL  430 (622)
Q Consensus       354 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  430 (622)
                      ++++..+.- +.-...|..+.+.+-+.++++.|.+.|..-.+  | .+..|-.+...--+.|+.-.|..++++..-  ..
T Consensus       673 llEe~lk~f-p~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarl--kN  749 (913)
T KOG0495|consen  673 LLEEALKSF-PDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARL--KN  749 (913)
T ss_pred             HHHHHHHhC-CchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHh--cC
Confidence            998888763 55667888899999999999999999987664  3 456788888888888999999999999886  22


Q ss_pred             CCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHH
Q 006997          431 KPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLS  510 (622)
Q Consensus       431 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~  510 (622)
                      +-|...|...++.-.+.|+.+.|..+..++.++  .+.+...|..-|.+..+.++-....+.+++..  .|+..+.....
T Consensus       750 Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe--cp~sg~LWaEaI~le~~~~rkTks~DALkkce--~dphVllaia~  825 (913)
T KOG0495|consen  750 PKNALLWLESIRMELRAGNKEQAELLMAKALQE--CPSSGLLWAEAIWLEPRPQRKTKSIDALKKCE--HDPHVLLAIAK  825 (913)
T ss_pred             CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccchhHHHHHHhccCcccchHHHHHHHhcc--CCchhHHHHHH
Confidence            335678999999999999999999999999875  35567788888888888888888888888774  45566667777


Q ss_pred             HHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCccCCCceEEE
Q 006997          511 ACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVE  577 (622)
Q Consensus       511 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~  577 (622)
                      .+....+++.|.+-|.+++..+|++.++|..+-..+.+.|.-++-.+++.+....  .+.-|..|..
T Consensus       826 lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~--EP~hG~~W~a  890 (913)
T KOG0495|consen  826 LFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETA--EPTHGELWQA  890 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCCCcHHHH
Confidence            7788889999999999999999999999999999999999999999999988764  3445556644

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.74  E-value=8.6e-14  Score=125.84  Aligned_cols=320  Identities=13%  Similarity=0.088  Sum_probs=212.4

Q ss_pred             CcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhh-------hhhhHHHHHHHHHhCCCCCChhhHh
Q 006997           97 SVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCS-------FRQGISMHCCVYKLGLLNNEIPLAN  169 (622)
Q Consensus        97 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~  169 (622)
                      .+.+=|.|+.. ..+|..+++.-+|+.|.+.|+..+...-..++....       .-.-.+.|-.+.+.|-..  ..+| 
T Consensus       115 ~V~~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S--~~sW-  190 (625)
T KOG4422|consen  115 QVETENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDS--TSSW-  190 (625)
T ss_pred             hhcchhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccc--cccc-
Confidence            45566777664 557899999999999999998888877777776655       111122333333333222  2222 


Q ss_pred             HHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHH
Q 006997          170 SVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFL  249 (622)
Q Consensus       170 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  249 (622)
                             +.|.+.+   ++-+...+...+|.+||.++++--..+.|.+++++......+.+..+||.+|.+..-.    .
T Consensus       191 -------K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~  256 (625)
T KOG4422|consen  191 -------KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----V  256 (625)
T ss_pred             -------ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----c
Confidence                   3444433   5555555677899999999999999999999999999888899999999998876433    3


Q ss_pred             HHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 006997          250 ALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVR  329 (622)
Q Consensus       250 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~  329 (622)
                      ..+++.+|....+.||..|+|+++.+..+.|+++.|.+                           .|++++.+|++.|+.
T Consensus       257 ~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~---------------------------aalqil~EmKeiGVe  309 (625)
T KOG4422|consen  257 GKKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARK---------------------------AALQILGEMKEIGVE  309 (625)
T ss_pred             cHHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHH---------------------------HHHHHHHHHHHhCCC
Confidence            38889999999999999999999999999998877653                           345566666666666


Q ss_pred             CCHHHHHHHHHHHhccCChHHH-HHHHHHHHH----cCC----CCchhHHHHHHHHHHhcCChHHHHHHhccCCC-----
Q 006997          330 PNEATLATTLSACAELGSLSKG-KEIEEYIVL----NGL----ESNRQVQTSLIHMFSKCGRINKAKEVFERVPD-----  395 (622)
Q Consensus       330 ~~~~~~~~ll~~~~~~~~~~~a-~~~~~~~~~----~~~----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----  395 (622)
                      |...+|..+|..+++.++..+. ..+..++..    ..+    +.+...+..-+..+.+..+.+-|.++-.-+..     
T Consensus       310 PsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~  389 (625)
T KOG4422|consen  310 PSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWK  389 (625)
T ss_pred             cchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchh
Confidence            6666666666666665554332 222222221    111    12334445555555566666655555443331     


Q ss_pred             ---C---ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHH
Q 006997          396 ---K---DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQS  462 (622)
Q Consensus       396 ---~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  462 (622)
                         +   ...-|..+....|+....+.-...|+.|.- .-+-|+..+...++++....|.++-.-++|..++.
T Consensus       390 ~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP-~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~  461 (625)
T KOG4422|consen  390 FIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVP-SAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKE  461 (625)
T ss_pred             hcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-ceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHH
Confidence               1   112344555666677777777777777776 66667777777777777777777777777766663

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

Probab=99.74  E-value=2e-14  Score=142.07  Aligned_cols=333  Identities=17%  Similarity=0.164  Sum_probs=235.9

Q ss_pred             HHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhc---CCCCHHHHHHHHHHHHhcCChH
Q 006997          238 ILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAV---LEKSVFLWTSMIGGYAQLGYPS  314 (622)
Q Consensus       238 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~  314 (622)
                      .+.....|++++|..++.++++.. +.....|.+|...|-..|+.+++...+-.+   ...|...|..+.....+.|.++
T Consensus       146 AN~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~  224 (895)
T KOG2076|consen  146 ANNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNIN  224 (895)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHH
Confidence            333344478888888888777775 666777777888888888888877765433   3446677887877778888888


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHH----HHHHHHhcCChHHHHHHh
Q 006997          315 EAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTS----LIHMFSKCGRINKAKEVF  390 (622)
Q Consensus       315 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~----l~~~~~~~~~~~~A~~~~  390 (622)
                      +|.-.|.+.++.. +++...+..-...|-+.|+...|...+.++.....+.+..-...    .++.|...++-+.|.+.+
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 QARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKAL  303 (895)
T ss_pred             HHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            8888888877764 33444445556667777888888888887777654434333332    344455566667777777


Q ss_pred             ccCCC-----CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC---------------------------CHHHHH
Q 006997          391 ERVPD-----KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP---------------------------DAVVYT  438 (622)
Q Consensus       391 ~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p---------------------------~~~~~~  438 (622)
                      +....     -+...++.++..|.+..+++.|......+.. ....+                           +... .
T Consensus       304 e~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~-r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~  381 (895)
T KOG2076|consen  304 EGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRN-RESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-I  381 (895)
T ss_pred             HHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhc-cccCCChhhhhhhhhccccccccccCCCCCCccchh-H
Confidence            66553     2345677778888888888888777766654 22222                           2212 1


Q ss_pred             HHHHHHhccCchHHHHHHHHHhHHhcCCCC--ChhHHHHHHHHHHhcCChHHHHHHHHhCCC-C--CcHHhHHHHHHHHH
Q 006997          439 SILSACSHSGMVDDGLSFFKSMQSNFGIEP--SIEHYLCLVDLLGRAGRFDLALKTIHEMPV-E--VQAQVWAPLLSACM  513 (622)
Q Consensus       439 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~--~~~~~~~~l~~~~~  513 (622)
                      .+.-++.+....+....+..-.... .+.|  +...|.-+.++|...|++.+|+.++..+.. +  .+...|..++.+|.
T Consensus       382 rl~icL~~L~~~e~~e~ll~~l~~~-n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~  460 (895)
T KOG2076|consen  382 RLMICLVHLKERELLEALLHFLVED-NVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYM  460 (895)
T ss_pred             hHhhhhhcccccchHHHHHHHHHHh-cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHH
Confidence            1222333333333333333333333 5444  578889999999999999999999999872 2  23668999999999


Q ss_pred             hcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCccCCCceE
Q 006997          514 KHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQ  575 (622)
Q Consensus       514 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  575 (622)
                      ..|..+.|.+.|++++.+.|++..+...|+.+|.++|+.++|.++++.+...+.+..+++.|
T Consensus       461 ~l~e~e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~  522 (895)
T KOG2076|consen  461 ELGEYEEAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAW  522 (895)
T ss_pred             HHhhHHHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccc
Confidence            99999999999999999999999999999999999999999999999998777666677666

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

Probab=99.73  E-value=3.8e-13  Score=123.29  Aligned_cols=459  Identities=14%  Similarity=0.112  Sum_probs=312.8

Q ss_pred             CCchhHHHHHHHhhcCCChhHHHHHhccCCCC-CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHh
Q 006997           63 QDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVR-LRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVS  141 (622)
Q Consensus        63 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~  141 (622)
                      .+...|-.....=..++++..|+++|+..... ..+...|--.+..-.++..+..|..++++....  -|..        
T Consensus        71 ~~~~~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRV--------  140 (677)
T KOG1915|consen   71 LNMQVWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRV--------  140 (677)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchH--------
Confidence            44455555555555677888999999987754 667777888888888999999999999988652  2322        


Q ss_pred             hhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCC--CCcchHHHHHHHHHcCCChhHHHHHH
Q 006997          142 GCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGE--TSIVSWTTIIGGYVNVGNVNEAFGLC  219 (622)
Q Consensus       142 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~  219 (622)
                                             ...|-..+.+=-..|++..|.++|++..+  |+..+|++.|..-.+.+.++.|..++
T Consensus       141 -----------------------dqlWyKY~ymEE~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IY  197 (677)
T KOG1915|consen  141 -----------------------DQLWYKYIYMEEMLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIY  197 (677)
T ss_pred             -----------------------HHHHHHHHHHHHHhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHH
Confidence                                   22233344444556888888888888765  88888888888888888888888888


Q ss_pred             HHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHh-C-CCCCchhHHHHHHHHHhcCCHHHHHHHHhhcC----
Q 006997          220 NQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKS-G-YNNEDPLDNLLVSMYTKCGDLELARRVFDAVL----  293 (622)
Q Consensus       220 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----  293 (622)
                      +..+-  +.|+..+|.-....-.+.|+...+..+|....+. | -..+...+.+....-.++..++.|.-+|+-..    
T Consensus       198 erfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~p  275 (677)
T KOG1915|consen  198 ERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIP  275 (677)
T ss_pred             HHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            88876  4588888887777778888888888888877663 2 11223345555555556677777777775443    


Q ss_pred             CCC-HHHHHHHHHHHHhcCCh---HHHHH-----HHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCC
Q 006997          294 EKS-VFLWTSMIGGYAQLGYP---SEAVN-----LFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLE  364 (622)
Q Consensus       294 ~~~-~~~~~~l~~~~~~~~~~---~~a~~-----~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  364 (622)
                      +.. ...|..+..---+-|+-   +.++-     -|+.+...+ +.|-.+|-..+..-...|+.+...++++.++..-.+
T Consensus       276 k~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp  354 (677)
T KOG1915|consen  276 KGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPP  354 (677)
T ss_pred             cccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCc
Confidence            222 23333333332333443   33321     234444443 346666666777777778888888888888765422


Q ss_pred             Cch-hHHHHHHH--------HHHhcCChHHHHHHhccCCC--C-ChhH----HHHHHHHHHHcCCHHHHHHHHHHhHHhc
Q 006997          365 SNR-QVQTSLIH--------MFSKCGRINKAKEVFERVPD--K-DLAV----WSAMINGYAIHGMGDQALNLFYKMQHVE  428 (622)
Q Consensus       365 ~~~-~~~~~l~~--------~~~~~~~~~~A~~~~~~~~~--~-~~~~----~~~l~~~~~~~~~~~~a~~~~~~~~~~~  428 (622)
                      .+. ..+...|-        .-....+.+.+.++|+...+  | ...|    |.....--.++.+...|.+++....   
T Consensus       355 ~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI---  431 (677)
T KOG1915|consen  355 ASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI---  431 (677)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh---
Confidence            221 11221111        11245677788888866553  1 2233    4334444557788888888888875   


Q ss_pred             CCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCc----HH
Q 006997          429 GLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQ----AQ  503 (622)
Q Consensus       429 ~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~  503 (622)
                      |.-|...+|...|..-.+.++++.+..+|++.+.   ..| +..+|......=...|+.+.|..+|+-+...|.    ..
T Consensus       432 G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle---~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpel  508 (677)
T KOG1915|consen  432 GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLE---FSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPEL  508 (677)
T ss_pred             ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHh---cChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHH
Confidence            4778888888888888888999999999988883   355 567787777777888999999999988775553    44


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHH-----hcC-----------ChHHHHHHHHHhhh
Q 006997          504 VWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFT-----SAG-----------MWKEAATARGLMDD  564 (622)
Q Consensus       504 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~-----~~g-----------~~~~A~~~~~~~~~  564 (622)
                      .|.+.+..-...|.++.|..+|+++++..+ +..+|...+..-.     +.|           +...|..+|+....
T Consensus       509 lwkaYIdFEi~~~E~ekaR~LYerlL~rt~-h~kvWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~  584 (677)
T KOG1915|consen  509 LWKAYIDFEIEEGEFEKARALYERLLDRTQ-HVKVWISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANT  584 (677)
T ss_pred             HHHHhhhhhhhcchHHHHHHHHHHHHHhcc-cchHHHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHH
Confidence            677777777788899999999999998887 4557777776655     445           66678888887654

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

Probab=99.73  E-value=1.5e-17  Score=155.56  Aligned_cols=257  Identities=19%  Similarity=0.194  Sum_probs=114.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 006997          303 MIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATL-ATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCG  381 (622)
Q Consensus       303 l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  381 (622)
                      +...+.+.|++++|++++++......+|+...| ..+...+...++++.|...++.+...+ +.++..+..++.. ...+
T Consensus        14 ~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   14 LARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-cccc
Confidence            355566777778888777654444323444333 334445566777888888888877665 3356666777766 6888


Q ss_pred             ChHHHHHHhccCCC--CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHH
Q 006997          382 RINKAKEVFERVPD--KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKS  459 (622)
Q Consensus       382 ~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  459 (622)
                      ++++|.+++...-+  +++..+..++..+...++++++..+++++......+++...|..+...+.+.|+.++|++.+++
T Consensus        92 ~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~  171 (280)
T PF13429_consen   92 DPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRK  171 (280)
T ss_dssp             --------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             cccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            88888888876643  4566777788888999999999999999876233455677888899999999999999999999


Q ss_pred             hHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCC
Q 006997          460 MQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGST  536 (622)
Q Consensus       460 ~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  536 (622)
                      +.+.   .| +......++..+...|+.+++.++++...  .+.++..|..+..++...|+.++|...++++++.+|+|+
T Consensus       172 al~~---~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~  248 (280)
T PF13429_consen  172 ALEL---DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDP  248 (280)
T ss_dssp             HHHH----TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHc---CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccccccc
Confidence            9965   66 47788899999999999999888887765  345667889999999999999999999999999999999


Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          537 GNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      .+...+++++...|+.++|.++++++.+
T Consensus       249 ~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  249 LWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccccc
Confidence            9999999999999999999999987754

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

Probab=99.72  E-value=8.8e-13  Score=120.98  Aligned_cols=481  Identities=13%  Similarity=0.118  Sum_probs=351.3

Q ss_pred             ccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCCCCC-cchHHHHHHHHHhCCCchHHHHH
Q 006997           42 NINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRS-VVSWNSIISAHSRACLNDEAILV  120 (622)
Q Consensus        42 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~A~~~  120 (622)
                      .+++...|..+|+.++... ..+...|...+.+=.++..+..|+.+++.....-|- ...|--.+..--..|++..|.++
T Consensus        85 sq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~gaRqi  163 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAGARQI  163 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHHHHHH
Confidence            3556788999999998776 567888888888889999999999999987655343 34566666666677999999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcC--CCCcch
Q 006997          121 LKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIG--ETSIVS  198 (622)
Q Consensus       121 ~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~  198 (622)
                      |++-.+  ..|                                +...|.+.|+.=.+-..++.|..++++..  .|++.+
T Consensus       164 ferW~~--w~P--------------------------------~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~  209 (677)
T KOG1915|consen  164 FERWME--WEP--------------------------------DEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSN  209 (677)
T ss_pred             HHHHHc--CCC--------------------------------cHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHH
Confidence            988765  233                                56666888888888889999999998865  488888


Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCH----hHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCC--chhHHHH
Q 006997          199 WTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDL----VVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNE--DPLDNLL  272 (622)
Q Consensus       199 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l  272 (622)
                      |-.....-.++|+...+..+|+...+.  -.|.    ..|.+....-.+...++.|.-+|.-.++.- |.+  ...|..+
T Consensus       210 wikyarFE~k~g~~~~aR~VyerAie~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~-pk~raeeL~k~~  286 (677)
T KOG1915|consen  210 WIKYARFEEKHGNVALARSVYERAIEF--LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHI-PKGRAEELYKKY  286 (677)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcccHHHHHHHH
Confidence            888888888899999999998887664  1222    233333333344567788888888887762 333  4456666


Q ss_pred             HHHHHhcCCHHHHHHHH--------hhcCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-H------H
Q 006997          273 VSMYTKCGDLELARRVF--------DAVLEK---SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNE-A------T  334 (622)
Q Consensus       273 ~~~~~~~~~~~~a~~~~--------~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~------~  334 (622)
                      ...--+.|+.....+..        +.....   |-.+|--.+..-...|+.+...++|++.+.. ++|-. .      .
T Consensus       287 ~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYI  365 (677)
T KOG1915|consen  287 TAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYI  365 (677)
T ss_pred             HHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHH
Confidence            66556667765554432        333333   4456767777777789999999999999886 34422 1      2


Q ss_pred             HHHHHHHH---hccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHH----hcCChHHHHHHhccCCC--CChhHHHHHH
Q 006997          335 LATTLSAC---AELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFS----KCGRINKAKEVFERVPD--KDLAVWSAMI  405 (622)
Q Consensus       335 ~~~ll~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~A~~~~~~~~~--~~~~~~~~l~  405 (622)
                      |.-+--+|   ....+.+.+.++++..++. +|....++..+--+|+    ++.++..|.+++.....  |...++...|
T Consensus       366 YLWinYalyeEle~ed~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YI  444 (677)
T KOG1915|consen  366 YLWINYALYEELEAEDVERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYI  444 (677)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHH
Confidence            22222222   3567899999999998883 4666667766655554    68899999999988764  6777888888


Q ss_pred             HHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcC
Q 006997          406 NGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAG  484 (622)
Q Consensus       406 ~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  484 (622)
                      ..-.+.++++.+.+++++..+   ..| |..+|......-...|+.+.|..+|+-+++...+......|.+.|+.=...|
T Consensus       445 elElqL~efDRcRkLYEkfle---~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~  521 (677)
T KOG1915|consen  445 ELELQLREFDRCRKLYEKFLE---FSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEG  521 (677)
T ss_pred             HHHHHHhhHHHHHHHHHHHHh---cChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcc
Confidence            888999999999999999998   667 4688988888888999999999999998864333334556777888888999


Q ss_pred             ChHHHHHHHHhCC-CCCcHHhHHHHHHHHH-----hcC-----------CHHHHHHHHHHHHcc----CCCC--CchHHH
Q 006997          485 RFDLALKTIHEMP-VEVQAQVWAPLLSACM-----KHH-----------NVELGEYAAKNLLTL----NPGS--TGNYIL  541 (622)
Q Consensus       485 ~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~-----~~~-----------~~~~a~~~~~~~~~~----~p~~--~~~~~~  541 (622)
                      .+++|..+++++. ..+...+|-++...-.     ..+           +...|..+|+.+...    .|..  ...+..
T Consensus       522 E~ekaR~LYerlL~rt~h~kvWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~~~k~~~~KeeR~~LLEa  601 (677)
T KOG1915|consen  522 EFEKARALYERLLDRTQHVKVWISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANTYLKESTPKEERLMLLEA  601 (677)
T ss_pred             hHHHHHHHHHHHHHhcccchHHHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            9999999999987 5666778887766443     334           677899999998762    3321  123334


Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhC
Q 006997          542 MANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       542 l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      +-++-...|...+-..+-.+|+++
T Consensus       602 w~~~E~~~G~~~d~~~V~s~mPk~  625 (677)
T KOG1915|consen  602 WKNMEETFGTEGDVERVQSKMPKK  625 (677)
T ss_pred             HHHHHHhcCchhhHHHHHHhccHH
Confidence            444556678888888888877753

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

Probab=99.71  E-value=3.1e-13  Score=133.08  Aligned_cols=534  Identities=10%  Similarity=0.012  Sum_probs=310.1

Q ss_pred             HHHHHHHhCCCCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCCC
Q 006997           16 STYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRL   95 (622)
Q Consensus        16 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~   95 (622)
                      .++-.+...|+.|+.+||..++..||..|+.+.|. +|..|.....+.+..+++.++.+....++.+.+.         .
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk---------e   80 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK---------E   80 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC---------C
Confidence            56788889999999999999999999999999999 9999998888889999999999999988877664         5


Q ss_pred             CCcchHHHHHHHHHhCCCchHHHHHHHH-HH-------HcCCCCChhhHHHHHhhhh-----------hhhhHHHHHHHH
Q 006997           96 RSVVSWNSIISAHSRACLNDEAILVLKE-MW-------VLGLELSASTFVSVVSGCS-----------FRQGISMHCCVY  156 (622)
Q Consensus        96 ~~~~~~~~li~~~~~~~~~~~A~~~~~~-m~-------~~~~~p~~~t~~~ll~~~~-----------~~~~~~~~~~~~  156 (622)
                      |.+.+|..|..+|.+.||... ++..++ |.       ..|+..-..-+...+..|.           ....+.+++..+
T Consensus        81 p~aDtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqll  159 (1088)
T KOG4318|consen   81 PLADTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLL  159 (1088)
T ss_pred             CchhHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHH
Confidence            788999999999999999765 222222 22       2333333333333333333           333445556666


Q ss_pred             HhCCCCCChhhHhHH---HHHHHhc-CChHHHHHHHhhcCC-CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCH
Q 006997          157 KLGLLNNEIPLANSV---MSMYAKF-GKVNEARSIFDEIGE-TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDL  231 (622)
Q Consensus       157 ~~~~~~~~~~~~~~l---~~~~~~~-g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  231 (622)
                      +.+...|...-++..   ++-.... ..+++-........+ ++..+|.+++..-..+|+.+.|..++.+|++.|.+.+.
T Consensus       160 kll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~  239 (1088)
T KOG4318|consen  160 KLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRA  239 (1088)
T ss_pred             HHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCccc
Confidence            655322111111111   1111111 223333333333333 88899999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcC
Q 006997          232 VVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLG  311 (622)
Q Consensus       232 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~  311 (622)
                      +-|..|+-+   .++...++.+++-|...|+.|+..|+...+..+..+|....+.+....-.......+..+..+.....
T Consensus       240 HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k  316 (1088)
T KOG4318|consen  240 HYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANK  316 (1088)
T ss_pred             ccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHH
Confidence            888888876   78888899999999999999999999888877777665333322211111111122222222211111


Q ss_pred             Ch-----HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcC---CCCchhHHHHHHHHHHhcCCh
Q 006997          312 YP-----SEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNG---LESNRQVQTSLIHMFSKCGRI  383 (622)
Q Consensus       312 ~~-----~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~  383 (622)
                      +.     .-....+++..-.|+......|.... -...+|.-+..+++...+..-.   -+.++..+..++.-|.+.-+.
T Consensus       317 ~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~-~l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr~e~  395 (1088)
T KOG4318|consen  317 RLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCE-KLRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQYFRRIER  395 (1088)
T ss_pred             HHHHHHHHHHHHHhhHHHHhccccchHHHHHHH-HHHHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHHHHHHHh
Confidence            11     11222233322334433333333322 2333666677777666664321   122334444444444332111


Q ss_pred             HHHHHHhc--cCCCC--ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHh---cCCCC-------CHHHHHHHHHHHhccCc
Q 006997          384 NKAKEVFE--RVPDK--DLAVWSAMINGYAIHGMGDQALNLFYKMQHV---EGLKP-------DAVVYTSILSACSHSGM  449 (622)
Q Consensus       384 ~~A~~~~~--~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~p-------~~~~~~~ll~~~~~~g~  449 (622)
                      .-...++.  .....  +......+... ...-+...+++.+......   ....|       -...-+.++..|.+.-+
T Consensus       396 ~~~~~i~~~~qgls~~l~se~tp~vsel-l~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~n  474 (1088)
T KOG4318|consen  396 HICSRIYYAGQGLSLNLNSEDTPRVSEL-LENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEYN  474 (1088)
T ss_pred             hHHHHHHHHHHHHHhhhchhhhHHHHHH-HHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHH
Confidence            11111110  00000  00000000110 0001111122211111110   01111       11223445555665555


Q ss_pred             hHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-----CCCcHHhHHHHHHHHHhcCCHHHHHHH
Q 006997          450 VDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-----VEVQAQVWAPLLSACMKHHNVELGEYA  524 (622)
Q Consensus       450 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~  524 (622)
                      ..+++..-+..... - .+  ..|..|++.+....+.+.|..+.++..     ..-|..-+..+.....+.+....+..+
T Consensus       475 ~lK~l~~~ekye~~-l-f~--g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~ti  550 (1088)
T KOG4318|consen  475 KLKILCDEEKYEDL-L-FA--GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTI  550 (1088)
T ss_pred             HHHHHHHHHHHHHH-H-hh--hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHH
Confidence            56665544443321 1 22  678888999999999999999988876     223344556677777788888888888


Q ss_pred             HHHHHcc---CCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcc
Q 006997          525 AKNLLTL---NPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTK  569 (622)
Q Consensus       525 ~~~~~~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  569 (622)
                      ++...+.   .|.-......+.+-....|+.+.-.+.++-+...|+.-
T Consensus       551 L~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e  598 (1088)
T KOG4318|consen  551 LYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE  598 (1088)
T ss_pred             HhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh
Confidence            8877653   33334455555566677888888888888777766543

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

Probab=99.68  E-value=1.1e-12  Score=120.21  Aligned_cols=256  Identities=13%  Similarity=0.122  Sum_probs=201.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCC--CchhHHHHHHHHHHhc
Q 006997          303 MIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLE--SNRQVQTSLIHMFSKC  380 (622)
Q Consensus       303 l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~  380 (622)
                      +..++....+.+++++-.+.....|.+-+...-+....+.-...++++|+.+|+++.+...-  .|..+|+.++-.-..+
T Consensus       233 ~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~  312 (559)
T KOG1155|consen  233 LKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDK  312 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhh
Confidence            34456666677888888888888776555555555555566778899999999998887421  2455666554333222


Q ss_pred             CChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH-HHHHHHHHHHhccCchHHHHHHHHH
Q 006997          381 GRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDA-VVYTSILSACSHSGMVDDGLSFFKS  459 (622)
Q Consensus       381 ~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~  459 (622)
                      .++.---...-.+.+--+.|..++.+-|.-.++.++|...|++..+   +.|.. ..|+.+.+-|....+...|++-++.
T Consensus       313 skLs~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALk---LNp~~~~aWTLmGHEyvEmKNt~AAi~sYRr  389 (559)
T KOG1155|consen  313 SKLSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALK---LNPKYLSAWTLMGHEYVEMKNTHAAIESYRR  389 (559)
T ss_pred             HHHHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHh---cCcchhHHHHHhhHHHHHhcccHHHHHHHHH
Confidence            2222211222222333455667777888889999999999999998   77874 6788889999999999999999999


Q ss_pred             hHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCC
Q 006997          460 MQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGST  536 (622)
Q Consensus       460 ~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  536 (622)
                      ++   .+.| |-..|..|.++|.-.+...-|+-+|+++.  .+.|...|.+|+.+|.+.++.++|++.|.+++....-+.
T Consensus       390 Av---di~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~  466 (559)
T KOG1155|consen  390 AV---DINPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEG  466 (559)
T ss_pred             HH---hcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccch
Confidence            99   4566 78899999999999999999999999987  566788999999999999999999999999999888889


Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          537 GNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ..+..|+++|.+.++..+|...|++-.+
T Consensus       467 ~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  467 SALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            9999999999999999999999998776

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

Probab=99.67  E-value=1.1e-12  Score=120.10  Aligned_cols=249  Identities=13%  Similarity=0.142  Sum_probs=186.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHhccCChHHHHHHHH-HHHHcCCCCchhHHHHHHHHHHhcC
Q 006997          305 GGYAQLGYPSEAVNLFKRLLKTSV--RPNEATLATTLSACAELGSLSKGKEIEE-YIVLNGLESNRQVQTSLIHMFSKCG  381 (622)
Q Consensus       305 ~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~  381 (622)
                      .+.-.+.++++|+.+|+++.+...  --|..+|..++-.-.....+    .++. ...+.+ +-.+.+...+.+-|+-.+
T Consensus       270 ~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skL----s~LA~~v~~id-KyR~ETCCiIaNYYSlr~  344 (559)
T KOG1155|consen  270 AASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKL----SYLAQNVSNID-KYRPETCCIIANYYSLRS  344 (559)
T ss_pred             HHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHH----HHHHHHHHHhc-cCCccceeeehhHHHHHH
Confidence            344456677777777777776531  11445666655443222111    1111 111111 233445566677777788


Q ss_pred             ChHHHHHHhccCCCC---ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCchHHHHHHH
Q 006997          382 RINKAKEVFERVPDK---DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGMVDDGLSFF  457 (622)
Q Consensus       382 ~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~  457 (622)
                      +.++|...|++..+-   ....|+.|..-|...++...|.+.++.+.+   +.| |-..|-.+.++|.-.+.+.-|+-+|
T Consensus       345 eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd---i~p~DyRAWYGLGQaYeim~Mh~YaLyYf  421 (559)
T KOG1155|consen  345 EHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVD---INPRDYRAWYGLGQAYEIMKMHFYALYYF  421 (559)
T ss_pred             hHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHh---cCchhHHHHhhhhHHHHHhcchHHHHHHH
Confidence            888888888877653   346788899999999999999999999998   777 5678999999999999999999999


Q ss_pred             HHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHc----
Q 006997          458 KSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLT----  530 (622)
Q Consensus       458 ~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----  530 (622)
                      +++.   .+.| |...|.+|.++|.+.++.++|++.|.+..  .+.+...+..|+..+.+.++.++|...|++-++    
T Consensus       422 qkA~---~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~  498 (559)
T KOG1155|consen  422 QKAL---ELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSEL  498 (559)
T ss_pred             HHHH---hcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Confidence            9988   4466 78999999999999999999999999987  344568899999999999999999999999877    


Q ss_pred             ---cCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          531 ---LNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       531 ---~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                         ..|+...+...|+.-+.+.+++++|..+-.....
T Consensus       499 eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~  535 (559)
T KOG1155|consen  499 EGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLK  535 (559)
T ss_pred             hcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhc
Confidence               3454555666788899999999999987776654

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

Probab=99.65  E-value=4.2e-13  Score=123.60  Aligned_cols=186  Identities=17%  Similarity=0.203  Sum_probs=127.0

Q ss_pred             HHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccC
Q 006997          373 LIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSG  448 (622)
Q Consensus       373 l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g  448 (622)
                      +..+|....+.++-...|++..+   .|+.+|..-...+.-.+++++|..=|++...   +.|+ ...|..+.-+..+.+
T Consensus       366 ~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~---L~pe~~~~~iQl~~a~Yr~~  442 (606)
T KOG0547|consen  366 RAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAIS---LDPENAYAYIQLCCALYRQH  442 (606)
T ss_pred             HHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhh---cChhhhHHHHHHHHHHHHHH
Confidence            33344444444444444443332   2334444444445555667777777777776   6665 355666666666777


Q ss_pred             chHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc---------HHhHHHHHHHHHhcCCH
Q 006997          449 MVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ---------AQVWAPLLSACMKHHNV  518 (622)
Q Consensus       449 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~---------~~~~~~l~~~~~~~~~~  518 (622)
                      .++++...|++.+.+  ++-.+++|+.....+...+++++|.+.|+... .+|+         +.+...++..- =.+|+
T Consensus       443 k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q-wk~d~  519 (606)
T KOG0547|consen  443 KIAESMKTFEEAKKK--FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQ-WKEDI  519 (606)
T ss_pred             HHHHHHHHHHHHHHh--CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhc-hhhhH
Confidence            888888888887765  34457777777888888888888888887764 3333         22222232222 23899


Q ss_pred             HHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          519 ELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       519 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ..|+.+++++++++|....++..|+.+..++|+.++|+++|++...
T Consensus       520 ~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  520 NQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             HHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999998754

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.65  E-value=2.8e-13  Score=132.70  Aligned_cols=275  Identities=10%  Similarity=0.062  Sum_probs=182.3

Q ss_pred             cCCHHHHHHHHhhcCCC--CH-HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH--HHHHHHhccCChHHHHH
Q 006997          279 CGDLELARRVFDAVLEK--SV-FLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLA--TTLSACAELGSLSKGKE  353 (622)
Q Consensus       279 ~~~~~~a~~~~~~~~~~--~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~--~ll~~~~~~~~~~~a~~  353 (622)
                      .|+++.|.+.+....+.  ++ ..+.....+..+.|+++.|...+.++.+.  .|+.....  .....+...|+++.|..
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            46666666666554332  12 22322333446677777777777777654  34433222  22445666777777777


Q ss_pred             HHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCC---h--------hHHHHHHHHHHHcCCHHHHHHHHH
Q 006997          354 IEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKD---L--------AVWSAMINGYAIHGMGDQALNLFY  422 (622)
Q Consensus       354 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~--------~~~~~l~~~~~~~~~~~~a~~~~~  422 (622)
                      .++.+.+.. |.++.+...+...|.+.|++++|.+++..+.+..   .        .+|..++.......+.+...++++
T Consensus       175 ~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~  253 (398)
T PRK10747        175 GVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWK  253 (398)
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            777776665 4556666777777777777777777776665321   1        123333333344455666667777


Q ss_pred             HhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-
Q 006997          423 KMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEV-  500 (622)
Q Consensus       423 ~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-  500 (622)
                      ...+  ..+.++.....+..++...|+.++|.+.+++..+.   +|+....  ++.+....++.+++++.+++.. ..| 
T Consensus       254 ~lp~--~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~  326 (398)
T PRK10747        254 NQSR--KTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR---QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGD  326 (398)
T ss_pred             hCCH--HHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCC
Confidence            7654  13446677888888888999999999999888743   5555332  2333345588888888888876 344 


Q ss_pred             cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          501 QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       501 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      |+..+..++..|...+++++|.+.|+++++..|+ ...+..++.++.+.|+.++|.+++++-..
T Consensus       327 ~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~-~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        327 TPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPD-AYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4556778888999999999999999999999994 56677899999999999999999987654

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

Probab=99.63  E-value=6.7e-14  Score=134.16  Aligned_cols=276  Identities=13%  Similarity=0.056  Sum_probs=218.5

Q ss_pred             CHHHHHHHHhhcCCC--CH-HHHHHHHHHHHhcCChHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHhccCChHHHHHHH
Q 006997          281 DLELARRVFDAVLEK--SV-FLWTSMIGGYAQLGYPSEAVNLFKRLLKTS--VRPNEATLATTLSACAELGSLSKGKEIE  355 (622)
Q Consensus       281 ~~~~a~~~~~~~~~~--~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~ll~~~~~~~~~~~a~~~~  355 (622)
                      +..+|...|..++..  |+ -....+..+|...+++++|.++|+.+.+..  ..-+...|.+.+.-+-+    +-+...+
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~L  409 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSYL  409 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHHH
Confidence            457788888775433  32 344567788888899999999998887742  11255677777765432    1222233


Q ss_pred             -HHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCC---ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCC
Q 006997          356 -EYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDK---DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLK  431 (622)
Q Consensus       356 -~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  431 (622)
                       +.+.+.. +..+.+|.++..+|.-+++.+.|++.|++..+-   ...+|+.+..-+.....+|.|...|+....   +.
T Consensus       410 aq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~---~~  485 (638)
T KOG1126|consen  410 AQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG---VD  485 (638)
T ss_pred             HHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc---CC
Confidence             3344433 667899999999999999999999999998864   446788888888899999999999999876   66


Q ss_pred             CCH-HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHH
Q 006997          432 PDA-VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAP  507 (622)
Q Consensus       432 p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~  507 (622)
                      |+. ..|..+...|.+.++++.|+-.|+++.   .+.| +......+...+.+.|+.++|+++++++.  .+.++..--.
T Consensus       486 ~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~---~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~  562 (638)
T KOG1126|consen  486 PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAV---EINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYH  562 (638)
T ss_pred             chhhHHHHhhhhheeccchhhHHHHHHHhhh---cCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHH
Confidence            654 567788889999999999999999998   5677 56667778889999999999999999986  3445555556


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          508 LLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       508 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      -+..+...++.++|...++++.++.|++..++..++.+|.+.|+.+.|+.-|--+.+-++
T Consensus       563 ~~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldp  622 (638)
T KOG1126|consen  563 RASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDP  622 (638)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCC
Confidence            667777889999999999999999999999999999999999999999999998877554

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

Probab=99.62  E-value=6e-14  Score=134.49  Aligned_cols=245  Identities=15%  Similarity=0.178  Sum_probs=142.5

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCC--CCchhHHHHHHHHHHhcCChHH-HHH
Q 006997          312 YPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGL--ESNRQVQTSLIHMFSKCGRINK-AKE  388 (622)
Q Consensus       312 ~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~-A~~  388 (622)
                      +..+|+..|.++... +.-+......+..+|...+++++++++|+.+.+...  -.+..+|.+.+--+-+.=.+.- |..
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            345666666664333 222334455566667777777777777776655421  1234455444432221111111 111


Q ss_pred             HhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCC
Q 006997          389 VFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIE  467 (622)
Q Consensus       389 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~  467 (622)
                      +.+. -...+.+|.++..+|.-+++.+.|++.|++..+   +.|+ ..+|+.+..-+.....+|.|...|+.++   ++.
T Consensus       413 Li~~-~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQ---ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al---~~~  485 (638)
T KOG1126|consen  413 LIDT-DPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQ---LDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL---GVD  485 (638)
T ss_pred             HHhh-CCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhc---cCCccchhhhhcCChhhhhHHHHhHHHHHHhhh---cCC
Confidence            1111 123456677777777777777777777777666   6663 5666666666666667777777776665   333


Q ss_pred             C-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHH
Q 006997          468 P-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMAN  544 (622)
Q Consensus       468 p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  544 (622)
                      | +-..|.-+.-.|.+.++++.|+-.|+++. +.|. ......++..+.+.|+.++|++++++++.++|.++-.-+..+.
T Consensus       486 ~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~  565 (638)
T KOG1126|consen  486 PRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRAS  565 (638)
T ss_pred             chhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHH
Confidence            3 23334445566677777777777776665 3333 4445556666666677777777777777777777777777777


Q ss_pred             HHHhcCChHHHHHHHHHhhh
Q 006997          545 LFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       545 ~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ++...+++++|+..++++.+
T Consensus       566 il~~~~~~~eal~~LEeLk~  585 (638)
T KOG1126|consen  566 ILFSLGRYVEALQELEELKE  585 (638)
T ss_pred             HHHhhcchHHHHHHHHHHHH
Confidence            77777777777777766654

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

Probab=99.61  E-value=2e-12  Score=121.53  Aligned_cols=497  Identities=10%  Similarity=0.002  Sum_probs=255.5

Q ss_pred             cHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHHHHHHHhC
Q 006997           32 TFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRA  111 (622)
Q Consensus        32 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~  111 (622)
                      -+..+++-+..+..+..|.-+-+.+...+..|+.  ---+.+.+.-.|++..|..+...-.-...|..+......++.+.
T Consensus        18 ~~~~~~r~~l~q~~y~~a~f~adkV~~l~~dp~d--~~~~aq~l~~~~~y~ra~~lit~~~le~~d~~cryL~~~~l~~l   95 (611)
T KOG1173|consen   18 KYRRLVRDALMQHRYKTALFWADKVAGLTNDPAD--IYWLAQVLYLGRQYERAAHLITTYKLEKRDIACRYLAAKCLVKL   95 (611)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHhccCChHH--HHHHHHHHHhhhHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHH
Confidence            3555555555666777777777777666534433  33466777778888888777665432267777888888888899


Q ss_pred             CCchHHHHHHHHHHHcCCCCChhhHHHHHhhhh--hhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHh
Q 006997          112 CLNDEAILVLKEMWVLGLELSASTFVSVVSGCS--FRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFD  189 (622)
Q Consensus       112 ~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  189 (622)
                      .++++|+.++..-.   +.-+...+-.--.+..  ...+.+....-.+.++       +-.-...|.....+++|...|.
T Consensus        96 k~~~~al~vl~~~~---~~~~~f~yy~~~~~~~l~~n~~~~~~~~~~essi-------c~lRgk~y~al~n~~~ar~~Y~  165 (611)
T KOG1173|consen   96 KEWDQALLVLGRGH---VETNPFSYYEKDAANTLELNSAGEDLMINLESSI-------CYLRGKVYVALDNREEARDKYK  165 (611)
T ss_pred             HHHHHHHHHhcccc---hhhcchhhcchhhhceeccCcccccccccchhce-------eeeeeehhhhhccHHHHHHHHH
Confidence            99999998887331   1111111100000000  0000000000000000       0011123444456667777776


Q ss_pred             hcCCCCcchHHHHHHHHHcCC-ChhHHHHHHHHHHHC-CCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCch
Q 006997          190 EIGETSIVSWTTIIGGYVNVG-NVNEAFGLCNQMRRM-SVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDP  267 (622)
Q Consensus       190 ~~~~~~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  267 (622)
                      +..-.|+..+.++...-...= -.++-..+|+.+.-. -...+......+.........-+.....-.+..-.+...+..
T Consensus       166 ~Al~~D~~c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~d  245 (611)
T KOG1173|consen  166 EALLADAKCFEAFEKLVSAHMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLD  245 (611)
T ss_pred             HHHhcchhhHHHHHHHHHHHhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHH
Confidence            665555554444332211110 011112222210000 001111111111111100000000000000011112344445


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhcCCCCH---HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc
Q 006997          268 LDNLLVSMYTKCGDLELARRVFDAVLEKSV---FLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAE  344 (622)
Q Consensus       268 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~  344 (622)
                      +......-+...+++.+..++++.+.+.++   ..+..-|..+...|+..+-..+=.++.+.- +-.+.+|-++...|..
T Consensus       246 ll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~  324 (611)
T KOG1173|consen  246 LLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLM  324 (611)
T ss_pred             HHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHH
Confidence            555555566666777777777776654433   344445556666777666666666666652 3345666666666666


Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHH
Q 006997          345 LGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLF  421 (622)
Q Consensus       345 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~  421 (622)
                      .|+.++|.++|.+....+ +.-...|-.+...|+-.|.-+.|...+....+   .....+--+..-|.+.++.+.|.+.|
T Consensus       325 i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff  403 (611)
T KOG1173|consen  325 IGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFF  403 (611)
T ss_pred             hcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHH
Confidence            677777777776665543 22234556666666666666666666554332   11122222334456666677777777


Q ss_pred             HHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhc-CC---C-CChhHHHHHHHHHHhcCChHHHHHHHHh
Q 006997          422 YKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNF-GI---E-PSIEHYLCLVDLLGRAGRFDLALKTIHE  495 (622)
Q Consensus       422 ~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~---~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~  495 (622)
                      .+...   +.|+ +...+-+.-.....+.+.+|..+|+..+..- .+   . -...+++.|..+|.+.+.+++|+..+++
T Consensus       404 ~~A~a---i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~  480 (611)
T KOG1173|consen  404 KQALA---IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQK  480 (611)
T ss_pred             HHHHh---cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHH
Confidence            66665   5554 4445555555555666677777666654210 00   0 1234466666677777777777777766


Q ss_pred             CC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHH
Q 006997          496 MP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANL  545 (622)
Q Consensus       496 ~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  545 (622)
                      ..  .+.+..++.+++-.|...|+++.|...|.+++.+.|++..+-..|..+
T Consensus       481 aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  481 ALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLA  532 (611)
T ss_pred             HHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHH
Confidence            54  445566666666666677777777777777777777665555555444

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.61  E-value=1.4e-12  Score=127.84  Aligned_cols=284  Identities=16%  Similarity=0.073  Sum_probs=172.1

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHhH-HHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHH--HHHHHHHhcCCHHHH
Q 006997          209 VGNVNEAFGLCNQMRRMSVTPDLVV-FLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDN--LLVSMYTKCGDLELA  285 (622)
Q Consensus       209 ~~~~~~a~~~~~~m~~~~~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~~~~~~a  285 (622)
                      .|+++.|.+.+....+..  +++.. |..........|+++.+...+.++.+.  .|+.....  .....+...|+++.|
T Consensus        97 eGd~~~A~k~l~~~~~~~--~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~A  172 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHA--EQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAA  172 (398)
T ss_pred             CCCHHHHHHHHHHHHhcc--cchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHH
Confidence            466776666665544321  11222 222233335566666666666666543  33332221  224455556666666


Q ss_pred             HHHHhhcCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcC
Q 006997          286 RRVFDAVLEK---SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNG  362 (622)
Q Consensus       286 ~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  362 (622)
                      ...++++.+.   ++.....+...|.+.|++++|.+++..+.+.+..+ ......+-                       
T Consensus       173 l~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~-~~~~~~l~-----------------------  228 (398)
T PRK10747        173 RHGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGD-EEHRAMLE-----------------------  228 (398)
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCC-HHHHHHHH-----------------------
Confidence            6665555322   44555555666666666666666666666554332 11111000                       


Q ss_pred             CCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHH
Q 006997          363 LESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTS  439 (622)
Q Consensus       363 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~  439 (622)
                          ...|..++.......+.+...++++.+++   .++.....+...+...|+.++|.+.+++..+   .+|+....  
T Consensus       229 ----~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~---~~~~~~l~--  299 (398)
T PRK10747        229 ----QQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLK---RQYDERLV--  299 (398)
T ss_pred             ----HHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCHHHH--
Confidence                01112222222233344555555555542   4666777778888888888888888888876   45555322  


Q ss_pred             HHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCcHHhHHHHHHHHHhcCC
Q 006997          440 ILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQAQVWAPLLSACMKHHN  517 (622)
Q Consensus       440 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~  517 (622)
                      ++.+....++.+++.+..+...++   .| |+..+.++...+.+.|++++|.+.|+++. ..|+...+..+...+.+.|+
T Consensus       300 ~l~~~l~~~~~~~al~~~e~~lk~---~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~  376 (398)
T PRK10747        300 LLIPRLKTNNPEQLEKVLRQQIKQ---HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHK  376 (398)
T ss_pred             HHHhhccCCChHHHHHHHHHHHhh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCC
Confidence            233344558888888888888855   44 56667788888999999999999998876 67888888888888889999


Q ss_pred             HHHHHHHHHHHHccC
Q 006997          518 VELGEYAAKNLLTLN  532 (622)
Q Consensus       518 ~~~a~~~~~~~~~~~  532 (622)
                      .++|.+++++.+.+.
T Consensus       377 ~~~A~~~~~~~l~~~  391 (398)
T PRK10747        377 PEEAAAMRRDGLMLT  391 (398)
T ss_pred             HHHHHHHHHHHHhhh
Confidence            999999999887754

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

Probab=99.60  E-value=1.1e-11  Score=116.81  Aligned_cols=261  Identities=16%  Similarity=0.093  Sum_probs=214.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006997          296 SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIH  375 (622)
Q Consensus       296 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  375 (622)
                      ++.....-..-+...+++.+..++++...+.. ++....+..-|..+...|+...-..+-..+++.- |..+.+|-++.-
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~  320 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGC  320 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHH
Confidence            33444455566778899999999999988864 4555566666667888888877777777777664 667888999999


Q ss_pred             HHHhcCChHHHHHHhccCCCCC---hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH-HHHHHHHHHHhccCchH
Q 006997          376 MFSKCGRINKAKEVFERVPDKD---LAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDA-VVYTSILSACSHSGMVD  451 (622)
Q Consensus       376 ~~~~~~~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~ll~~~~~~g~~~  451 (622)
                      -|.-.|+..+|.+.|.+...-|   ...|-.+..+|+..|..++|+..+..+.+   +-|.. -.+..+.--|.+.++.+
T Consensus       321 YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAar---l~~G~hlP~LYlgmey~~t~n~k  397 (611)
T KOG1173|consen  321 YYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAAR---LMPGCHLPSLYLGMEYMRTNNLK  397 (611)
T ss_pred             HHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHH---hccCCcchHHHHHHHHHHhccHH
Confidence            9999999999999999877533   35899999999999999999999998877   44442 34555666788999999


Q ss_pred             HHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-----CCC----cHHhHHHHHHHHHhcCCHHHH
Q 006997          452 DGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-----VEV----QAQVWAPLLSACMKHHNVELG  521 (622)
Q Consensus       452 ~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~----~~~~~~~l~~~~~~~~~~~~a  521 (622)
                      .|.++|.++.   ++.| |+...+-+.-.....+.+.+|..+|+...     ..+    -.++++.|+.+|++.+.+++|
T Consensus       398 LAe~Ff~~A~---ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eA  474 (611)
T KOG1173|consen  398 LAEKFFKQAL---AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEA  474 (611)
T ss_pred             HHHHHHHHHH---hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHH
Confidence            9999999988   6777 57778888888888899999999998764     111    245688999999999999999


Q ss_pred             HHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          522 EYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       522 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      +..+++++.+.|.+++++..+|-+|...|+++.|.+.|.+.+.
T Consensus       475 I~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~  517 (611)
T KOG1173|consen  475 IDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALA  517 (611)
T ss_pred             HHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999998865

>TIGR00540 hemY_coli hemY protein

Probab=99.59  E-value=2.4e-12  Score=126.85  Aligned_cols=285  Identities=13%  Similarity=0.009  Sum_probs=142.3

Q ss_pred             ccCChHHHHHHHHHHHHhCCCCCch-hHHHHHHHHHhcCCHHHHHHHHhhcCC--CC--HHHHHHHHHHHHhcCChHHHH
Q 006997          243 QVGNLFLALSMHSLLLKSGYNNEDP-LDNLLVSMYTKCGDLELARRVFDAVLE--KS--VFLWTSMIGGYAQLGYPSEAV  317 (622)
Q Consensus       243 ~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~--~~~~~~l~~~~~~~~~~~~a~  317 (622)
                      ..|+++.|++.+....+.  .|++. .+-....++.+.|+.+.|.+.+.+..+  |+  ....-.....+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            346666666666554443  22222 222233445555555555555555421  11  122222344555555555555


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCC
Q 006997          318 NLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKD  397 (622)
Q Consensus       318 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  397 (622)
                      ..++.+.+.. +-+...+..+...+...|+++.+.+.+..+.+.+..+.......-..+                     
T Consensus       174 ~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a---------------------  231 (409)
T TIGR00540       174 HGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKA---------------------  231 (409)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHH---------------------
Confidence            5555555543 113334445555555555555555555555555422111110000000                     


Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcC---CCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHH-
Q 006997          398 LAVWSAMINGYAIHGMGDQALNLFYKMQHVEG---LKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHY-  473 (622)
Q Consensus       398 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-  473 (622)
                             ..+....+..+++.+.+..+.+ ..   .+.+...+..+...+...|+.++|.+.+++..++   .|+.... 
T Consensus       232 -------~~~~l~~~~~~~~~~~L~~~~~-~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~---~pd~~~~~  300 (409)
T TIGR00540       232 -------EIGLLDEAMADEGIDGLLNWWK-NQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK---LGDDRAIS  300 (409)
T ss_pred             -------HHHHHHHHHHhcCHHHHHHHHH-HCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh---CCCcccch
Confidence                   0111111122222223333322 00   1124555666666666666777777766666643   3332210 


Q ss_pred             HHHHHH--HHhcCChHHHHHHHHhCC-CCCc-H--HhHHHHHHHHHhcCCHHHHHHHHH--HHHccCCCCCchHHHHHHH
Q 006997          474 LCLVDL--LGRAGRFDLALKTIHEMP-VEVQ-A--QVWAPLLSACMKHHNVELGEYAAK--NLLTLNPGSTGNYILMANL  545 (622)
Q Consensus       474 ~~l~~~--~~~~g~~~~A~~~~~~~~-~~~~-~--~~~~~l~~~~~~~~~~~~a~~~~~--~~~~~~p~~~~~~~~l~~~  545 (622)
                      ..++..  ....++.+.+.+.+++.. ..|+ +  ....++++.+.+.|++++|.+.++  .+++..|+ +..+..++.+
T Consensus       301 ~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~-~~~~~~La~l  379 (409)
T TIGR00540       301 LPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLD-ANDLAMAADA  379 (409)
T ss_pred             hHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCC-HHHHHHHHHH
Confidence            001111  122355666666666654 2333 3  456677777888888888888888  46667774 4446688888


Q ss_pred             HHhcCChHHHHHHHHHhh
Q 006997          546 FTSAGMWKEAATARGLMD  563 (622)
Q Consensus       546 ~~~~g~~~~A~~~~~~~~  563 (622)
                      +.+.|+.++|.+++++..
T Consensus       380 l~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       380 FDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             HHHcCCHHHHHHHHHHHH
Confidence            888888888888887654

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.

>TIGR00540 hemY_coli hemY protein

Probab=99.59  E-value=8.1e-12  Score=123.17  Aligned_cols=288  Identities=13%  Similarity=0.037  Sum_probs=200.0

Q ss_pred             HHcCCChhHHHHHHHHHHHCCCCCCHh-HHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHH
Q 006997          206 YVNVGNVNEAFGLCNQMRRMSVTPDLV-VFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLEL  284 (622)
Q Consensus       206 ~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  284 (622)
                      ....|+++.|.+.+.+..+.  .|+.. .+..........|+.+.+.+.+....+....+...+.......+...|+++.
T Consensus        94 a~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~  171 (409)
T TIGR00540        94 KLAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHA  171 (409)
T ss_pred             HHhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHH
Confidence            34679999999999887765  45543 3445566777889999999999998775422222344556888999999999


Q ss_pred             HHHHHhhcCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH-HHHHhccCChHHHHHHHHHHHH
Q 006997          285 ARRVFDAVLEK---SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATT-LSACAELGSLSKGKEIEEYIVL  360 (622)
Q Consensus       285 a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~  360 (622)
                      |...++.+.+.   ++..+..+...+...|++++|.+.+..+.+.++. +...+..+ ..++                  
T Consensus       172 Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~------------------  232 (409)
T TIGR00540       172 ARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAE------------------  232 (409)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHH------------------
Confidence            99999988543   6678889999999999999999999999998754 33333211 1111                  


Q ss_pred             cCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHH
Q 006997          361 NGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVY  437 (622)
Q Consensus       361 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~  437 (622)
                                ..++..-......+...+.+...++   .++..+..+...+...|+.++|.+.+++..+   ..||....
T Consensus       233 ----------~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~---~~pd~~~~  299 (409)
T TIGR00540       233 ----------IGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLK---KLGDDRAI  299 (409)
T ss_pred             ----------HHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHh---hCCCcccc
Confidence                      0000000111122333334444432   3666677777788888888888888888877   45554421


Q ss_pred             ---HHHHHHHhccCchHHHHHHHHHhHHhcCCCCC-h--hHHHHHHHHHHhcCChHHHHHHHHh--CC-CCCcHHhHHHH
Q 006997          438 ---TSILSACSHSGMVDDGLSFFKSMQSNFGIEPS-I--EHYLCLVDLLGRAGRFDLALKTIHE--MP-VEVQAQVWAPL  508 (622)
Q Consensus       438 ---~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~--~~~~~l~~~~~~~g~~~~A~~~~~~--~~-~~~~~~~~~~l  508 (622)
                         ..........++.+.+.+.+++..+.   .|+ +  ....++...+.+.|++++|.+.|+.  .. ..|+...+..+
T Consensus       300 ~~~~l~~~~~l~~~~~~~~~~~~e~~lk~---~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~L  376 (409)
T TIGR00540       300 SLPLCLPIPRLKPEDNEKLEKLIEKQAKN---VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMA  376 (409)
T ss_pred             hhHHHHHhhhcCCCChHHHHHHHHHHHHh---CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHH
Confidence               11222233457778888888887754   443 3  5566888889999999999999994  32 57888778888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHc
Q 006997          509 LSACMKHHNVELGEYAAKNLLT  530 (622)
Q Consensus       509 ~~~~~~~~~~~~a~~~~~~~~~  530 (622)
                      +..+.+.|+.++|.+++++++.
T Consensus       377 a~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       377 ADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999999999999998765

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.

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

Probab=99.54  E-value=2.2e-14  Score=134.25  Aligned_cols=252  Identities=15%  Similarity=0.163  Sum_probs=85.7

Q ss_pred             HHHHHhhccCChhhHHHHHHHHHHhc-CCCCchhHHHHHHHhhcCCChhHHHHHhccCCCC-CCCcchHHHHHHHHHhCC
Q 006997           35 LVLKACANINSIWDGKRVHSHVLKVG-FQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVR-LRSVVSWNSIISAHSRAC  112 (622)
Q Consensus        35 ~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~li~~~~~~~  112 (622)
                      .+...+.+.|+++.|.+++....... .+.+...|..+.......++++.|++.++.+... +.+...+..++.. ...+
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccc
Confidence            33555566677777777665443332 2334445555555555666777777777766654 2234445555555 5667


Q ss_pred             CchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcC
Q 006997          113 LNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIG  192 (622)
Q Consensus       113 ~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  192 (622)
                      ++++|.++++...+..  +                                ++..+..++..+.+.|+++++.++++.+.
T Consensus        92 ~~~~A~~~~~~~~~~~--~--------------------------------~~~~l~~~l~~~~~~~~~~~~~~~l~~~~  137 (280)
T PF13429_consen   92 DPEEALKLAEKAYERD--G--------------------------------DPRYLLSALQLYYRLGDYDEAEELLEKLE  137 (280)
T ss_dssp             ------------------------------------------------------------H-HHHTT-HHHHHHHHHHHH
T ss_pred             cccccccccccccccc--c--------------------------------ccchhhHHHHHHHHHhHHHHHHHHHHHHH
Confidence            7777777666554421  1                                22233445555666666666666666643


Q ss_pred             -----CCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCC-HhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCc
Q 006997          193 -----ETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPD-LVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNED  266 (622)
Q Consensus       193 -----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  266 (622)
                           ..+...|..+...+.+.|+.++|++.+++..+.  .|+ ......++..+...|+.+++..++....+.. +.++
T Consensus       138 ~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~  214 (280)
T PF13429_consen  138 ELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDP  214 (280)
T ss_dssp             H-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSC
T ss_pred             hccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHH
Confidence                 134455666667777777777777777777664  343 5556667777777777777777777766654 5566


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006997          267 PLDNLLVSMYTKCGDLELARRVFDAVLE---KSVFLWTSMIGGYAQLGYPSEAVNLFKRLL  324 (622)
Q Consensus       267 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  324 (622)
                      ..+..+..+|...|+.++|...|++...   .|+.....+..++...|+.++|..+.++..
T Consensus       215 ~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  215 DLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             CHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHT----------------
T ss_pred             HHHHHHHHHhccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            6677777777777788888777777632   366677777777778888888877776654

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.52  E-value=1.6e-10  Score=102.47  Aligned_cols=268  Identities=11%  Similarity=0.018  Sum_probs=136.4

Q ss_pred             HHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCC-CCCcchHHHHHHHHHhCCCch
Q 006997           37 LKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVR-LRSVVSWNSIISAHSRACLND  115 (622)
Q Consensus        37 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~  115 (622)
                      +.-+...+|+..|..+++.-...+-+....+-.-+...+.+.|++++|...+..+.+. .++...|-.|.-++.-.|.+.
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~  108 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYI  108 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHH
Confidence            4444556677777777776654432222223333445556677888887777766554 555566666666666667777


Q ss_pred             HHHHHHHHHHHcCCCCChhhHHHHHhhhh--hhh---hHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhh
Q 006997          116 EAILVLKEMWVLGLELSASTFVSVVSGCS--FRQ---GISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDE  190 (622)
Q Consensus       116 ~A~~~~~~m~~~~~~p~~~t~~~ll~~~~--~~~---~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  190 (622)
                      +|..+-...      |+......++-.++  +..   ....+..+..      ...---+|..+..-.-++.+|+.++.+
T Consensus       109 eA~~~~~ka------~k~pL~~RLlfhlahklndEk~~~~fh~~LqD------~~EdqLSLAsvhYmR~HYQeAIdvYkr  176 (557)
T KOG3785|consen  109 EAKSIAEKA------PKTPLCIRLLFHLAHKLNDEKRILTFHSSLQD------TLEDQLSLASVHYMRMHYQEAIDVYKR  176 (557)
T ss_pred             HHHHHHhhC------CCChHHHHHHHHHHHHhCcHHHHHHHHHHHhh------hHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence            776665443      23333333333322  111   1111111111      112223455555555677888888888


Q ss_pred             cCC--CCcchHHHHH-HHHHcCCChhHHHHHHHHHHHCCCCCCHh-HHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCc
Q 006997          191 IGE--TSIVSWTTII-GGYVNVGNVNEAFGLCNQMRRMSVTPDLV-VFLNLILGCAQVGNLFLALSMHSLLLKSGYNNED  266 (622)
Q Consensus       191 ~~~--~~~~~~~~li-~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  266 (622)
                      +..  |+....|.-+ -+|.+..-++-+.+++.-....  -||+. ..+..+....+.=+-..|++-...+.+.+-..  
T Consensus       177 vL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q--~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~--  252 (557)
T KOG3785|consen  177 VLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ--FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQE--  252 (557)
T ss_pred             HHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh--CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc--
Confidence            776  3444555533 4566777777777777766553  34432 33333333333222222333333333222110  


Q ss_pred             hhHHHHHHHHHhc-----CCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 006997          267 PLDNLLVSMYTKC-----GDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRL  323 (622)
Q Consensus       267 ~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m  323 (622)
                        | ..+.-.++.     ..-+.|++++-.+.+.=+.+.-.|+--|.+++++.+|..+.+++
T Consensus       253 --~-~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl  311 (557)
T KOG3785|consen  253 --Y-PFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDL  311 (557)
T ss_pred             --c-hhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhc
Confidence              0 011111111     23345555555444444455566667777888888888777665

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

Probab=99.52  E-value=1.6e-10  Score=113.09  Aligned_cols=125  Identities=18%  Similarity=0.165  Sum_probs=106.2

Q ss_pred             HHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHH
Q 006997          437 YTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACM  513 (622)
Q Consensus       437 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~  513 (622)
                      |......+.+.+..++|...+.++.   ++.| ....|......+...|++++|.+.|.... ..|+ +.+..+++..+.
T Consensus       653 wllaa~~~~~~~~~~~a~~CL~Ea~---~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~ldP~hv~s~~Ala~~ll  729 (799)
T KOG4162|consen  653 WLLAADLFLLSGNDDEARSCLLEAS---KIDPLSASVYYLRGLLLEVKGQLEEAKEAFLVALALDPDHVPSMTALAELLL  729 (799)
T ss_pred             HHHHHHHHHhcCCchHHHHHHHHHH---hcchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHhcCCCCcHHHHHHHHHHH
Confidence            4555667788888899988888877   3344 56777777788899999999999998876 5555 778889999999


Q ss_pred             hcCCHHHHHH--HHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          514 KHHNVELGEY--AAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       514 ~~~~~~~a~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      +.|+...|..  ++..+++++|.++.+|+.+|.++.+.|+.++|.+.|+...+
T Consensus       730 e~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~q  782 (799)
T KOG4162|consen  730 ELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQ  782 (799)
T ss_pred             HhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHh
Confidence            9998888877  99999999999999999999999999999999999998765

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

Probab=99.51  E-value=2.3e-09  Score=102.80  Aligned_cols=509  Identities=14%  Similarity=0.112  Sum_probs=256.1

Q ss_pred             cccHHHHHHHhhccCChhhHHHHHHHHHHh-cCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHHHHHH
Q 006997           30 SFTFPLVLKACANINSIWDGKRVHSHVLKV-GFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAH  108 (622)
Q Consensus        30 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~~  108 (622)
                      +..|..-+..+..++++..-...|+..+.. .+.-...+|...+...-..+-++.+..+++...  +-++..-+-.|..+
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYL--k~~P~~~eeyie~L  179 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYL--KVAPEAREEYIEYL  179 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHH--hcCHHHHHHHHHHH
Confidence            334556666667778888888888776644 334445677777877777888888888888877  55556678888888


Q ss_pred             HhCCCchHHHHHHHHHHHcC------CCCChhhHHHHHhhhh--hhhhHH-HHHHHHHhCCCCC---ChhhHhHHHHHHH
Q 006997          109 SRACLNDEAILVLKEMWVLG------LELSASTFVSVVSGCS--FRQGIS-MHCCVYKLGLLNN---EIPLANSVMSMYA  176 (622)
Q Consensus       109 ~~~~~~~~A~~~~~~m~~~~------~~p~~~t~~~ll~~~~--~~~~~~-~~~~~~~~~~~~~---~~~~~~~l~~~~~  176 (622)
                      +..++.++|-+.+.......      .+.+...|.-+....+  ...... -.+.+++.|+..-   -...|.+|.+-|.
T Consensus       180 ~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYI  259 (835)
T KOG2047|consen  180 AKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYI  259 (835)
T ss_pred             HhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHH
Confidence            88899988888888776432      1223333333333333  111111 1234444454321   2346788999999


Q ss_pred             hcCChHHHHHHHhhcCC--CCcchHHHHHHHHHcCC----------------C------hhHHHHHHHHHHHCCC-----
Q 006997          177 KFGKVNEARSIFDEIGE--TSIVSWTTIIGGYVNVG----------------N------VNEAFGLCNQMRRMSV-----  227 (622)
Q Consensus       177 ~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~----------------~------~~~a~~~~~~m~~~~~-----  227 (622)
                      +.|+++.|..+|++..+  -.+..|..+.++|++-.                +      ++-.+.-|+.+...+.     
T Consensus       260 r~g~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNs  339 (835)
T KOG2047|consen  260 RSGLFEKARDVYEEAIQTVMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNS  339 (835)
T ss_pred             HhhhhHHHHHHHHHHHHhheehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHH
Confidence            99999999999987655  22333344444433211                1      1112222222222110     


Q ss_pred             ------CCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCC------CchhHHHHHHHHHhcCCHHHHHHHHhhcCCC
Q 006997          228 ------TPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNN------EDPLDNLLVSMYTKCGDLELARRVFDAVLEK  295 (622)
Q Consensus       228 ------~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  295 (622)
                            +-+..+|..-  .-...|+..+....+.++.+.- .|      -...|..+...|-..|+++.|..+|++..+-
T Consensus       340 VlLRQn~~nV~eW~kR--V~l~e~~~~~~i~tyteAv~~v-dP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V  416 (835)
T KOG2047|consen  340 VLLRQNPHNVEEWHKR--VKLYEGNAAEQINTYTEAVKTV-DPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKV  416 (835)
T ss_pred             HHHhcCCccHHHHHhh--hhhhcCChHHHHHHHHHHHHcc-CcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcC
Confidence                  0011111111  1111233444444444444321 11      1123445555555666666666666655433


Q ss_pred             CH-------HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchh
Q 006997          296 SV-------FLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQ  368 (622)
Q Consensus       296 ~~-------~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  368 (622)
                      +-       ..|......-.+..+++.|+++.+.....   |....    + .+...+..-++ .         +-.+..
T Consensus       417 ~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~v---P~~~~----~-~~yd~~~pvQ~-r---------lhrSlk  478 (835)
T KOG2047|consen  417 PYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHV---PTNPE----L-EYYDNSEPVQA-R---------LHRSLK  478 (835)
T ss_pred             CccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcC---CCchh----h-hhhcCCCcHHH-H---------HHHhHH
Confidence            21       23334444444455555555555544332   11110    0 00011110000 0         001233


Q ss_pred             HHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHH---HHHHHHcCCHHHHHHHHHHhHHhcCCCCCH-HHHHHHHHHH
Q 006997          369 VQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAM---INGYAIHGMGDQALNLFYKMQHVEGLKPDA-VVYTSILSAC  444 (622)
Q Consensus       369 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l---~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~ll~~~  444 (622)
                      +|...++..-..|-++....+|+++.+--+.|=..+   ...+-.+.-++++.+++++-.. .--.|+. ..|+..+.-+
T Consensus       479 iWs~y~DleEs~gtfestk~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~-LFk~p~v~diW~tYLtkf  557 (835)
T KOG2047|consen  479 IWSMYADLEESLGTFESTKAVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGIS-LFKWPNVYDIWNTYLTKF  557 (835)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCc-cCCCccHHHHHHHHHHHH
Confidence            445555555556666666667766654222111111   1222334456677777766554 2223443 3444444433


Q ss_pred             hc---cCchHHHHHHHHHhHHhcCCCCCh--hHHHHHHHHHHhcCChHHHHHHHHhCC--CCCc--HHhHHHHHHHHHhc
Q 006997          445 SH---SGMVDDGLSFFKSMQSNFGIEPSI--EHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQ--AQVWAPLLSACMKH  515 (622)
Q Consensus       445 ~~---~g~~~~a~~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~--~~~~~~l~~~~~~~  515 (622)
                      .+   ...++.|..+|++.++  |.+|..  ..|-.....=.+.|-...|+.+++++.  .++.  ...|+.++.-....
T Consensus       558 i~rygg~klEraRdLFEqaL~--~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I~kaae~  635 (835)
T KOG2047|consen  558 IKRYGGTKLERARDLFEQALD--GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEI  635 (835)
T ss_pred             HHHhcCCCHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Confidence            32   2356777777777764  445431  222222333344566677777777764  2222  23444444433322


Q ss_pred             CCHHHHHHHHHHHHccCCCCCch--HHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          516 HNVELGEYAAKNLLTLNPGSTGN--YILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       516 ~~~~~a~~~~~~~~~~~p~~~~~--~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      =-+.....+|+++++.-|++...  -...+++-.+.|..+.|..++.--.+
T Consensus       636 yGv~~TR~iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq  686 (835)
T KOG2047|consen  636 YGVPRTREIYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQ  686 (835)
T ss_pred             hCCcccHHHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhh
Confidence            23344566777777766643322  23446666677777777777765444

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

Probab=99.50  E-value=6.1e-11  Score=103.93  Aligned_cols=216  Identities=18%  Similarity=0.169  Sum_probs=112.1

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhC-CCCC--chhHHHHHHHHHhcCCHHHH
Q 006997          209 VGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSG-YNNE--DPLDNLLVSMYTKCGDLELA  285 (622)
Q Consensus       209 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~l~~~~~~~~~~~~a  285 (622)
                      +++.++|.++|-+|.+.. +.+..+-.+|.+.|.+.|..+.|..+++.+.++. .+.+  ......|..-|...|-+|.|
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            456778888888877632 2223344456666777777777777777666542 1111  11233445556666666666


Q ss_pred             HHHHhhcCCCC---HHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH----HHHHHHHHHhccCChHHHHHHHHHH
Q 006997          286 RRVFDAVLEKS---VFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEA----TLATTLSACAELGSLSKGKEIEEYI  358 (622)
Q Consensus       286 ~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~ll~~~~~~~~~~~a~~~~~~~  358 (622)
                      +.+|..+.+.+   ..+...|+..|-...+|++|+++-+++.+.+-.+...    .|.-+...+....+.+.|...++.+
T Consensus       127 E~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kA  206 (389)
T COG2956         127 EDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKA  206 (389)
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            66666665532   2344556666666666666666666666554333321    2333444444445555555555555


Q ss_pred             HHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChh----HHHHHHHHHHHcCCHHHHHHHHHHhHH
Q 006997          359 VLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLA----VWSAMINGYAIHGMGDQALNLFYKMQH  426 (622)
Q Consensus       359 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~  426 (622)
                      .+.+ +.++.+--.+.+.+...|+++.|.+.++.+.+.|+.    +...+..+|.+.|+.++....+.++.+
T Consensus       207 lqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~  277 (389)
T COG2956         207 LQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAME  277 (389)
T ss_pred             HhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            5443 223333333444444555555555555544433322    233344444555555555555544444

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

Probab=99.48  E-value=9.9e-11  Score=108.31  Aligned_cols=187  Identities=14%  Similarity=0.127  Sum_probs=100.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc
Q 006997          269 DNLLVSMYTKCGDLELARRVFDAVLE---KSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAEL  345 (622)
Q Consensus       269 ~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~  345 (622)
                      |..+..+|....+.++....|.....   .++.+|..-...+.-.+++++|..-|++.+... +-+...|..+..+..+.
T Consensus       363 yI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~-pe~~~~~iQl~~a~Yr~  441 (606)
T KOG0547|consen  363 YIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADFQKAISLD-PENAYAYIQLCCALYRQ  441 (606)
T ss_pred             HHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHH
Confidence            44444445555555555555544421   133444444444444555555555555554432 11233444444444455


Q ss_pred             CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC--CC-------hhH--HHHHHHHHHHcCCH
Q 006997          346 GSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD--KD-------LAV--WSAMINGYAIHGMG  414 (622)
Q Consensus       346 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~-------~~~--~~~l~~~~~~~~~~  414 (622)
                      +.++.+...|++..+. +|..+.+|+-....+..++++++|.+.|+...+  |+       ..+  -..++. +.=.+++
T Consensus       442 ~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~-~qwk~d~  519 (606)
T KOG0547|consen  442 HKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLV-LQWKEDI  519 (606)
T ss_pred             HHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhh-hchhhhH
Confidence            5555555555555443 344555555555555555666666655554431  21       111  111111 1123677


Q ss_pred             HHHHHHHHHhHHhcCCCCCH-HHHHHHHHHHhccCchHHHHHHHHHhH
Q 006997          415 DQALNLFYKMQHVEGLKPDA-VVYTSILSACSHSGMVDDGLSFFKSMQ  461 (622)
Q Consensus       415 ~~a~~~~~~~~~~~~~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~  461 (622)
                      ..|.+++.+..+   +.|.. ..|..|...-.+.|+.++|+++|++..
T Consensus       520 ~~a~~Ll~KA~e---~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  520 NQAENLLRKAIE---LDPKCEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             HHHHHHHHHHHc---cCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            888888888877   77764 578888888888888888888888765

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

Probab=99.47  E-value=5.6e-10  Score=101.18  Aligned_cols=119  Identities=15%  Similarity=0.137  Sum_probs=57.8

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHH
Q 006997          209 VGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRV  288 (622)
Q Consensus       209 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  288 (622)
                      .|++.+|.++..+-.+.+-.| ...|..-..+.-..|+.+.+-.++.++-+..-.++..+.-+........|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            466666666666655544222 2233344444455556666655555555442233444444444444555555555444


Q ss_pred             HhhcC---CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006997          289 FDAVL---EKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSV  328 (622)
Q Consensus       289 ~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~  328 (622)
                      ++++.   ..++........+|.+.|++.....++.++.+.|.
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~  218 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGL  218 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccC
Confidence            44332   22344444444555555555555555555554443

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

Probab=99.47  E-value=1.5e-10  Score=104.84  Aligned_cols=253  Identities=12%  Similarity=0.082  Sum_probs=145.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCC
Q 006997          303 MIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGR  382 (622)
Q Consensus       303 l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  382 (622)
                      -+.+-.+.|+.+.+-.++.+..+.--.++...+.+..+.....|+++.|..-.+.+.+.+ +.++.+......+|.+.|+
T Consensus       124 aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~ll~~~-pr~~~vlrLa~r~y~~~g~  202 (400)
T COG3071         124 AAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQLLEMT-PRHPEVLRLALRAYIRLGA  202 (400)
T ss_pred             HHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHHHHHhC-cCChHHHHHHHHHHHHhcc
Confidence            333444445555555555544443222333333344444444555555555555444443 3344444445555555555


Q ss_pred             hHHHHHHhccCCCCC-----------hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchH
Q 006997          383 INKAKEVFERVPDKD-----------LAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVD  451 (622)
Q Consensus       383 ~~~A~~~~~~~~~~~-----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~  451 (622)
                      +.....++..+.+..           ..+|+.++.-....+..+.-...|+....  ..+.++..-.+++.-+...|+.+
T Consensus       203 ~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr--~lr~~p~l~~~~a~~li~l~~~~  280 (400)
T COG3071         203 WQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPR--KLRNDPELVVAYAERLIRLGDHD  280 (400)
T ss_pred             HHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccH--HhhcChhHHHHHHHHHHHcCChH
Confidence            555555555444321           12455555544444444444455555543  23444555566666777778888


Q ss_pred             HHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 006997          452 DGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLL  529 (622)
Q Consensus       452 ~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  529 (622)
                      +|.++.++..++ +..|+   ...+ -...+-++...-++..++..  .+.++..+.+|+..|.+++.+.+|...++.++
T Consensus       281 ~A~~~i~~~Lk~-~~D~~---L~~~-~~~l~~~d~~~l~k~~e~~l~~h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl  355 (400)
T COG3071         281 EAQEIIEDALKR-QWDPR---LCRL-IPRLRPGDPEPLIKAAEKWLKQHPEDPLLLSTLGRLALKNKLWGKASEALEAAL  355 (400)
T ss_pred             HHHHHHHHHHHh-ccChh---HHHH-HhhcCCCCchHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            888877777755 44444   1111 12234455555555554443  23345677888888888888888888888888


Q ss_pred             ccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          530 TLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       530 ~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ...| +.+.|..+++++.+.|+..+|.++++....
T Consensus       356 ~~~~-s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         356 KLRP-SASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             hcCC-ChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            8888 678888888888888888888888887653

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.46  E-value=2e-09  Score=95.73  Aligned_cols=464  Identities=12%  Similarity=0.086  Sum_probs=277.9

Q ss_pred             HHHhhcCCChhHHHHHhccCCCC-CCCcchHH-HHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhh-----
Q 006997           72 IDMYSKCSDFVSSRKVLDEMPVR-LRSVVSWN-SIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCS-----  144 (622)
Q Consensus        72 ~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~-~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~-----  144 (622)
                      +.-+...+++..|+.+++--... .......+ .+..++.+.|++++|+..|..+.+.. .|+......+ ..|.     
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnL-Acc~FyLg~  106 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNL-ACCKFYLGQ  106 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhH-HHHHHHHHH
Confidence            44556678899999988765432 11122222 34567789999999999999987744 3333333222 1111     


Q ss_pred             hhhhHHHHHHHHHhCCCCCChhh-HhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHH
Q 006997          145 FRQGISMHCCVYKLGLLNNEIPL-ANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMR  223 (622)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  223 (622)
                      ..+++.+....      | +.+. ...|+....+.|+-.+-..+-+.+.+.. ..--++.....-.-.+++|++++....
T Consensus       107 Y~eA~~~~~ka------~-k~pL~~RLlfhlahklndEk~~~~fh~~LqD~~-EdqLSLAsvhYmR~HYQeAIdvYkrvL  178 (557)
T KOG3785|consen  107 YIEAKSIAEKA------P-KTPLCIRLLFHLAHKLNDEKRILTFHSSLQDTL-EDQLSLASVHYMRMHYQEAIDVYKRVL  178 (557)
T ss_pred             HHHHHHHHhhC------C-CChHHHHHHHHHHHHhCcHHHHHHHHHHHhhhH-HHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344333322      2 3333 3444566666777666666555554321 222334444444456889999998887


Q ss_pred             HCCCCCCHhHHHHHHH-HHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHH
Q 006997          224 RMSVTPDLVVFLNLIL-GCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTS  302 (622)
Q Consensus       224 ~~~~~p~~~~~~~ll~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  302 (622)
                      ..  .|+-...+.-+. +|.+..-++-+.++++-.++. ++.++...|.......+.=.-..|..-..++...-...| .
T Consensus       179 ~d--n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~-~  254 (557)
T KOG3785|consen  179 QD--NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEY-P  254 (557)
T ss_pred             hc--ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccc-h
Confidence            64  355555554333 455667777777777766654 345555555554444443222222222222221111111 1


Q ss_pred             HHHHHHhc-----CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 006997          303 MIGGYAQL-----GYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMF  377 (622)
Q Consensus       303 l~~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  377 (622)
                      .+.-.++.     ..-+.|++++-.+.+.  .|..  -..++-.|.+.+++.+|..+.+.+.    |.++.-|-.-.-.+
T Consensus       255 f~~~l~rHNLVvFrngEgALqVLP~L~~~--IPEA--RlNL~iYyL~q~dVqeA~~L~Kdl~----PttP~EyilKgvv~  326 (557)
T KOG3785|consen  255 FIEYLCRHNLVVFRNGEGALQVLPSLMKH--IPEA--RLNLIIYYLNQNDVQEAISLCKDLD----PTTPYEYILKGVVF  326 (557)
T ss_pred             hHHHHHHcCeEEEeCCccHHHhchHHHhh--ChHh--hhhheeeecccccHHHHHHHHhhcC----CCChHHHHHHHHHH
Confidence            22223333     3456778777766543  3322  2345556889999999988876652    33333332222223


Q ss_pred             Hhc-------CChHHHHHHhccCCCC-----ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHh
Q 006997          378 SKC-------GRINKAKEVFERVPDK-----DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACS  445 (622)
Q Consensus       378 ~~~-------~~~~~A~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~  445 (622)
                      ...       ..+.-|.+.|+-.-..     .+.--.++.+.+.-..++++++..+..+.. .-. .|...-..+..+++
T Consensus       327 aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~s-YF~-NdD~Fn~N~AQAk~  404 (557)
T KOG3785|consen  327 AALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIES-YFT-NDDDFNLNLAQAKL  404 (557)
T ss_pred             HHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHH-Hhc-CcchhhhHHHHHHH
Confidence            332       3456677777765432     333455677777788899999999999886 333 33333345788999


Q ss_pred             ccCchHHHHHHHHHhHHhcCCC-CChhHHH-HHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHH-HHHHHHhcCCHHHHH
Q 006997          446 HSGMVDDGLSFFKSMQSNFGIE-PSIEHYL-CLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAP-LLSACMKHHNVELGE  522 (622)
Q Consensus       446 ~~g~~~~a~~~~~~~~~~~~~~-p~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~  522 (622)
                      ..|++.+|.++|-.+.   |.+ .|..+|. .|.++|.++++++-|++++-++..+.+..++.. +..-|.+.+.+=-|.
T Consensus       405 atgny~eaEelf~~is---~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaa  481 (557)
T KOG3785|consen  405 ATGNYVEAEELFIRIS---GPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAA  481 (557)
T ss_pred             HhcChHHHHHHHhhhc---ChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999998876   333 3555665 567899999999999999999874444444444 455788999999999


Q ss_pred             HHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCccCCC
Q 006997          523 YAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPG  572 (622)
Q Consensus       523 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  572 (622)
                      +.|..+-.++| +|+.|.         |+--...-+|..+......+.|+
T Consensus       482 KAFd~lE~lDP-~pEnWe---------GKRGACaG~f~~l~~~~~~~~p~  521 (557)
T KOG3785|consen  482 KAFDELEILDP-TPENWE---------GKRGACAGLFRQLANHKTDPIPI  521 (557)
T ss_pred             HhhhHHHccCC-CccccC---------CccchHHHHHHHHHcCCCCCCch
Confidence            99999988999 565553         44444556777776655555553

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

Probab=99.45  E-value=1.5e-10  Score=101.60  Aligned_cols=293  Identities=14%  Similarity=0.144  Sum_probs=160.7

Q ss_pred             CChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCC-CH------HHHHHHHHHHHhcCChHHHH
Q 006997          245 GNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEK-SV------FLWTSMIGGYAQLGYPSEAV  317 (622)
Q Consensus       245 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~------~~~~~l~~~~~~~~~~~~a~  317 (622)
                      .+.++|.+.|-+|.+.. +.+..+.-+|.+.|.+.|..|.|+++-..+.++ |.      .+.-.|..-|...|-++.|.
T Consensus        49 ~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE  127 (389)
T COG2956          49 NQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAE  127 (389)
T ss_pred             cCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            45556666666665532 334444455666666666666666665555332 21      23334455555566666666


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCC
Q 006997          318 NLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKD  397 (622)
Q Consensus       318 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  397 (622)
                      .+|..+.+.+ ..-......|+..|-...+|++|.++-+.+.+.+.++...   .+.                       
T Consensus       128 ~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~---eIA-----------------------  180 (389)
T COG2956         128 DIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRV---EIA-----------------------  180 (389)
T ss_pred             HHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchh---HHH-----------------------
Confidence            6666555543 2233344455555555555555555555554443222110   001                       


Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHH-HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHH
Q 006997          398 LAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAV-VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCL  476 (622)
Q Consensus       398 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  476 (622)
                       ..|.-+...+....+.+.|..++.+..+   ..|+.+ .-..+.+.....|+++.|.+.|+.+.+. +..--..+...|
T Consensus       181 -qfyCELAq~~~~~~~~d~A~~~l~kAlq---a~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQ-n~~yl~evl~~L  255 (389)
T COG2956         181 -QFYCELAQQALASSDVDRARELLKKALQ---ADKKCVRASIILGRVELAKGDYQKAVEALERVLEQ-NPEYLSEVLEML  255 (389)
T ss_pred             -HHHHHHHHHHhhhhhHHHHHHHHHHHHh---hCccceehhhhhhHHHHhccchHHHHHHHHHHHHh-ChHHHHHHHHHH
Confidence             1233344455555667777777777666   445432 3334455666777777777777777644 222235566667


Q ss_pred             HHHHHhcCChHHHHHHHHhCC-CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHH-H--hcCCh
Q 006997          477 VDLLGRAGRFDLALKTIHEMP-VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLF-T--SAGMW  552 (622)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~-~--~~g~~  552 (622)
                      ..+|...|+.++....+.++. ..+.......+........-.+.|...+.+-+...|. ...+..+.+.. .  .-|+.
T Consensus       256 ~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt-~~gf~rl~~~~l~daeeg~~  334 (389)
T COG2956         256 YECYAQLGKPAEGLNFLRRAMETNTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPT-MRGFHRLMDYHLADAEEGRA  334 (389)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCc-HHHHHHHHHhhhccccccch
Confidence            777777777777777776654 4444444444444444444556666666666667773 33344444433 2  23567


Q ss_pred             HHHHHHHHHhhhCCCccCC
Q 006997          553 KEAATARGLMDDRRLTKEP  571 (622)
Q Consensus       553 ~~A~~~~~~~~~~~~~~~~  571 (622)
                      .+.+..++.|....++..|
T Consensus       335 k~sL~~lr~mvge~l~~~~  353 (389)
T COG2956         335 KESLDLLRDMVGEQLRRKP  353 (389)
T ss_pred             hhhHHHHHHHHHHHHhhcC
Confidence            7888888888776665555

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

Probab=99.44  E-value=1.7e-09  Score=98.07  Aligned_cols=369  Identities=12%  Similarity=0.037  Sum_probs=248.1

Q ss_pred             ChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcch-HHHHHHHHHcCC-C-hhHHH-------------HHHHHHHHC--
Q 006997          164 EIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVS-WTTIIGGYVNVG-N-VNEAF-------------GLCNQMRRM--  225 (622)
Q Consensus       164 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~li~~~~~~~-~-~~~a~-------------~~~~~m~~~--  225 (622)
                      +.......+..|...|+-+.|.....+.+..-... -|.|+.-+.+.| + .+.+.             +.+.-..+.  
T Consensus        96 ~~e~~r~~aecy~~~~n~~~Ai~~l~~~p~t~r~p~inlMla~l~~~g~r~~~~vl~ykevvrecp~aL~~i~~ll~l~v  175 (564)
T KOG1174|consen   96 DAEQRRRAAECYRQIGNTDMAIETLLQVPPTLRSPRINLMLARLQHHGSRHKEAVLAYKEVIRECPMALQVIEALLELGV  175 (564)
T ss_pred             cHHHHHHHHHHHHHHccchHHHHHHhcCCccccchhHHHHHHHHHhccccccHHHHhhhHHHHhcchHHHHHHHHHHHhh
Confidence            55555566777778888888888888877633222 333333332222 1 11111             111111111  


Q ss_pred             -------------CCCCCHhHHHHHHHHHhc--cCChHHHHHHHHHHHH-hCCCCCchhHHHHHHHHHhcCCHHHHHHHH
Q 006997          226 -------------SVTPDLVVFLNLILGCAQ--VGNLFLALSMHSLLLK-SGYNNEDPLDNLLVSMYTKCGDLELARRVF  289 (622)
Q Consensus       226 -------------~~~p~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  289 (622)
                                   .+.|+..+....+.+++.  .++-..+...+-.+.. .-++.+......+...+...|+.++|...|
T Consensus       176 ~g~e~~S~~m~~~~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~F  255 (564)
T KOG1174|consen  176 NGNEINSLVMHAATVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIF  255 (564)
T ss_pred             cchhhhhhhhhheecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHH
Confidence                         123333444444444433  3333344444333333 347888889999999999999999999999


Q ss_pred             hhcCCCCHHHHHH---HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCc
Q 006997          290 DAVLEKSVFLWTS---MIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESN  366 (622)
Q Consensus       290 ~~~~~~~~~~~~~---l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  366 (622)
                      ++...-|+.+...   ..-.+.+.|+.++...+...+.... .-+...|-.-....-..++++.|..+-++.++.+ +.+
T Consensus       256 e~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~  333 (564)
T KOG1174|consen  256 SSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRN  333 (564)
T ss_pred             HHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-ccc
Confidence            9876555443332   3334567788888877777765432 1222233233334455678888888888887765 445


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHhccCC--C-CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHH-H
Q 006997          367 RQVQTSLIHMFSKCGRINKAKEVFERVP--D-KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSIL-S  442 (622)
Q Consensus       367 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll-~  442 (622)
                      ...+-.-...+...|++++|.-.|+...  . .+...|.-++.+|...|++.+|..+-....+  -++.+..+...+. .
T Consensus       334 ~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~--~~~~sA~~LtL~g~~  411 (564)
T KOG1174|consen  334 HEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIR--LFQNSARSLTLFGTL  411 (564)
T ss_pred             chHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHH--Hhhcchhhhhhhcce
Confidence            5555555677888999999999998765  3 4778999999999999999999988877665  2334556665553 3


Q ss_pred             HHh-ccCchHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCcHHhHHHHHHHHHhcCCHH
Q 006997          443 ACS-HSGMVDDGLSFFKSMQSNFGIEPS-IEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQAQVWAPLLSACMKHHNVE  519 (622)
Q Consensus       443 ~~~-~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~  519 (622)
                      .|. ....-++|.+++++..   .+.|+ ....+.+...+.+.|..++++.++++.. ..||....+.|+..+...+.++
T Consensus       412 V~~~dp~~rEKAKkf~ek~L---~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q  488 (564)
T KOG1174|consen  412 VLFPDPRMREKAKKFAEKSL---KINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQ  488 (564)
T ss_pred             eeccCchhHHHHHHHHHhhh---ccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHH
Confidence            333 3334578999998877   55776 4566778889999999999999999876 7899999999999999999999


Q ss_pred             HHHHHHHHHHccCCCCCchH
Q 006997          520 LGEYAAKNLLTLNPGSTGNY  539 (622)
Q Consensus       520 ~a~~~~~~~~~~~p~~~~~~  539 (622)
                      +|...|..++.++|++..+.
T Consensus       489 ~am~~y~~ALr~dP~~~~sl  508 (564)
T KOG1174|consen  489 KAMEYYYKALRQDPKSKRTL  508 (564)
T ss_pred             HHHHHHHHHHhcCccchHHH
Confidence            99999999999999765433

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.44  E-value=1.4e-09  Score=103.32  Aligned_cols=438  Identities=12%  Similarity=0.107  Sum_probs=245.7

Q ss_pred             HHHhhcCCChhHHHHHhccCCCC-CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHH
Q 006997           72 IDMYSKCSDFVSSRKVLDEMPVR-LRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGIS  150 (622)
Q Consensus        72 ~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~  150 (622)
                      ++.+...|++++|.+....+... +.+...+..=+-++.+.+++++|+.+.+.-...  .    ++              
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~----~~--------------   78 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--L----VI--------------   78 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--h----hc--------------
Confidence            34455566666666666655544 344555566666666666677766444332100  0    00              


Q ss_pred             HHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCC
Q 006997          151 MHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPD  230 (622)
Q Consensus       151 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  230 (622)
                                   +... -.-.-+..+.++.++|+..++.....+..+...-...+.+.|++++|+++|+.+.+.+..--
T Consensus        79 -------------~~~~-fEKAYc~Yrlnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~  144 (652)
T KOG2376|consen   79 -------------NSFF-FEKAYCEYRLNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQ  144 (652)
T ss_pred             -------------chhh-HHHHHHHHHcccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchH
Confidence                         0000 01112234567777777777755444544555556677788888888888888766543211


Q ss_pred             -HhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHH---HHHHHHhcCCHHHHHHHHhhc--------CCCC--
Q 006997          231 -LVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNL---LVSMYTKCGDLELARRVFDAV--------LEKS--  296 (622)
Q Consensus       231 -~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---l~~~~~~~~~~~~a~~~~~~~--------~~~~--  296 (622)
                       ...-..++.+-...    .+    ..+......| ..+|..   ....+...|++.+|+++++..        ...|  
T Consensus       145 d~~~r~nl~a~~a~l----~~----~~~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~  215 (652)
T KOG2376|consen  145 DEERRANLLAVAAAL----QV----QLLQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTN  215 (652)
T ss_pred             HHHHHHHHHHHHHhh----hH----HHHHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccc
Confidence             11111111111100    00    0111111122 223332   233456778888888887766        1111  


Q ss_pred             ---H-----HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH---HHhccCChHH--HHHHHH-------
Q 006997          297 ---V-----FLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLS---ACAELGSLSK--GKEIEE-------  356 (622)
Q Consensus       297 ---~-----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~---~~~~~~~~~~--a~~~~~-------  356 (622)
                         +     .....|..++...|+.++|.++|...++.. .+|.........   +.....++..  ....++       
T Consensus       216 eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~  294 (652)
T KOG2376|consen  216 EEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKRN-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLA  294 (652)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhH
Confidence               1     133446667888999999999999998875 344432222211   2221111111  111111       


Q ss_pred             ----HHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCC-hhHHHHHHHHH--HHcCCHHHHHHHHHHhHHhcC
Q 006997          357 ----YIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKD-LAVWSAMINGY--AIHGMGDQALNLFYKMQHVEG  429 (622)
Q Consensus       357 ----~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~l~~~~--~~~~~~~~a~~~~~~~~~~~~  429 (622)
                          .............-+.++.+|.  +..+.+.++....+... ...+.+++...  ++...+.++.+++....+   
T Consensus       295 ~~~l~~Ls~~qk~~i~~N~~lL~l~t--nk~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~---  369 (652)
T KOG2376|consen  295 EFLLSKLSKKQKQAIYRNNALLALFT--NKMDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFAD---  369 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh--hhHHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhc---
Confidence                1111111112222344555554  44566777776666432 23334444332  233357788888888776   


Q ss_pred             CCCCH--HHHHHHHHHHhccCchHHHHHHHH--------HhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--
Q 006997          430 LKPDA--VVYTSILSACSHSGMVDDGLSFFK--------SMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--  497 (622)
Q Consensus       430 ~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~--------~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--  497 (622)
                      -.|..  ......+......|+++.|.+++.        .+.   .+...+.+...+...+.+.++.+-|..++.+..  
T Consensus       370 ~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~---~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~  446 (652)
T KOG2376|consen  370 GHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSIL---EAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKW  446 (652)
T ss_pred             cCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhh---hhccChhHHHHHHHHHHhccCCccHHHHHHHHHHH
Confidence            34443  455666677889999999999998        444   234456677778888988888777777776653  


Q ss_pred             ---CCCcHH----hHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 006997          498 ---VEVQAQ----VWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLM  562 (622)
Q Consensus       498 ---~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (622)
                         ..+...    .|.-+...-.++|+-++|..+++++++.+|++..+...++-+|++. +.+.|..+-+++
T Consensus       447 ~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n~~d~~~l~~lV~a~~~~-d~eka~~l~k~L  517 (652)
T KOG2376|consen  447 WRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFNPNDTDLLVQLVTAYARL-DPEKAESLSKKL  517 (652)
T ss_pred             HHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhCCchHHHHHHHHHHHHhc-CHHHHHHHhhcC
Confidence               112222    3333444456779999999999999999999999999999998876 466677666554

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.43  E-value=3e-11  Score=110.60  Aligned_cols=195  Identities=13%  Similarity=0.096  Sum_probs=155.9

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHH
Q 006997          367 RQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILS  442 (622)
Q Consensus       367 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~  442 (622)
                      ...+..+...+...|++++|.+.+++..+   .+...+..+...+...|++++|.+.+++..+   ..| +...+..+..
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~---~~~~~~~~~~~~~~  107 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALT---LNPNNGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCCHHHHHHHHH
Confidence            45566667777777777777777776543   2355677778888889999999999998887   334 3566777888


Q ss_pred             HHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-C-CCcHHhHHHHHHHHHhcCCHHH
Q 006997          443 ACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-V-EVQAQVWAPLLSACMKHHNVEL  520 (622)
Q Consensus       443 ~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~  520 (622)
                      .+...|++++|.+.++++............+..+...+...|++++|.+.+++.. . +.+...+..+...+...|++++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHH
Confidence            8889999999999999988541222245567778888999999999999998876 3 3346678888999999999999


Q ss_pred             HHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          521 GEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       521 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      |...++++++..|.++..+..++.++...|+.++|..+.+.+..
T Consensus       188 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       188 ARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            99999999999888888899999999999999999999887764

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

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

Probab=99.39  E-value=2.7e-09  Score=106.03  Aligned_cols=482  Identities=11%  Similarity=0.072  Sum_probs=281.9

Q ss_pred             HHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCC--CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcC
Q 006997           51 RVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVR--LRSVVSWNSIISAHSRACLNDEAILVLKEMWVLG  128 (622)
Q Consensus        51 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~  128 (622)
                      .++..+...|+.|+..+|.++|..||..|+.+.|- +|..|.-.  +-+...++.++.+..+.++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            45677788999999999999999999999999998 88888754  456677899999999999887766          


Q ss_pred             CCCChhhHHHHHhhhh-------hhhhHHHHHH----HHHhCCCC-------------CChhhHhHHHHHHHhcCChHHH
Q 006997          129 LELSASTFVSVVSGCS-------FRQGISMHCC----VYKLGLLN-------------NEIPLANSVMSMYAKFGKVNEA  184 (622)
Q Consensus       129 ~~p~~~t~~~ll~~~~-------~~~~~~~~~~----~~~~~~~~-------------~~~~~~~~l~~~~~~~g~~~~A  184 (622)
                       .|.+.||..++.++.       ++..++.+..    ....|...             .-.....+.+......|-++.+
T Consensus        80 -ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaql  158 (1088)
T KOG4318|consen   80 -EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQL  158 (1088)
T ss_pred             -CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHH
Confidence             788889999999988       2333331111    22222221             1222224455556666778888


Q ss_pred             HHHHhhcCCCCc-chHHHHHHHHHcCC-ChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCC
Q 006997          185 RSIFDEIGETSI-VSWTTIIGGYVNVG-NVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGY  262 (622)
Q Consensus       185 ~~~~~~~~~~~~-~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  262 (622)
                      ++++..++.... ...-.+++-..... .+++-........+   .|++.+|..++.+-...|+.+.|..++..|.+.|+
T Consensus       159 lkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gf  235 (1088)
T KOG4318|consen  159 LKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGF  235 (1088)
T ss_pred             HHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCC
Confidence            888877764111 01111233333222 23333333333322   59999999999999999999999999999999999


Q ss_pred             CCCchhHHHHHHHHHhcCCHHHHHHHHhhc----CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH
Q 006997          263 NNEDPLDNLLVSMYTKCGDLELARRVFDAV----LEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATT  338 (622)
Q Consensus       263 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  338 (622)
                      +.+..-|-.|+-+   .++...+..+++.|    ..|+..|+...+..+..+|+...+        +.| .+....+.+-
T Consensus       236 pir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~--------~e~-sq~~hg~tAa  303 (1088)
T KOG4318|consen  236 PIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYG--------EEG-SQLAHGFTAA  303 (1088)
T ss_pred             Ccccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhc--------ccc-cchhhhhhHH
Confidence            9999888887655   67777777776666    466778887777776665552221        122 2233332222


Q ss_pred             HHHHhccC-----ChHH-----HHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCC-------ChhHH
Q 006997          339 LSACAELG-----SLSK-----GKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDK-------DLAVW  401 (622)
Q Consensus       339 l~~~~~~~-----~~~~-----a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-------~~~~~  401 (622)
                      ..+-.-.|     ..+.     ....+....-.|+.....+|...+.. ..+|+-+..+++-..+..|       ++..|
T Consensus       304 vrsaa~rg~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~l-~hQgk~e~veqlvg~l~npt~r~s~~~V~a~  382 (1088)
T KOG4318|consen  304 VRSAACRGLLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEKL-RHQGKGEEVEQLVGQLLNPTLRDSGQNVDAF  382 (1088)
T ss_pred             HHHHHhcccHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHHHH-HHcCCCchHHHHHhhhcCCccccCcchHHHH
Confidence            22222222     1111     11112222223444444455444333 3368888888887777654       34455


Q ss_pred             HHHHHHHHHcCCHHHHHHHHH--HhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHh---cCCCC-------C
Q 006997          402 SAMINGYAIHGMGDQALNLFY--KMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSN---FGIEP-------S  469 (622)
Q Consensus       402 ~~l~~~~~~~~~~~~a~~~~~--~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~---~~~~p-------~  469 (622)
                      ..++.-|.+.-+..-...++.  +...   ...+....-.+.....+. ....+.+-+..+...   ....|       -
T Consensus       383 ~~~lrqyFrr~e~~~~~~i~~~~qgls---~~l~se~tp~vsell~~l-rkns~lr~lv~Lss~Eler~he~~~~~~h~i  458 (1088)
T KOG4318|consen  383 GALLRQYFRRIERHICSRIYYAGQGLS---LNLNSEDTPRVSELLENL-RKNSFLRQLVGLSSTELERSHEPWPLIAHLI  458 (1088)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHH---hhhchhhhHHHHHHHHHh-CcchHHHHHhhhhHHHHhcccccchhhhhHH
Confidence            554444433221111111111  1111   000111001111111111 222222222211111   01111       1


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC---CCchHHHHHHHH
Q 006997          470 IEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG---STGNYILMANLF  546 (622)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~  546 (622)
                      ...-+.++..+.+.-+..+++..-++....--...|..|+.-+..+...+.|.....+....+..   +-.-+..+.+++
T Consensus       459 rdi~~ql~l~l~se~n~lK~l~~~ekye~~lf~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL  538 (1088)
T KOG4318|consen  459 RDIANQLHLTLNSEYNKLKILCDEEKYEDLLFAGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLL  538 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHH
Confidence            23344566667776666777655554431111366888999999999999999999988664432   345677889999


Q ss_pred             HhcCChHHHHHHHHHhhh
Q 006997          547 TSAGMWKEAATARGLMDD  564 (622)
Q Consensus       547 ~~~g~~~~A~~~~~~~~~  564 (622)
                      .+.+...++..+++.+.+
T Consensus       539 ~r~~~l~dl~tiL~e~ks  556 (1088)
T KOG4318|consen  539 QRLAILYDLSTILYEDKS  556 (1088)
T ss_pred             HHhHHHHHHHHHHhhhhH
Confidence            999999999999998876

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

Probab=99.39  E-value=2.7e-11  Score=106.12  Aligned_cols=228  Identities=15%  Similarity=0.100  Sum_probs=163.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc
Q 006997          301 TSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKC  380 (622)
Q Consensus       301 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  380 (622)
                      +.+...|.+.|.+.+|.+.|+...+.  .|-+.||..|-+.|.+..+++.|..++.+-.+.- |.               
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-P~---------------  288 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-PF---------------  288 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-Cc---------------
Confidence            44555566666666666655555544  3444455445555555555544444444433321 11               


Q ss_pred             CChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCchHHHHHHHHH
Q 006997          381 GRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGMVDDGLSFFKS  459 (622)
Q Consensus       381 ~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~  459 (622)
                                      |+....-+...+-..++.++|.++++...+   ..| +.....++...|.-.++++-|..+|++
T Consensus       289 ----------------~VT~l~g~ARi~eam~~~~~a~~lYk~vlk---~~~~nvEaiAcia~~yfY~~~PE~AlryYRR  349 (478)
T KOG1129|consen  289 ----------------DVTYLLGQARIHEAMEQQEDALQLYKLVLK---LHPINVEAIACIAVGYFYDNNPEMALRYYRR  349 (478)
T ss_pred             ----------------hhhhhhhhHHHHHHHHhHHHHHHHHHHHHh---cCCccceeeeeeeeccccCCChHHHHHHHHH
Confidence                            222223345566667788888888888876   444 355666777778888888999999988


Q ss_pred             hHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC---CCCc--HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC
Q 006997          460 MQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP---VEVQ--AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG  534 (622)
Q Consensus       460 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  534 (622)
                      +.+. |+ .+++.|+.+.-+|.-.++++-++.-|++..   ..|+  .++|..+.......||+..|.+.|+-++..+|+
T Consensus       350 iLqm-G~-~speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~  427 (478)
T KOG1129|consen  350 ILQM-GA-QSPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ  427 (478)
T ss_pred             HHHh-cC-CChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc
Confidence            8865 53 467888888888888889998888888775   2344  668999999999999999999999999999999


Q ss_pred             CCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          535 STGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       535 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      +...+++|+-+-.+.|++++|..++.......+
T Consensus       428 h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P  460 (478)
T KOG1129|consen  428 HGEALNNLAVLAARSGDILGARSLLNAAKSVMP  460 (478)
T ss_pred             hHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCc
Confidence            999999999999999999999999998876544

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

Probab=99.38  E-value=5e-11  Score=99.65  Aligned_cols=162  Identities=17%  Similarity=0.107  Sum_probs=144.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH-HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHH
Q 006997          400 VWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDA-VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLV  477 (622)
Q Consensus       400 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~  477 (622)
                      +..-+.-+|...|+...|.+-+++..+   ..|+. .++..+...|.+.|..+.|.+.|+++.+   +.| +..+.|...
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~---~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls---l~p~~GdVLNNYG  110 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALE---HDPSYYLAHLVRAHYYQKLGENDLADESYRKALS---LAPNNGDVLNNYG  110 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHh---cCCCccchhhhhh
Confidence            344567789999999999999999998   77874 6888999999999999999999999984   466 578889999


Q ss_pred             HHHHhcCChHHHHHHHHhCCCCCc----HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChH
Q 006997          478 DLLGRAGRFDLALKTIHEMPVEVQ----AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWK  553 (622)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  553 (622)
                      .-++..|++++|...|+++...|.    ..+|..++.+..+.|+++.|+..++++++.+|+.+.....++....+.|++-
T Consensus       111 ~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~  190 (250)
T COG3063         111 AFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYA  190 (250)
T ss_pred             HHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccch
Confidence            999999999999999999874443    6689999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhCCC
Q 006997          554 EAATARGLMDDRRL  567 (622)
Q Consensus       554 ~A~~~~~~~~~~~~  567 (622)
                      .|...++....++.
T Consensus       191 ~Ar~~~~~~~~~~~  204 (250)
T COG3063         191 PARLYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHHHHhccc
Confidence            99999999887665

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

Probab=99.37  E-value=1.3e-07  Score=91.08  Aligned_cols=441  Identities=12%  Similarity=0.114  Sum_probs=237.6

Q ss_pred             chhHHHHHHHhhcCCChhHHHHHhccCCCC---CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHh
Q 006997           65 AFVQTGLIDMYSKCSDFVSSRKVLDEMPVR---LRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVS  141 (622)
Q Consensus        65 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~  141 (622)
                      +.+|-..+....++|++..-+..|+.....   ......|...+......+-++-++.+|++.++.              
T Consensus       102 pRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~--------------  167 (835)
T KOG2047|consen  102 PRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV--------------  167 (835)
T ss_pred             CHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc--------------
Confidence            445555566666666666666666654433   223445666666666666666666666666552              


Q ss_pred             hhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCC----------CcchHHHHHHHHHcCCC
Q 006997          142 GCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGET----------SIVSWTTIIGGYVNVGN  211 (622)
Q Consensus       142 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----------~~~~~~~li~~~~~~~~  211 (622)
                                            ++...+..+..++..+++++|.+.+..+...          +-..|+.+-...+++-+
T Consensus       168 ----------------------~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~  225 (835)
T KOG2047|consen  168 ----------------------APEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPD  225 (835)
T ss_pred             ----------------------CHHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcc
Confidence                                  3333455666677777777777777766542          22345554444444433


Q ss_pred             hhH---HHHHHHHHHHCCCCCCH--hHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHH
Q 006997          212 VNE---AFGLCNQMRRMSVTPDL--VVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELAR  286 (622)
Q Consensus       212 ~~~---a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  286 (622)
                      .-.   ...+++.+..  .-+|.  ..+++|.+-|.+.|.++.|..++++.+..-  .+..-++.+.+.|+.-....-+.
T Consensus       226 ~~~slnvdaiiR~gi~--rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FEE~~~~~  301 (835)
T KOG2047|consen  226 KVQSLNVDAIIRGGIR--RFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFEESCVAA  301 (835)
T ss_pred             hhcccCHHHHHHhhcc--cCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHHHHHHHH
Confidence            222   2223333322  12332  345666666666666666666666655542  22223333333343221111111


Q ss_pred             HHH-h--hc-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCC-----------CCCCHHHHHHHHHHHhccCChHHH
Q 006997          287 RVF-D--AV-LEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTS-----------VRPNEATLATTLSACAELGSLSKG  351 (622)
Q Consensus       287 ~~~-~--~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-----------~~~~~~~~~~ll~~~~~~~~~~~a  351 (622)
                      .+= .  .. .+.+..             +++-.+.-|+.+...+           -+-+..+|..-..  ...|+..+.
T Consensus       302 ~me~a~~~~~n~ed~~-------------dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~  366 (835)
T KOG2047|consen  302 KMELADEESGNEEDDV-------------DLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQ  366 (835)
T ss_pred             HHhhhhhcccChhhhh-------------hHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhh--hhcCChHHH
Confidence            000 0  00 000000             1111222222222211           0112223322222  223455555


Q ss_pred             HHHHHHHHHcCCCC------chhHHHHHHHHHHhcCChHHHHHHhccCCCCCh-------hHHHHHHHHHHHcCCHHHHH
Q 006997          352 KEIEEYIVLNGLES------NRQVQTSLIHMFSKCGRINKAKEVFERVPDKDL-------AVWSAMINGYAIHGMGDQAL  418 (622)
Q Consensus       352 ~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~  418 (622)
                      ...+.++++.- .|      -...+..+.+.|-..|+++.|..+|++..+-+-       .+|..-...-.++.+++.|+
T Consensus       367 i~tyteAv~~v-dP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al  445 (835)
T KOG2047|consen  367 INTYTEAVKTV-DPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAAL  445 (835)
T ss_pred             HHHHHHHHHcc-CcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHH
Confidence            56666665431 11      124556677777777778888777777665322       24444445555667777777


Q ss_pred             HHHHHhHHhcCC----------CC-------CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHH
Q 006997          419 NLFYKMQHVEGL----------KP-------DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLG  481 (622)
Q Consensus       419 ~~~~~~~~~~~~----------~p-------~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  481 (622)
                      ++.++... ..-          .|       +...|...++.--..|-++....+|+++..- .+ .++.+.-.....+.
T Consensus       446 ~lm~~A~~-vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidL-ri-aTPqii~NyAmfLE  522 (835)
T KOG2047|consen  446 KLMRRATH-VPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDL-RI-ATPQIIINYAMFLE  522 (835)
T ss_pred             HHHHhhhc-CCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHH-hc-CCHHHHHHHHHHHH
Confidence            77777654 111          11       1223455555556677888888888888754 22 23333334445556


Q ss_pred             hcCChHHHHHHHHhCC---CCCc-HHhHHHHHHHHHh---cCCHHHHHHHHHHHHccCCCC--CchHHHHHHHHHhcCCh
Q 006997          482 RAGRFDLALKTIHEMP---VEVQ-AQVWAPLLSACMK---HHNVELGEYAAKNLLTLNPGS--TGNYILMANLFTSAGMW  552 (622)
Q Consensus       482 ~~g~~~~A~~~~~~~~---~~~~-~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~  552 (622)
                      ...-++++.+.+++-.   ..|+ ...|++.+.-+.+   ....+.|..+|+++++..|..  ...|...+..-.+-|.-
T Consensus       523 eh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~~Cpp~~aKtiyLlYA~lEEe~GLa  602 (835)
T KOG2047|consen  523 EHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALDGCPPEHAKTIYLLYAKLEEEHGLA  602 (835)
T ss_pred             hhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhHH
Confidence            6777889999998865   3444 5578887776654   246889999999999987732  23466667777777888


Q ss_pred             HHHHHHHHHhhh
Q 006997          553 KEAATARGLMDD  564 (622)
Q Consensus       553 ~~A~~~~~~~~~  564 (622)
                      ..|..++++...
T Consensus       603 r~amsiyerat~  614 (835)
T KOG2047|consen  603 RHAMSIYERATS  614 (835)
T ss_pred             HHHHHHHHHHHh
Confidence            888888887643

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

Probab=99.35  E-value=1.6e-08  Score=91.93  Aligned_cols=281  Identities=10%  Similarity=-0.002  Sum_probs=181.3

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHH
Q 006997          295 KSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEAT-LATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSL  373 (622)
Q Consensus       295 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  373 (622)
                      .|+.....+...+...|+.++|+-.|++.+..  .|...+ ...-.-.+...|+.+....+...+.... ..+...|-.-
T Consensus       230 ~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~  306 (564)
T KOG1174|consen  230 CNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVH  306 (564)
T ss_pred             ccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhh
Confidence            36677777778888888888888888776653  232221 1111122345677777777766665432 1122222222


Q ss_pred             HHHHHhcCChHHHHHHhccCCCC---ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCc
Q 006997          374 IHMFSKCGRINKAKEVFERVPDK---DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGM  449 (622)
Q Consensus       374 ~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~  449 (622)
                      .......++++.|..+-++..+.   ++..+-.-...+...|++++|.-.|+..+.   +.|. -..|..++.+|...|.
T Consensus       307 ~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~---Lap~rL~~Y~GL~hsYLA~~~  383 (564)
T KOG1174|consen  307 AQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQM---LAPYRLEIYRGLFHSYLAQKR  383 (564)
T ss_pred             hhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHh---cchhhHHHHHHHHHHHHhhch
Confidence            23334456777777777766643   334444444567777888888888888776   6663 5778888888888888


Q ss_pred             hHHHHHHHHHhHHhcCCCCChhHHHHHH-HHHH-hcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHHHHHHHH
Q 006997          450 VDDGLSFFKSMQSNFGIEPSIEHYLCLV-DLLG-RAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVELGEYAA  525 (622)
Q Consensus       450 ~~~a~~~~~~~~~~~~~~p~~~~~~~l~-~~~~-~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~  525 (622)
                      +.+|.-.-+.....  +..+..+...+. ..+. ...--++|.+++++.. ..|+ ....+.+...|...|..+.++.++
T Consensus       384 ~kEA~~~An~~~~~--~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LL  461 (564)
T KOG1174|consen  384 FKEANALANWTIRL--FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLL  461 (564)
T ss_pred             HHHHHHHHHHHHHH--hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHH
Confidence            88887777666543  233444444332 2222 2223467888887765 5665 556677777788888888888888


Q ss_pred             HHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCccCCCceEEEECCeEEEEEecCCCCcchHHHHHHHHHH
Q 006997          526 KNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKEL  605 (622)
Q Consensus       526 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  605 (622)
                      ++.+...| |...+..|++++...+.+.+|.+.|....+.                          .|+.+...+-+..+
T Consensus       462 e~~L~~~~-D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~--------------------------dP~~~~sl~Gl~~l  514 (564)
T KOG1174|consen  462 EKHLIIFP-DVNLHNHLGDIMRAQNEPQKAMEYYYKALRQ--------------------------DPKSKRTLRGLRLL  514 (564)
T ss_pred             HHHHhhcc-ccHHHHHHHHHHHHhhhHHHHHHHHHHHHhc--------------------------CccchHHHHHHHHH
Confidence            88888888 6778888888888888888888888877652                          56666666666566


Q ss_pred             HHHHH
Q 006997          606 HIKLL  610 (622)
Q Consensus       606 ~~~~~  610 (622)
                      .++|+
T Consensus       515 EK~~~  519 (564)
T KOG1174|consen  515 EKSDD  519 (564)
T ss_pred             HhccC
Confidence            65554

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.35  E-value=2e-10  Score=111.89  Aligned_cols=232  Identities=15%  Similarity=0.169  Sum_probs=162.4

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHc-----CC-CCch-hHHHHHHHHHHhcCChHHHHHHhccCCC-------C-C
Q 006997          333 ATLATTLSACAELGSLSKGKEIEEYIVLN-----GL-ESNR-QVQTSLIHMFSKCGRINKAKEVFERVPD-------K-D  397 (622)
Q Consensus       333 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~-------~-~  397 (622)
                      .+...+...|...|+++.|...++...+.     |. .|.. ...+.+...|...+++.+|..+|+++..       + +
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            35555666677777777777776666543     20 1121 2223456677777777777777776542       1 1


Q ss_pred             ---hhHHHHHHHHHHHcCCHHHHHHHHHHhHHh----cCC-CCCH-HHHHHHHHHHhccCchHHHHHHHHHhHHhcC--C
Q 006997          398 ---LAVWSAMINGYAIHGMGDQALNLFYKMQHV----EGL-KPDA-VVYTSILSACSHSGMVDDGLSFFKSMQSNFG--I  466 (622)
Q Consensus       398 ---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~--~  466 (622)
                         ..+++.|...|.+.|++++|...++++.+.    .+. .|+. ..++.+...|...+.+++|..++....+.+.  .
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               235666777788888888777777765541    122 2222 3466777788899999999999887765432  2


Q ss_pred             CCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC---------CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHc--
Q 006997          467 EPS----IEHYLCLVDLLGRAGRFDLALKTIHEMP---------VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLT--  530 (622)
Q Consensus       467 ~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--  530 (622)
                      .++    ..+++.|...|...|++++|.++++++.         ..+. ...++.+...|.+.++..+|.++|..+..  
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            222    4678899999999999999999999874         1222 45678899999999999999999988765  


Q ss_pred             --cCCCC---CchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          531 --LNPGS---TGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       531 --~~p~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                        ..|+.   ..+|..|+.+|.++|++++|.++.+.+.+
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence              34544   45688999999999999999999998875

>PRK12370 invasion protein regulator; Provisional

Probab=99.34  E-value=3.5e-10  Score=116.04  Aligned_cols=244  Identities=14%  Similarity=0.067  Sum_probs=178.7

Q ss_pred             ChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHh---------ccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 006997          312 YPSEAVNLFKRLLKTSVRPN-EATLATTLSACA---------ELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCG  381 (622)
Q Consensus       312 ~~~~a~~~~~~m~~~~~~~~-~~~~~~ll~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  381 (622)
                      ..++|...|++..+.  .|+ ...+..+..++.         ..+++++|...++++.+.+ |.+...+..+..++...|
T Consensus       276 ~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g  352 (553)
T PRK12370        276 SLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHS  352 (553)
T ss_pred             HHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcc
Confidence            457888888888875  343 334444443332         2345788999999988876 557788888888899999


Q ss_pred             ChHHHHHHhccCCC--C-ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHH-HHHHHHHHHhccCchHHHHHHH
Q 006997          382 RINKAKEVFERVPD--K-DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAV-VYTSILSACSHSGMVDDGLSFF  457 (622)
Q Consensus       382 ~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~ll~~~~~~g~~~~a~~~~  457 (622)
                      ++++|...|++..+  | +...+..+...+...|++++|+..++++.+   ..|+.. .+..++..+...|++++|...+
T Consensus       353 ~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~---l~P~~~~~~~~~~~~~~~~g~~eeA~~~~  429 (553)
T PRK12370        353 EYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLK---LDPTRAAAGITKLWITYYHTGIDDAIRLG  429 (553)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCChhhHHHHHHHHHhccCHHHHHHHH
Confidence            99999999998764  3 455788888899999999999999999998   677643 3334455566789999999999


Q ss_pred             HHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC
Q 006997          458 KSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG  534 (622)
Q Consensus       458 ~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  534 (622)
                      +++...  .+| ++..+..+..+|...|++++|...++++. ..|+ ...++.+...+...|  +.|...++++++..-.
T Consensus       430 ~~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~  505 (553)
T PRK12370        430 DELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQR  505 (553)
T ss_pred             HHHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhH
Confidence            998754  235 45557778889999999999999999876 4444 344556666667777  4788888887764333


Q ss_pred             CCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          535 STGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       535 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      .+........+|.-.|+-+.+... +++.+.+
T Consensus       506 ~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        506 IDNNPGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             hhcCchHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            333333477788888998888888 7776643

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.30  E-value=2.6e-10  Score=106.88  Aligned_cols=189  Identities=14%  Similarity=0.075  Sum_probs=101.8

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHH
Q 006997          368 QVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSA  443 (622)
Q Consensus       368 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~  443 (622)
                      ..+..+...|.+.|+.++|...|++..+   .+...|+.+...+...|++++|...|++..+   +.|+ ..++..+..+
T Consensus        65 ~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~---l~P~~~~a~~~lg~~  141 (296)
T PRK11189         65 QLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLE---LDPTYNYAYLNRGIA  141 (296)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHH
Confidence            3344455555566666666666655442   2345666666666666777777776666666   5554 3455666666


Q ss_pred             HhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHH
Q 006997          444 CSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELG  521 (622)
Q Consensus       444 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a  521 (622)
                      +...|++++|.+.+++..+.   .|+..........+...++.++|...+++..  .+|+  .|. ........|+...+
T Consensus       142 l~~~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~~~~--~~~-~~~~~~~lg~~~~~  215 (296)
T PRK11189        142 LYYGGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKLDKE--QWG-WNIVEFYLGKISEE  215 (296)
T ss_pred             HHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhCCcc--ccH-HHHHHHHccCCCHH
Confidence            66667777777777666633   4432211111222334556677777665433  1222  221 11122223333222


Q ss_pred             HHHHHHHH-------ccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          522 EYAAKNLL-------TLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       522 ~~~~~~~~-------~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                       +.++.+.       ++.|+.+.+|..+|.++.+.|++++|...|++..+.+
T Consensus       216 -~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        216 -TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             -HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence             1222222       3445555677777777777777777777777776543

>PRK12370 invasion protein regulator; Provisional

Probab=99.29  E-value=3.4e-10  Score=116.18  Aligned_cols=210  Identities=13%  Similarity=0.002  Sum_probs=167.6

Q ss_pred             CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh---------cCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCC
Q 006997          346 GSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSK---------CGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGM  413 (622)
Q Consensus       346 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---------~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~  413 (622)
                      ++.++|...++++.+.. |.+...+..+..+|..         .+++++|...+++..+   .+...+..+...+...|+
T Consensus       275 ~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        275 YSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccC
Confidence            45678999999998875 4455666666665542         2458899999998774   356678888888999999


Q ss_pred             HHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCCh-hHHHHHHHHHHhcCChHHHHH
Q 006997          414 GDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSI-EHYLCLVDLLGRAGRFDLALK  491 (622)
Q Consensus       414 ~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~  491 (622)
                      +++|...|+++.+   ..|+ ...+..+..++...|++++|...++++.+   +.|+. ..+..++..+...|++++|+.
T Consensus       354 ~~~A~~~~~~Al~---l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~---l~P~~~~~~~~~~~~~~~~g~~eeA~~  427 (553)
T PRK12370        354 YIVGSLLFKQANL---LSPISADIKYYYGWNLFMAGQLEEALQTINECLK---LDPTRAAAGITKLWITYYHTGIDDAIR  427 (553)
T ss_pred             HHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCChhhHHHHHHHHHhccCHHHHHH
Confidence            9999999999998   6776 56788888899999999999999999984   46653 333444556777899999999


Q ss_pred             HHHhCC--CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          492 TIHEMP--VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       492 ~~~~~~--~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      .++++.  .+|+ +..+..+..++...|+.++|...++++....|.+......++..|...|  ++|...++.+.+
T Consensus       428 ~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        428 LGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLE  501 (553)
T ss_pred             HHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHH
Confidence            999875  2354 4557778888889999999999999998899988888888999999888  488888888765

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.28  E-value=1.3e-09  Score=99.72  Aligned_cols=198  Identities=16%  Similarity=0.118  Sum_probs=104.9

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 006997          297 VFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHM  376 (622)
Q Consensus       297 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  376 (622)
                      ...+..+...+...|++++|...+++..+.. +.+...+..+...+...|+++.|.+.++...+.. +.+...+..+.  
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~--  106 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYG--  106 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHH--
Confidence            3456666666667777777777776666542 2234445555555666666666666666555543 22333334444  


Q ss_pred             HHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCchHHHHH
Q 006997          377 FSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGMVDDGLS  455 (622)
Q Consensus       377 ~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~  455 (622)
                                                   ..+...|++++|.+.++++.+ ....| ....+..+..++...|++++|..
T Consensus       107 -----------------------------~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  156 (234)
T TIGR02521       107 -----------------------------TFLCQQGKYEQAMQQFEQAIE-DPLYPQPARSLENAGLCALKAGDFDKAEK  156 (234)
T ss_pred             -----------------------------HHHHHcccHHHHHHHHHHHHh-ccccccchHHHHHHHHHHHHcCCHHHHHH
Confidence                                         444455555555555555544 21111 22334445555555666666666


Q ss_pred             HHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHcc
Q 006997          456 FFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTL  531 (622)
Q Consensus       456 ~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  531 (622)
                      .+++....   .| +...+..+...+...|++++|...+++..  .+.+...+..+...+...|+.+.|....+.+...
T Consensus       157 ~~~~~~~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       157 YLTRALQI---DPQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHh---CcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            66655532   22 34445555556666666666666665543  1223444445555555666666666665555444

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.

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

Probab=99.28  E-value=1.3e-10  Score=101.96  Aligned_cols=236  Identities=11%  Similarity=0.097  Sum_probs=144.9

Q ss_pred             CchhHHHHHHHHHhcCCHHHHHHHHhhcC--CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHH-HHHH
Q 006997          265 EDPLDNLLVSMYTKCGDLELARRVFDAVL--EKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLAT-TLSA  341 (622)
Q Consensus       265 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-ll~~  341 (622)
                      |-.--+.+..+|.+.|.+.+|.+.|+...  .+-+.||-.|-.+|.+..++..|+.++.+-.+.  .|-.+||.. ..+.
T Consensus       222 dwwWk~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi  299 (478)
T KOG1129|consen  222 DWWWKQQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARI  299 (478)
T ss_pred             hHHHHHHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHH
Confidence            33344678999999999999999998874  457889999999999999999999999998875  677777643 4566


Q ss_pred             HhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHH
Q 006997          342 CAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLF  421 (622)
Q Consensus       342 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  421 (622)
                      +...++.+.+.++++...+.. +.++....++...|.-.++++.|...                               +
T Consensus       300 ~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~Alry-------------------------------Y  347 (478)
T KOG1129|consen  300 HEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRY-------------------------------Y  347 (478)
T ss_pred             HHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHH-------------------------------H
Confidence            777778888888888777654 34444444444444444445555444                               4


Q ss_pred             HHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC--hhHHHHHHHHHHhcCChHHHHHHHHhCC-C
Q 006997          422 YKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS--IEHYLCLVDLLGRAGRFDLALKTIHEMP-V  498 (622)
Q Consensus       422 ~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~  498 (622)
                      +++.+ .|+ -++..|..+.-+|.-.+.+|-++.-|.+..+. --.|+  ..+|..+.....-.|++.-|.+.|+-.. .
T Consensus       348 RRiLq-mG~-~speLf~NigLCC~yaqQ~D~~L~sf~RAlst-at~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~  424 (478)
T KOG1129|consen  348 RRILQ-MGA-QSPELFCNIGLCCLYAQQIDLVLPSFQRALST-ATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTS  424 (478)
T ss_pred             HHHHH-hcC-CChHHHhhHHHHHHhhcchhhhHHHHHHHHhh-ccCcchhhhhhhccceeEEeccchHHHHHHHHHHhcc
Confidence            44444 333 23344444444444455555555544444432 11222  3344445444555555555555555443 2


Q ss_pred             CC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCc
Q 006997          499 EV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTG  537 (622)
Q Consensus       499 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  537 (622)
                      .| ....++.|.-.-.+.|++++|..+++.+....|+-.+
T Consensus       425 d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P~m~E  464 (478)
T KOG1129|consen  425 DAQHGEALNNLAVLAARSGDILGARSLLNAAKSVMPDMAE  464 (478)
T ss_pred             CcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCccccc
Confidence            22 2445555555555566666666666666666664333

>PF13041 PPR_2: PPR repeat family

Probab=99.27  E-value=1.3e-11  Score=80.31  Aligned_cols=50  Identities=30%  Similarity=0.609  Sum_probs=44.9

Q ss_pred             CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhc
Q 006997          194 TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQ  243 (622)
Q Consensus       194 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  243 (622)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|++||..||+.++++|++
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            68889999999999999999999999999999999999999999988864

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

Probab=99.27  E-value=1.7e-07  Score=92.88  Aligned_cols=410  Identities=15%  Similarity=0.147  Sum_probs=256.3

Q ss_pred             HHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHH
Q 006997          106 SAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEAR  185 (622)
Q Consensus       106 ~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  185 (622)
                      ..+...|++++|++.++.-..  ..+|                               ...........+.+.|+.++|.
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~--~I~D-------------------------------k~~~~E~rA~ll~kLg~~~eA~   58 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEK--QILD-------------------------------KLAVLEKRAELLLKLGRKEEAE   58 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhh--hCCC-------------------------------HHHHHHHHHHHHHHcCCHHHHH
Confidence            445778999999999977543  2333                               3344567788899999999999


Q ss_pred             HHHhhcCC--CCcchH-HHHHHHHHc-----CCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCCh-HHHHHHHHH
Q 006997          186 SIFDEIGE--TSIVSW-TTIIGGYVN-----VGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNL-FLALSMHSL  256 (622)
Q Consensus       186 ~~~~~~~~--~~~~~~-~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~-~~a~~~~~~  256 (622)
                      .++..+..  |+-..| ..+..+..-     ..+.+...++++++...-  |.......+.-.+.....+ ..+..++..
T Consensus        59 ~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~  136 (517)
T PF12569_consen   59 KIYRELIDRNPDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRP  136 (517)
T ss_pred             HHHHHHHHHCCCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHH
Confidence            99999976  444444 444444422     235677788888887653  4433333332222222222 345566677


Q ss_pred             HHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcC------------------CCCHH--HHHHHHHHHHhcCChHHH
Q 006997          257 LLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVL------------------EKSVF--LWTSMIGGYAQLGYPSEA  316 (622)
Q Consensus       257 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~------------------~~~~~--~~~~l~~~~~~~~~~~~a  316 (622)
                      +...|+|+   +++.|-..|.......-..+++....                  .|...  ++..+...|...|++++|
T Consensus       137 ~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~A  213 (517)
T PF12569_consen  137 QLRKGVPS---LFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKA  213 (517)
T ss_pred             HHhcCCch---HHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHH
Confidence            77777654   55666666665555555555554431                  11222  345667788899999999


Q ss_pred             HHHHHHHHhCCCCCC-HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC
Q 006997          317 VNLFKRLLKTSVRPN-EATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD  395 (622)
Q Consensus       317 ~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  395 (622)
                      ++.+++.++.  .|+ ...|..-.+.+-..|++.+|.+.++.+...+ ..|..+-+..+..+.++|++++|.+++.....
T Consensus       214 l~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr  290 (517)
T PF12569_consen  214 LEYIDKAIEH--TPTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTR  290 (517)
T ss_pred             HHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcC
Confidence            9999999987  455 5577778889999999999999999999887 55778888889999999999999999988876


Q ss_pred             CChh----------HH--HHHHHHHHHcCCHHHHHHHHHHhHHhc-CC---CCCH----------HHHHHHHHHHhccCc
Q 006997          396 KDLA----------VW--SAMINGYAIHGMGDQALNLFYKMQHVE-GL---KPDA----------VVYTSILSACSHSGM  449 (622)
Q Consensus       396 ~~~~----------~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~---~p~~----------~~~~~ll~~~~~~g~  449 (622)
                      ++..          .|  .....+|.+.|++..|++.|..+.+.. .+   .-|-          .+|..+++..-+...
T Consensus       291 ~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~f~~~~~DQfDFH~Yc~RK~t~r~Y~~~L~~ed~l~~  370 (517)
T PF12569_consen  291 EDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLKHFDDFEEDQFDFHSYCLRKMTLRAYVDMLRWEDKLRS  370 (517)
T ss_pred             CCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcccccHHHHHHhhccHHHHHHHHHHHHHhhc
Confidence            5421          22  234568899999999988777765421 01   1222          233334433222111


Q ss_pred             -------hHHHHHHHHHhHHhcCCCCC-----------hhHHHHHHHHH---HhcCChHHHHHHHHh-----------C-
Q 006997          450 -------VDDGLSFFKSMQSNFGIEPS-----------IEHYLCLVDLL---GRAGRFDLALKTIHE-----------M-  496 (622)
Q Consensus       450 -------~~~a~~~~~~~~~~~~~~p~-----------~~~~~~l~~~~---~~~g~~~~A~~~~~~-----------~-  496 (622)
                             ...|+++|-.+.........           ..--..+..-.   .+...-+++...-.+           . 
T Consensus       371 ~~~y~raa~~ai~iYl~l~d~~~~~~~~~~~~~~~~~~~~e~Kk~~kK~kK~~~k~~~~~~~~~~~~~~~~~~~~~~~~~  450 (517)
T PF12569_consen  371 HPFYRRAAKGAIRIYLELHDKPEAKQGEEQEADNENMSAAERKKAKKKAKKAAKKAKKEEAEKAAKKEPKKQQNKSKKKE  450 (517)
T ss_pred             CHHHHHHHHHHHHHHHHHhcCcccccccccccccccCChHHHHHHHHHHHHHHHHHhHHHHHHHHhhhhhhhhccccccc
Confidence                   23455555555432100000           00001111100   111111222211100           0 


Q ss_pred             ---C--CCCcHHhHHHHHHHHHhc-CCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHH
Q 006997          497 ---P--VEVQAQVWAPLLSACMKH-HNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGL  561 (622)
Q Consensus       497 ---~--~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  561 (622)
                         +  ..+|+.     +.-+... .-+++|.+.++-+.+..|++..+|..-.++|.+.|++--|++.+.+
T Consensus       451 ~~~~~~~D~Dp~-----GekL~~t~dPLe~A~kfl~pL~~~a~~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  451 KVEPKKKDDDPL-----GEKLLKTEDPLEEAMKFLKPLLELAPDNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             cccCCcCCCCcc-----HHHHhcCCcHHHHHHHHHHHHHHhCccchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence               1  122221     1222233 3468899999999999999999999999999999999999988764

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 [], [].

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.26  E-value=2.8e-09  Score=99.93  Aligned_cols=232  Identities=9%  Similarity=-0.021  Sum_probs=147.1

Q ss_pred             CChHHHHHHHHHHHhCC-CCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHH
Q 006997          311 GYPSEAVNLFKRLLKTS-VRPN--EATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAK  387 (622)
Q Consensus       311 ~~~~~a~~~~~~m~~~~-~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  387 (622)
                      ++.+.++.-+.+++... ..|+  ...|..+...+...|+.+.|...|+.+.+.. +.++..++.+...+...|++++|.
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            34455566665555432 1222  2345555556667777777777777776665 445677777777888888888888


Q ss_pred             HHhccCCC--C-ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhc
Q 006997          388 EVFERVPD--K-DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNF  464 (622)
Q Consensus       388 ~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  464 (622)
                      +.|++..+  | +..+|..+..++...|++++|.+.|++..+   ..|+..........+...++.++|...+++.... 
T Consensus       119 ~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~---~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~-  194 (296)
T PRK11189        119 EAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQ---DDPNDPYRALWLYLAESKLDPKQAKENLKQRYEK-  194 (296)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh-
Confidence            88777653  3 345677777788888999999999998887   6665432222233345567889999999765532 


Q ss_pred             CCCCChhHHHHHHHHHHhcCChHH--HHHHHHhCC-C-----CCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCC-CC
Q 006997          465 GIEPSIEHYLCLVDLLGRAGRFDL--ALKTIHEMP-V-----EVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNP-GS  535 (622)
Q Consensus       465 ~~~p~~~~~~~l~~~~~~~g~~~~--A~~~~~~~~-~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~  535 (622)
                       ..|+... ..+..  ...|+..+  +.+.+.+.. .     +.....|..++..+...|++++|+..|+++++.+| +.
T Consensus       195 -~~~~~~~-~~~~~--~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~  270 (296)
T PRK11189        195 -LDKEQWG-WNIVE--FYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNF  270 (296)
T ss_pred             -CCccccH-HHHHH--HHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchH
Confidence             2333222 22222  33454433  333333221 1     12345788999999999999999999999999997 55


Q ss_pred             CchHHHHHHHHHhcCC
Q 006997          536 TGNYILMANLFTSAGM  551 (622)
Q Consensus       536 ~~~~~~l~~~~~~~g~  551 (622)
                      ......++......++
T Consensus       271 ~e~~~~~~e~~~~~~~  286 (296)
T PRK11189        271 VEHRYALLELALLGQD  286 (296)
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            5555556555444333

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

Probab=99.26  E-value=3.3e-07  Score=88.63  Aligned_cols=470  Identities=14%  Similarity=0.131  Sum_probs=245.4

Q ss_pred             HHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCC-CCCcchHHHHHHHHHhC
Q 006997           33 FPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVR-LRSVVSWNSIISAHSRA  111 (622)
Q Consensus        33 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~li~~~~~~  111 (622)
                      |..++..| ..+.+.......+.+++. ++....+.....-.+...|+-++|......-... ..+.+.|+.+.-.+-..
T Consensus        11 F~~~lk~y-E~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~d   88 (700)
T KOG1156|consen   11 FRRALKCY-ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSD   88 (700)
T ss_pred             HHHHHHHH-HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhh
Confidence            33344433 445566666666666663 3344444444444455678888888887766544 56678899888888888


Q ss_pred             CCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhc
Q 006997          112 CLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEI  191 (622)
Q Consensus       112 ~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  191 (622)
                      .++++|++.|+....  +.||                               |...+.-+.-.=++.|+++.....-...
T Consensus        89 K~Y~eaiKcy~nAl~--~~~d-------------------------------N~qilrDlslLQ~QmRd~~~~~~tr~~L  135 (700)
T KOG1156|consen   89 KKYDEAIKCYRNALK--IEKD-------------------------------NLQILRDLSLLQIQMRDYEGYLETRNQL  135 (700)
T ss_pred             hhHHHHHHHHHHHHh--cCCC-------------------------------cHHHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            999999999999876  3444                               4444444444445556666655555444


Q ss_pred             CC---CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCC-CCCCHhHHHHHHH------HHhccCChHHHHHHHHHHHHhC
Q 006997          192 GE---TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMS-VTPDLVVFLNLIL------GCAQVGNLFLALSMHSLLLKSG  261 (622)
Q Consensus       192 ~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~------~~~~~~~~~~a~~~~~~~~~~~  261 (622)
                      .+   .....|..+..++.-.|++..|..++++..+.. -.|+...|.....      .....|.++.|.+.+...... 
T Consensus       136 Lql~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-  214 (700)
T KOG1156|consen  136 LQLRPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-  214 (700)
T ss_pred             HHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-
Confidence            43   344668888888888899999999998887764 2455555443222      233445555555554433221 


Q ss_pred             CCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCC--CHHHHHH-HHHHHHhcCChHHHH-HHHHHHHhCCCCCCHHHHHH
Q 006997          262 YNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEK--SVFLWTS-MIGGYAQLGYPSEAV-NLFKRLLKTSVRPNEATLAT  337 (622)
Q Consensus       262 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~-l~~~~~~~~~~~~a~-~~~~~m~~~~~~~~~~~~~~  337 (622)
                      +......-..-...+.+.+++++|..++..+..+  |...|.. +..++.+-.+..++. .+|....+.  .|.......
T Consensus       215 i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--y~r~e~p~R  292 (700)
T KOG1156|consen  215 IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK--YPRHECPRR  292 (700)
T ss_pred             HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--Ccccccchh
Confidence            0111112223334455556666666666555433  2222222 222222122222222 444433332  111111111


Q ss_pred             H-HHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHH
Q 006997          338 T-LSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQ  416 (622)
Q Consensus       338 l-l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  416 (622)
                      + +.......-.+....++....+.|+++-   +..+...|-.-.   ++- +++           .++..|...-....
T Consensus       293 lplsvl~~eel~~~vdkyL~~~l~Kg~p~v---f~dl~SLyk~p~---k~~-~le-----------~Lvt~y~~~L~~~~  354 (700)
T KOG1156|consen  293 LPLSVLNGEELKEIVDKYLRPLLSKGVPSV---FKDLRSLYKDPE---KVA-FLE-----------KLVTSYQHSLSGTG  354 (700)
T ss_pred             ccHHHhCcchhHHHHHHHHHHHhhcCCCch---hhhhHHHHhchh---HhH-HHH-----------HHHHHHHhhccccc
Confidence            1 1111111112223333444444444332   222222221110   000 111           11111111100000


Q ss_pred             HHHHHHHhHHhcCCCCCH--HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhcCChHHHHHHH
Q 006997          417 ALNLFYKMQHVEGLKPDA--VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS-IEHYLCLVDLLGRAGRFDLALKTI  493 (622)
Q Consensus       417 a~~~~~~~~~~~~~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~  493 (622)
                      .....+.-   .--+|..  .++..++..+-..|+++.|..+++.+.   +-.|+ ++.|..-.+.+...|.+++|..++
T Consensus       355 ~f~~~D~~---~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AI---dHTPTliEly~~KaRI~kH~G~l~eAa~~l  428 (700)
T KOG1156|consen  355 MFNFLDDG---KQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAI---DHTPTLIELYLVKARIFKHAGLLDEAAAWL  428 (700)
T ss_pred             CCCccccc---ccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHh---ccCchHHHHHHHHHHHHHhcCChHHHHHHH
Confidence            00000000   0023443  345566777888888888888888877   44665 455656667788888888888888


Q ss_pred             HhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCC-------chHHH--HHHHHHhcCChHHHHHHHHHh
Q 006997          494 HEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGST-------GNYIL--MANLFTSAGMWKEAATARGLM  562 (622)
Q Consensus       494 ~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-------~~~~~--l~~~~~~~g~~~~A~~~~~~~  562 (622)
                      ++..  ..+|...-..-+.-..+.+..++|.++..+-....-+-.       -.|+.  =|.+|.++|++-.|++-|..+
T Consensus       429 ~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i  508 (700)
T KOG1156|consen  429 DEAQELDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEI  508 (700)
T ss_pred             HHHHhccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhH
Confidence            8876  334433333455555677888888888777655432100       12332  366788888888888777666


Q ss_pred             hh
Q 006997          563 DD  564 (622)
Q Consensus       563 ~~  564 (622)
                      .+
T Consensus       509 ~k  510 (700)
T KOG1156|consen  509 EK  510 (700)
T ss_pred             HH
Confidence            54

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

Probab=99.24  E-value=9.1e-08  Score=94.30  Aligned_cols=436  Identities=14%  Similarity=0.097  Sum_probs=239.6

Q ss_pred             HHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCC-CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCC
Q 006997           53 HSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVR-LRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLEL  131 (622)
Q Consensus        53 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p  131 (622)
                      +.++....+.-+..+|..+.-+..++|+++.+.+.|++.... -.....|+.+...+...|....|..+++.-....-.|
T Consensus       311 ~~k~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~p  390 (799)
T KOG4162|consen  311 LRKLRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQP  390 (799)
T ss_pred             HHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCC
Confidence            344444445678888888888899999999999999987633 3445678888889999999999999988766543345


Q ss_pred             ChhhHHHHHhh-hh-----hhhhHHHHHHHHHhC-CCC--CChhhHhHHHHHHHhcC-----------ChHHHHHHHhhc
Q 006997          132 SASTFVSVVSG-CS-----FRQGISMHCCVYKLG-LLN--NEIPLANSVMSMYAKFG-----------KVNEARSIFDEI  191 (622)
Q Consensus       132 ~~~t~~~ll~~-~~-----~~~~~~~~~~~~~~~-~~~--~~~~~~~~l~~~~~~~g-----------~~~~A~~~~~~~  191 (622)
                      +..+...+... |.     .+.+..+...++... ...  -.+..+..+.-+|...-           ...++.+.+++.
T Consensus       391 s~~s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~a  470 (799)
T KOG4162|consen  391 SDISVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEA  470 (799)
T ss_pred             CcchHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHH
Confidence            44444444333 33     555555555555521 111  13344444444444321           122334444444


Q ss_pred             CCCC---cchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchh
Q 006997          192 GETS---IVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPL  268 (622)
Q Consensus       192 ~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  268 (622)
                      .+.+   ...-.-+.--|+..++.+.|.+..++..+.+-.-+...|..+.-.+...+++..|+.+.+.....- +.+...
T Consensus       471 v~~d~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~-~~N~~l  549 (799)
T KOG4162|consen  471 VQFDPTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEF-GDNHVL  549 (799)
T ss_pred             HhcCCCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHh-hhhhhh
Confidence            3211   111111112233444455555555555444334444444444444444445555554444433210 000001


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHhccC
Q 006997          269 DNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKT--SVRPNEATLATTLSACAELG  346 (622)
Q Consensus       269 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~ll~~~~~~~  346 (622)
                      ...-++.-.                               .-++.++++.....+...  ...+-..+           +
T Consensus       550 ~~~~~~i~~-------------------------------~~~~~e~~l~t~~~~L~~we~~~~~q~~-----------~  587 (799)
T KOG4162|consen  550 MDGKIHIEL-------------------------------TFNDREEALDTCIHKLALWEAEYGVQQT-----------L  587 (799)
T ss_pred             chhhhhhhh-------------------------------hcccHHHHHHHHHHHHHHHHhhhhHhhh-----------h
Confidence            111111111                               233444444333333220  00000000           0


Q ss_pred             ChHHHHHHHHHHHH--cCCCCchhHHHHH---HHHHHhcCChHHHHHHhccCCCCC------hhHHHHHHHHHHHcCCHH
Q 006997          347 SLSKGKEIEEYIVL--NGLESNRQVQTSL---IHMFSKCGRINKAKEVFERVPDKD------LAVWSAMINGYAIHGMGD  415 (622)
Q Consensus       347 ~~~~a~~~~~~~~~--~~~~~~~~~~~~l---~~~~~~~~~~~~A~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~  415 (622)
                      +-....+....+.-  ......+.++..+   +..-.+.-..+.....+...+.|+      ...|......+.+.++.+
T Consensus       588 ~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~  667 (799)
T KOG4162|consen  588 DEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDD  667 (799)
T ss_pred             hhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCch
Confidence            00001111111000  0001111111111   111111111111111222222232      235666777888999999


Q ss_pred             HHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhcCChHHHHH--
Q 006997          416 QALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS-IEHYLCLVDLLGRAGRFDLALK--  491 (622)
Q Consensus       416 ~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~--  491 (622)
                      +|...+.+...   +.|- ...|......+...|...+|.+.|....   -+.|+ +.+..++..++.+.|+..-|.+  
T Consensus       668 ~a~~CL~Ea~~---~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al---~ldP~hv~s~~Ala~~lle~G~~~la~~~~  741 (799)
T KOG4162|consen  668 EARSCLLEASK---IDPLSASVYYLRGLLLEVKGQLEEAKEAFLVAL---ALDPDHVPSMTALAELLLELGSPRLAEKRS  741 (799)
T ss_pred             HHHHHHHHHHh---cchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHH---hcCCCCcHHHHHHHHHHHHhCCcchHHHHH
Confidence            99988888876   5554 4567777778888999999999999887   56774 7888999999999998777777  


Q ss_pred             HHHhCC-CCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCc
Q 006997          492 TIHEMP-VEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTG  537 (622)
Q Consensus       492 ~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  537 (622)
                      ++..+. .+| +...|..++..+.+.|+.+.|.+.|+.++++++.+|.
T Consensus       742 ~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S~PV  789 (799)
T KOG4162|consen  742 LLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEESNPV  789 (799)
T ss_pred             HHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhccCCCc
Confidence            888776 444 5889999999999999999999999999999887664

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.23  E-value=6.8e-09  Score=97.90  Aligned_cols=373  Identities=15%  Similarity=0.112  Sum_probs=223.9

Q ss_pred             HHHHhcCChHHHHHHHhhcCC---CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCC-HhHHHHHHHHHhccCChH
Q 006997          173 SMYAKFGKVNEARSIFDEIGE---TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPD-LVVFLNLILGCAQVGNLF  248 (622)
Q Consensus       173 ~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~  248 (622)
                      +..+..|+++.|...|.+...   +|.+.|..-..+|...|++++|++=-.+-++  +.|+ ...|.-...++.-.|+++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~~   87 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDYE   87 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccHH
Confidence            344567899999999877654   5667788888889999999988877777666  3565 557888888888889999


Q ss_pred             HHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHH------hhcC-CC------CHHHHHHHHHHHHhc-----
Q 006997          249 LALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVF------DAVL-EK------SVFLWTSMIGGYAQL-----  310 (622)
Q Consensus       249 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~------~~~~-~~------~~~~~~~l~~~~~~~-----  310 (622)
                      +|...|.+-++.. +.+...++.+..++...  . .+.+.|      ..+. .|      ....|..++..+-+.     
T Consensus        88 eA~~ay~~GL~~d-~~n~~L~~gl~~a~~~~--~-~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~  163 (539)
T KOG0548|consen   88 EAILAYSEGLEKD-PSNKQLKTGLAQAYLED--Y-AADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLK  163 (539)
T ss_pred             HHHHHHHHHhhcC-CchHHHHHhHHHhhhHH--H-HhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhh
Confidence            9999988887775 56666777777776111  0 011111      1110 00      011233333222111     


Q ss_pred             -----CChHHHHHHHHHH-----HhC-------CCCCC----------------------HHHHHHHHHHHhccCChHHH
Q 006997          311 -----GYPSEAVNLFKRL-----LKT-------SVRPN----------------------EATLATTLSACAELGSLSKG  351 (622)
Q Consensus       311 -----~~~~~a~~~~~~m-----~~~-------~~~~~----------------------~~~~~~ll~~~~~~~~~~~a  351 (622)
                           .+...+...+...     ...       +..|.                      ..-...+..+..+..+++.+
T Consensus       164 ~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a  243 (539)
T KOG0548|consen  164 LYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETA  243 (539)
T ss_pred             cccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHH
Confidence                 0111111111100     000       01110                      01133455555666677777


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCCh---hHHHH-------HHHHHHHcCCHHHHHHHH
Q 006997          352 KEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDL---AVWSA-------MINGYAIHGMGDQALNLF  421 (622)
Q Consensus       352 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~-------l~~~~~~~~~~~~a~~~~  421 (622)
                      .+-+.......  .+..-++....+|...|.+..+........+...   .-|+.       +..+|.+.++++.++..|
T Consensus       244 ~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a~~k~~~~~~ai~~~  321 (539)
T KOG0548|consen  244 IQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNAYTKREDYEGAIKYY  321 (539)
T ss_pred             HHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHH
Confidence            77777766655  4555566677777777777776666655443211   11222       333556667778888888


Q ss_pred             HHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCCh-hHHHHHHHHHHhcCChHHHHHHHHhCC--C
Q 006997          422 YKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSI-EHYLCLVDLLGRAGRFDLALKTIHEMP--V  498 (622)
Q Consensus       422 ~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~--~  498 (622)
                      .+... ....|+..         .+....+++....+...   -+.|.. .-...-...+.+.|++.+|+..+.+++  .
T Consensus       322 ~kaLt-e~Rt~~~l---------s~lk~~Ek~~k~~e~~a---~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~  388 (539)
T KOG0548|consen  322 QKALT-EHRTPDLL---------SKLKEAEKALKEAERKA---YINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD  388 (539)
T ss_pred             HHHhh-hhcCHHHH---------HHHHHHHHHHHHHHHHH---hhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC
Confidence            87766 44444322         12223344444433332   223332 112223556677788888888888776  3


Q ss_pred             CCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          499 EVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       499 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      +.|...|..-..+|.+.|.+..|+.-.+..++++|+....|..-+.++..+.+|++|.+.|+..++.+
T Consensus       389 P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  389 PEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            44466777777778888888888888888888888888888888888888888888888888776654

>PF13041 PPR_2: PPR repeat family

Probab=99.21  E-value=5.2e-11  Score=77.44  Aligned_cols=50  Identities=26%  Similarity=0.515  Sum_probs=46.0

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc
Q 006997          295 KSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAE  344 (622)
Q Consensus       295 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~  344 (622)
                      ||+++||++|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++
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            68889999999999999999999999999999999999999999998874

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

Probab=99.20  E-value=4.4e-07  Score=87.82  Aligned_cols=385  Identities=13%  Similarity=0.076  Sum_probs=234.2

Q ss_pred             HHHhcCChHHHHHHHhhcCC---CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHH
Q 006997          174 MYAKFGKVNEARSIFDEIGE---TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLA  250 (622)
Q Consensus       174 ~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  250 (622)
                      .+...|+.++|.........   .+.+.|..+.-.+-...++++|++.|......+ +-|...+.-+.-.-++.++++..
T Consensus        50 ~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~  128 (700)
T KOG1156|consen   50 TLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGY  128 (700)
T ss_pred             hhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhH
Confidence            34567888888888877665   455778888888888888899998888887753 34556666666666677777777


Q ss_pred             HHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCC-----CCHHHHHH------HHHHHHhcCChHHHHHH
Q 006997          251 LSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLE-----KSVFLWTS------MIGGYAQLGYPSEAVNL  319 (622)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~------l~~~~~~~~~~~~a~~~  319 (622)
                      ......+.+.. +.....|..+..++.-.|+...|..+.+...+     ++...+..      -.......|..+.|++.
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~  207 (700)
T KOG1156|consen  129 LETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEH  207 (700)
T ss_pred             HHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHH
Confidence            76666666543 44455666777777777888888777765532     23322221      12345567777777777


Q ss_pred             HHHHHhCCCCCCHHHH-HHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh-cCChHHHHHHhccCCCC-
Q 006997          320 FKRLLKTSVRPNEATL-ATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSK-CGRINKAKEVFERVPDK-  396 (622)
Q Consensus       320 ~~~m~~~~~~~~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~A~~~~~~~~~~-  396 (622)
                      +..-...  ..|...+ ..-...+.+.+++++|..++..+...+ |.+...|-.+..++.+ .+..+....+|....+. 
T Consensus       208 L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn-Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y  284 (700)
T KOG1156|consen  208 LLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN-PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKY  284 (700)
T ss_pred             HHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC-chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcC
Confidence            7654432  1233322 233445677788888888888887765 3444444455555542 33333333555544321 


Q ss_pred             -Chh-HHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchH---H-HHHHHHHhHHh--c----
Q 006997          397 -DLA-VWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVD---D-GLSFFKSMQSN--F----  464 (622)
Q Consensus       397 -~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~---~-a~~~~~~~~~~--~----  464 (622)
                       -.. .-..-++......-.+..-+++..+.+ .|+++--..+.++   |-.....+   + +..+...+...  +    
T Consensus       285 ~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~-Kg~p~vf~dl~SL---yk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D  360 (700)
T KOG1156|consen  285 PRHECPRRLPLSVLNGEELKEIVDKYLRPLLS-KGVPSVFKDLRSL---YKDPEKVAFLEKLVTSYQHSLSGTGMFNFLD  360 (700)
T ss_pred             cccccchhccHHHhCcchhHHHHHHHHHHHhh-cCCCchhhhhHHH---HhchhHhHHHHHHHHHHHhhcccccCCCccc
Confidence             000 000000111111122333445555555 6665533222222   22111111   1 11111111100  0    


Q ss_pred             -C--CCCChhHHH--HHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCc
Q 006997          465 -G--IEPSIEHYL--CLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTG  537 (622)
Q Consensus       465 -~--~~p~~~~~~--~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  537 (622)
                       +  -+|....|.  .++..|-+.|+++.|..+++.+. ..|+ +..|..-...+...|+++.|...++.+.+++-.|..
T Consensus       361 ~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~  440 (700)
T KOG1156|consen  361 DGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRA  440 (700)
T ss_pred             ccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHH
Confidence             0  145555454  57788999999999999999987 5555 445666678888999999999999999999876666


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          538 NYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       538 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      .-..-+.-..++++.++|.++..+.-+.|.
T Consensus       441 INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  441 INSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            666778888999999999999998877664

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.20  E-value=1e-07  Score=93.06  Aligned_cols=220  Identities=14%  Similarity=0.204  Sum_probs=142.2

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChH
Q 006997          305 GGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRIN  384 (622)
Q Consensus       305 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  384 (622)
                      ..+...|+++.|+..|-+...         ....+.+......+.+|..+++.+.....  ....|..+.+-|...|+++
T Consensus       714 ~hl~~~~q~daainhfiea~~---------~~kaieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe  782 (1636)
T KOG3616|consen  714 DHLEQIGQLDAAINHFIEANC---------LIKAIEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFE  782 (1636)
T ss_pred             HHHHHHHhHHHHHHHHHHhhh---------HHHHHHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHH
Confidence            344555666666655543321         12334455666778888888887766542  2345667778888888888


Q ss_pred             HHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhc
Q 006997          385 KAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNF  464 (622)
Q Consensus       385 ~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  464 (622)
                      .|+++|-+.-     .++-.|..|.++|+|.+|.++-.+...   -......|..-..-.-..|++.+|.++|-.+.   
T Consensus       783 ~ae~lf~e~~-----~~~dai~my~k~~kw~da~kla~e~~~---~e~t~~~yiakaedldehgkf~eaeqlyiti~---  851 (1636)
T KOG3616|consen  783 IAEELFTEAD-----LFKDAIDMYGKAGKWEDAFKLAEECHG---PEATISLYIAKAEDLDEHGKFAEAEQLYITIG---  851 (1636)
T ss_pred             HHHHHHHhcc-----hhHHHHHHHhccccHHHHHHHHHHhcC---chhHHHHHHHhHHhHHhhcchhhhhheeEEcc---
Confidence            8888886643     345567778888888888877665432   22234455555556677788888887775432   


Q ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHH
Q 006997          465 GIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMAN  544 (622)
Q Consensus       465 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  544 (622)
                        .|+.     .|.+|-+.|..+..+++.++-....-..+...+..-+...|++..|++.|-++        .-|....+
T Consensus       852 --~p~~-----aiqmydk~~~~ddmirlv~k~h~d~l~dt~~~f~~e~e~~g~lkaae~~flea--------~d~kaavn  916 (1636)
T KOG3616|consen  852 --EPDK-----AIQMYDKHGLDDDMIRLVEKHHGDHLHDTHKHFAKELEAEGDLKAAEEHFLEA--------GDFKAAVN  916 (1636)
T ss_pred             --CchH-----HHHHHHhhCcchHHHHHHHHhChhhhhHHHHHHHHHHHhccChhHHHHHHHhh--------hhHHHHHH
Confidence              4543     46778888888888888877642333556667777777778888887776643        33445566


Q ss_pred             HHHhcCChHHHHHHHHH
Q 006997          545 LFTSAGMWKEAATARGL  561 (622)
Q Consensus       545 ~~~~~g~~~~A~~~~~~  561 (622)
                      +|...+.|++|-++-+.
T Consensus       917 myk~s~lw~dayriakt  933 (1636)
T KOG3616|consen  917 MYKASELWEDAYRIAKT  933 (1636)
T ss_pred             HhhhhhhHHHHHHHHhc
Confidence            67777777776665543

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.18  E-value=2.6e-08  Score=94.11  Aligned_cols=248  Identities=11%  Similarity=0.067  Sum_probs=161.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCc------hhHHHHH
Q 006997          300 WTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESN------RQVQTSL  373 (622)
Q Consensus       300 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~------~~~~~~l  373 (622)
                      ...+..+..+..+++.|++.+....+..  -+..-++....++...|.+......-....+.|...-      ......+
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~  304 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARL  304 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHh
Confidence            3445555666666777777776666543  2222333344455666665555555444444432110      1112224


Q ss_pred             HHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH-HHHHHHHHHHhccCchHH
Q 006997          374 IHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDA-VVYTSILSACSHSGMVDD  452 (622)
Q Consensus       374 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~ll~~~~~~g~~~~  452 (622)
                      ..+|.+.++++.+...|.+...+...     -....+....+++++..+...-   +.|+. .-...-...+.+.|++..
T Consensus       305 g~a~~k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~---~~pe~A~e~r~kGne~Fk~gdy~~  376 (539)
T KOG0548|consen  305 GNAYTKREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAY---INPEKAEEEREKGNEAFKKGDYPE  376 (539)
T ss_pred             hhhhhhHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHh---hChhHHHHHHHHHHHHHhccCHHH
Confidence            44677778889999988875532111     1122333445566665555544   66664 223334677889999999


Q ss_pred             HHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 006997          453 GLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLL  529 (622)
Q Consensus       453 a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~  529 (622)
                      |+..|.+++.+   .| |...|....-+|.+.|.+.+|++-.+... ..|+ ...|..-+.++....+++.|.+.|++++
T Consensus       377 Av~~YteAIkr---~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eal  453 (539)
T KOG0548|consen  377 AVKHYTEAIKR---DPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEAL  453 (539)
T ss_pred             HHHHHHHHHhc---CCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999865   45 68889999999999999999999888776 3443 5567666777777889999999999999


Q ss_pred             ccCCCCCchHHHHHHHHHhcCChHHHHHHHH
Q 006997          530 TLNPGSTGNYILMANLFTSAGMWKEAATARG  560 (622)
Q Consensus       530 ~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  560 (622)
                      +.+|++..+...+..++..+.......++.+
T Consensus       454 e~dp~~~e~~~~~~rc~~a~~~~~~~ee~~~  484 (539)
T KOG0548|consen  454 ELDPSNAEAIDGYRRCVEAQRGDETPEETKR  484 (539)
T ss_pred             hcCchhHHHHHHHHHHHHHhhcCCCHHHHHH
Confidence            9999988888888887776433333344444

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.18  E-value=4.2e-09  Score=102.78  Aligned_cols=192  Identities=16%  Similarity=0.150  Sum_probs=126.0

Q ss_pred             HHHHhccCChHHHHHHHHHHHHc-----C--CCCchhHHHHHHHHHHhcCChHHHHHHhccCCC----------CCh-hH
Q 006997          339 LSACAELGSLSKGKEIEEYIVLN-----G--LESNRQVQTSLIHMFSKCGRINKAKEVFERVPD----------KDL-AV  400 (622)
Q Consensus       339 l~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----------~~~-~~  400 (622)
                      ...|...+++++|..+|+.+...     |  .+.-..+++.|..+|.+.|++++|...+++..+          +.+ ..
T Consensus       248 a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~  327 (508)
T KOG1840|consen  248 ALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQ  327 (508)
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHH
Confidence            33444455555555555444321     1  111123444455556666666655555544331          122 23


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhHHhcC--CCCC----HHHHHHHHHHHhccCchHHHHHHHHHhHHhc----C-CCC-
Q 006997          401 WSAMINGYAIHGMGDQALNLFYKMQHVEG--LKPD----AVVYTSILSACSHSGMVDDGLSFFKSMQSNF----G-IEP-  468 (622)
Q Consensus       401 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~----~-~~p-  468 (622)
                      ++.+...+...+++++|..++++..+...  ..++    ..+++.+...|.+.|++++|.+++++++...    + ..+ 
T Consensus       328 l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~  407 (508)
T KOG1840|consen  328 LSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYG  407 (508)
T ss_pred             HHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChh
Confidence            45566677888888888888887655211  2222    2478899999999999999999999887642    1 122 


Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC--------CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHc
Q 006997          469 SIEHYLCLVDLLGRAGRFDLALKTIHEMP--------VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLT  530 (622)
Q Consensus       469 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  530 (622)
                      ....++.|...|.+.+++.+|.++|.+..        ..|+ ..++..|...|...|+++.|+++.++++.
T Consensus       408 ~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  408 VGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             hhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            24567788889999999999999988763        3344 45789999999999999999999999874

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.17  E-value=1.2e-06  Score=84.06  Aligned_cols=118  Identities=14%  Similarity=0.116  Sum_probs=81.5

Q ss_pred             cchhhcCCchhHHHHHHHHHhCCCCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHH--HHHHhh--cC
Q 006997            3 RNSTNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTG--LIDMYS--KC   78 (622)
Q Consensus         3 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--l~~~~~--~~   78 (622)
                      +.+..+|++++|...-.+++..+ +-+...+..-+-++.+.+.++.|..+.+.   .+   -..+.+.  +=.+||  +.
T Consensus        20 n~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk---~~---~~~~~~~~~fEKAYc~Yrl   92 (652)
T KOG2376|consen   20 NRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKK---NG---ALLVINSFFFEKAYCEYRL   92 (652)
T ss_pred             HHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHh---cc---hhhhcchhhHHHHHHHHHc
Confidence            34667888999999888888864 34455677777777788888888744432   22   1111111  234454  67


Q ss_pred             CChhHHHHHhccCCCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCC
Q 006997           79 SDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGL  129 (622)
Q Consensus        79 ~~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~  129 (622)
                      ++.++|...++...  +.+..+...-...+.+.|++++|+.+|+.+.+.+.
T Consensus        93 nk~Dealk~~~~~~--~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~  141 (652)
T KOG2376|consen   93 NKLDEALKTLKGLD--RLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNS  141 (652)
T ss_pred             ccHHHHHHHHhccc--ccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            88999999888555  55555677777888899999999999999877643

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.17  E-value=6.2e-07  Score=90.82  Aligned_cols=373  Identities=12%  Similarity=0.096  Sum_probs=212.9

Q ss_pred             HHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHHHHHHHhCCCch
Q 006997           36 VLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLND  115 (622)
Q Consensus        36 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~  115 (622)
                      |..-+-+++++.--...++..++.| ..++.++|+|...|..++.-.+-  .+.+      |..-=+..+.-||..+++.
T Consensus       844 Lv~EvEkRNRLklLlp~LE~~i~eG-~~d~a~hnAlaKIyIDSNNnPE~--fLke------N~yYDs~vVGkYCEKRDP~  914 (1666)
T KOG0985|consen  844 LVEEVEKRNRLKLLLPWLESLIQEG-SQDPATHNALAKIYIDSNNNPER--FLKE------NPYYDSKVVGKYCEKRDPH  914 (1666)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHhcc-CcchHHHhhhhheeecCCCChHH--hccc------CCcchhhHHhhhhcccCCc
Confidence            3333445566666677777777888 57889999999999887654432  1111      1111122233344433332


Q ss_pred             HHHHHHHH-------------------HHHc-CCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCC-CCChhhHhHHHHH
Q 006997          116 EAILVLKE-------------------MWVL-GLELSASTFVSVVSGCSFRQGISMHCCVYKLGLL-NNEIPLANSVMSM  174 (622)
Q Consensus       116 ~A~~~~~~-------------------m~~~-~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~  174 (622)
                      -|.-.|++                   .-+. --+.|...|..++.-- -...+++.+.++..+++ ..|+...+..+.+
T Consensus       915 lA~vaYerGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~-n~~rRqLiDqVv~tal~E~~dPe~vS~tVkA  993 (1666)
T KOG0985|consen  915 LACVAYERGQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEE-NPYRRQLIDQVVQTALPETQDPEEVSVTVKA  993 (1666)
T ss_pred             eEEEeecccCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhcc-ChHHHHHHHHHHHhcCCccCChHHHHHHHHH
Confidence            22111111                   0000 0022444444443221 12345566666666542 2366667777888


Q ss_pred             HHhcCChHHHHHHHhhcCC-CCcc-----hHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChH
Q 006997          175 YAKFGKVNEARSIFDEIGE-TSIV-----SWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLF  248 (622)
Q Consensus       175 ~~~~g~~~~A~~~~~~~~~-~~~~-----~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  248 (622)
                      +...+-..+-.++++.+.- +++.     .-|.++-...+. +..++.+..+++-.-. .|+      +...+...+-++
T Consensus       994 fMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAika-d~trVm~YI~rLdnyD-a~~------ia~iai~~~LyE 1065 (1666)
T KOG0985|consen  994 FMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKA-DRTRVMEYINRLDNYD-APD------IAEIAIENQLYE 1065 (1666)
T ss_pred             HHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhc-ChHHHHHHHHHhccCC-chh------HHHHHhhhhHHH
Confidence            8888888888888888753 3332     334444444443 3455556665554322 122      233445556677


Q ss_pred             HHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 006997          249 LALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSV  328 (622)
Q Consensus       249 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~  328 (622)
                      +|..+|+..     ..+....+.|+.   .-+.++.|.++-++..+  +..|+.+..+-.+.|...+|++-|-+      
T Consensus      1066 EAF~ifkkf-----~~n~~A~~VLie---~i~~ldRA~efAe~~n~--p~vWsqlakAQL~~~~v~dAieSyik------ 1129 (1666)
T KOG0985|consen 1066 EAFAIFKKF-----DMNVSAIQVLIE---NIGSLDRAYEFAERCNE--PAVWSQLAKAQLQGGLVKDAIESYIK------ 1129 (1666)
T ss_pred             HHHHHHHHh-----cccHHHHHHHHH---HhhhHHHHHHHHHhhCC--hHHHHHHHHHHHhcCchHHHHHHHHh------
Confidence            777777654     333334444433   34566777776666544  35688888888888888888877754      


Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHH
Q 006997          329 RPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGY  408 (622)
Q Consensus       329 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~  408 (622)
                      .-|+..|..++..+.+.|.+++-.+++..+.+...+|..  -+.|+-+|++.+++.+.++++..   ||..-...+.+-|
T Consensus      1130 adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~i--d~eLi~AyAkt~rl~elE~fi~g---pN~A~i~~vGdrc 1204 (1666)
T KOG0985|consen 1130 ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYI--DSELIFAYAKTNRLTELEEFIAG---PNVANIQQVGDRC 1204 (1666)
T ss_pred             cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccc--hHHHHHHHHHhchHHHHHHHhcC---CCchhHHHHhHHH
Confidence            236778888888888888888888888777776544443  46788888888888777766542   4444444455555


Q ss_pred             HHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHH
Q 006997          409 AIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFF  457 (622)
Q Consensus       409 ~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~  457 (622)
                      ...|.++.|.-+|.....          |..+...+...|+++.|...-
T Consensus      1205 f~~~~y~aAkl~y~~vSN----------~a~La~TLV~LgeyQ~AVD~a 1243 (1666)
T KOG0985|consen 1205 FEEKMYEAAKLLYSNVSN----------FAKLASTLVYLGEYQGAVDAA 1243 (1666)
T ss_pred             hhhhhhHHHHHHHHHhhh----------HHHHHHHHHHHHHHHHHHHHh
Confidence            555555555444433222          444444444445555444443

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

Probab=99.16  E-value=8.1e-08  Score=85.34  Aligned_cols=189  Identities=14%  Similarity=0.141  Sum_probs=92.3

Q ss_pred             HHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccC---CCCChhHHHHHHHHHHHcCCHHHH
Q 006997          341 ACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERV---PDKDLAVWSAMINGYAIHGMGDQA  417 (622)
Q Consensus       341 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a  417 (622)
                      .+...|+...++.....+.+.. +.+...+..-..+|...|++..|+.-+...   ...+....-.+-..+...|+.+.+
T Consensus       164 s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~s  242 (504)
T KOG0624|consen  164 SASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENS  242 (504)
T ss_pred             HHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHH
Confidence            3344555556666555555543 445555555566666666666665444332   233444444444555556666666


Q ss_pred             HHHHHHhHHhcCCCCCHHH----HHHH---------HHHHhccCchHHHHHHHHHhHHhcCCCCC-----hhHHHHHHHH
Q 006997          418 LNLFYKMQHVEGLKPDAVV----YTSI---------LSACSHSGMVDDGLSFFKSMQSNFGIEPS-----IEHYLCLVDL  479 (622)
Q Consensus       418 ~~~~~~~~~~~~~~p~~~~----~~~l---------l~~~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~  479 (622)
                      +...++-.+   +.||...    |..+         +......++|.++++..+...+.   .|.     ...+..+-.+
T Consensus       243 L~~iRECLK---ldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~---ep~~~~ir~~~~r~~c~C  316 (504)
T KOG0624|consen  243 LKEIRECLK---LDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN---EPEETMIRYNGFRVLCTC  316 (504)
T ss_pred             HHHHHHHHc---cCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc---CCcccceeeeeeheeeec
Confidence            665555555   5555321    1111         01122334455555555444422   332     1223333444


Q ss_pred             HHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCC
Q 006997          480 LGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGST  536 (622)
Q Consensus       480 ~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  536 (622)
                      +...|++.+|++...++. ..|+ ..++-.-..+|....+++.|+.-|+++.+.+|++.
T Consensus       317 ~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~  375 (504)
T KOG0624|consen  317 YREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNT  375 (504)
T ss_pred             ccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccH
Confidence            555555555555555544 3333 44444444555555555555555555555555443

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

Probab=99.16  E-value=1.2e-08  Score=85.60  Aligned_cols=194  Identities=15%  Similarity=0.111  Sum_probs=106.0

Q ss_pred             HHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHH
Q 006997          339 LSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGD  415 (622)
Q Consensus       339 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~  415 (622)
                      .-.|...|+...|..-++++++.+ |.+..++..+...|.+.|+.+.|.+.|++..+   .+..+.|....-+|..|+++
T Consensus        42 al~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~~  120 (250)
T COG3063          42 ALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPE  120 (250)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCChH
Confidence            334444444444444444444443 33344444455555555555555555554432   23344555555556666666


Q ss_pred             HHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHH
Q 006997          416 QALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTI  493 (622)
Q Consensus       416 ~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~  493 (622)
                      +|...|++... ...-|. ..+|..+.-+..+.|+.+.|...|++....   .| .+.....+.+.....|++..|..++
T Consensus       121 eA~q~F~~Al~-~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~---dp~~~~~~l~~a~~~~~~~~y~~Ar~~~  196 (250)
T COG3063         121 EAMQQFERALA-DPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALEL---DPQFPPALLELARLHYKAGDYAPARLYL  196 (250)
T ss_pred             HHHHHHHHHHh-CCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHh---CcCCChHHHHHHHHHHhcccchHHHHHH
Confidence            66666666655 222222 345666666666666666666666666632   34 2445556666666666666666666


Q ss_pred             HhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCc
Q 006997          494 HEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTG  537 (622)
Q Consensus       494 ~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  537 (622)
                      ++..  ..++..++.-.+......||.+.+-+.-.++..+.|....
T Consensus       197 ~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s~e  242 (250)
T COG3063         197 ERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYSEE  242 (250)
T ss_pred             HHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHH
Confidence            6654  3345555555555556667766666666666666665443

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

Probab=99.14  E-value=2.6e-09  Score=101.51  Aligned_cols=248  Identities=18%  Similarity=0.115  Sum_probs=171.1

Q ss_pred             HhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHH
Q 006997          342 CAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQAL  418 (622)
Q Consensus       342 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~  418 (622)
                      +.+.|++..|.-.|+..++.+ |.+...|..|.......++-..|+..+.+..+   .+......|.-.|...|.-.+|+
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            345566666666666666655 45566666666666666666666666666554   23445555556677777777777


Q ss_pred             HHHHHhHHhcCCCCCHHHHHHHH---------HHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHH
Q 006997          419 NLFYKMQHVEGLKPDAVVYTSIL---------SACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLA  489 (622)
Q Consensus       419 ~~~~~~~~~~~~~p~~~~~~~ll---------~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  489 (622)
                      +.+++-..   ..|... |....         ..+..........++|-++....+..+|+.+...|.-.|.-.|.+++|
T Consensus       374 ~~L~~Wi~---~~p~y~-~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdra  449 (579)
T KOG1125|consen  374 KMLDKWIR---NKPKYV-HLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRA  449 (579)
T ss_pred             HHHHHHHH---hCccch-hccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHH
Confidence            77776654   111100 00000         122222334556666666665546568899999999999999999999


Q ss_pred             HHHHHhCC-CCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          490 LKTIHEMP-VEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       490 ~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ++.|+.+. .+| |...||.|+.++.-....++|+..|++++++.|+-..+.+.|+-.|...|.++||.+.|=.++.-..
T Consensus       450 iDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~  529 (579)
T KOG1125|consen  450 VDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQR  529 (579)
T ss_pred             HHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhh
Confidence            99999987 445 5778999999999999999999999999999999999999999999999999999999987765322


Q ss_pred             ccCCCceEEEECCeEEEEEecCCCCcchHHHHHHHHHHHHHHH
Q 006997          568 TKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLL  610 (622)
Q Consensus       568 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  610 (622)
                      +..               -..+.+++ ...+++.|...+.-|.
T Consensus       530 ks~---------------~~~~~~~~-se~iw~tLR~als~~~  556 (579)
T KOG1125|consen  530 KSR---------------NHNKAPMA-SENIWQTLRLALSAMN  556 (579)
T ss_pred             ccc---------------ccccCCcc-hHHHHHHHHHHHHHcC
Confidence            110               01112233 5678877776666554

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.14  E-value=3.4e-06  Score=85.75  Aligned_cols=522  Identities=13%  Similarity=0.120  Sum_probs=297.4

Q ss_pred             cchhhcCCchhHHHHHHHHHhC-CCCCCccc-HHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCC
Q 006997            3 RNSTNNGSFEETLSTYSSMLQT-GVHGNSFT-FPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSD   80 (622)
Q Consensus         3 ~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~   80 (622)
                      +.|.++|-...|++.+..+..- ........ =.--+-.+...-.++.+.+.+..|...++..|..+.-.+..-|..+-.
T Consensus       614 qLCEKAGL~qraLehytDl~DIKR~vVhth~L~pEwLv~yFg~lsve~s~eclkaml~~NirqNlQi~VQvatky~eqlg  693 (1666)
T KOG0985|consen  614 QLCEKAGLLQRALEHYTDLYDIKRVVVHTHLLNPEWLVNYFGSLSVEDSLECLKAMLSANIRQNLQIVVQVATKYHEQLG  693 (1666)
T ss_pred             HHHHhcchHHHHHHhcccHHHHHHHHHHhccCCHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            4688999999999888776542 01111110 111233444556788889999999998888888877777777777766


Q ss_pred             hhHHHHHhccCCCC-------------CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhh-----
Q 006997           81 FVSSRKVLDEMPVR-------------LRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSG-----  142 (622)
Q Consensus        81 ~~~A~~~~~~~~~~-------------~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~-----  142 (622)
                      .+.-+++|+..+.-             ..|+...--.|.+.++.|++.+..++-++--   + -|+...-..+.-     
T Consensus       694 ~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicresn---~-YdpErvKNfLkeAkL~D  769 (1666)
T KOG0985|consen  694 AQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRESN---C-YDPERVKNFLKEAKLTD  769 (1666)
T ss_pred             HHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhccc---c-CCHHHHHHHHHhccccc
Confidence            77777777766432             4466667778899999999888777655421   1 111111111111     


Q ss_pred             -------hh-h------------hhhHHHHHHHH-HhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHH
Q 006997          143 -------CS-F------------RQGISMHCCVY-KLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTT  201 (622)
Q Consensus       143 -------~~-~------------~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  201 (622)
                             |. +            ....+..+-.+ +-+... .+.+...|++    ..-.++..+-+-. .-++...-+.
T Consensus       770 qlPLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~-~p~VvG~LLD----~dC~E~~ik~Li~-~v~gq~~~de  843 (1666)
T KOG0985|consen  770 QLPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSR-TPQVVGALLD----VDCSEDFIKNLIL-SVRGQFPVDE  843 (1666)
T ss_pred             cCceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCCcc-cchhhhhhhc----CCCcHHHHHHHHH-HHhccCChHH
Confidence                   10 0            00000000000 000000 1111111111    1111111111000 0012233444


Q ss_pred             HHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHH-HHH---HHHHH------HHh-----------
Q 006997          202 IIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFL-ALS---MHSLL------LKS-----------  260 (622)
Q Consensus       202 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~-a~~---~~~~~------~~~-----------  260 (622)
                      +..-.-+.++..--+-.++.....|. .|..+++.+...|..+++-.+ -.+   .++..      .++           
T Consensus       844 Lv~EvEkRNRLklLlp~LE~~i~eG~-~d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~lA~vaYer  922 (1666)
T KOG0985|consen  844 LVEEVEKRNRLKLLLPWLESLIQEGS-QDPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPHLACVAYER  922 (1666)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHhccC-cchHHHhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCceEEEeecc
Confidence            55555666677777777777777774 588889999888887765332 111   11111      111           


Q ss_pred             C--------CCCCchhHHHHHHHHHhcCCHHHHHHHHh-----------hc------CCCCHHHHHHHHHHHHhcCChHH
Q 006997          261 G--------YNNEDPLDNLLVSMYTKCGDLELARRVFD-----------AV------LEKSVFLWTSMIGGYAQLGYPSE  315 (622)
Q Consensus       261 ~--------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-----------~~------~~~~~~~~~~l~~~~~~~~~~~~  315 (622)
                      |        +...-..|..+.+-+.+..+.+.-.+++.           +.      ...|+..-+.-+.++...+-+.+
T Consensus       923 GqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~e 1002 (1666)
T KOG0985|consen  923 GQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNE 1002 (1666)
T ss_pred             cCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHH
Confidence            1        01111123333333344444333333321           11      11255556667778888888888


Q ss_pred             HHHHHHHHHhCCCCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHHcC-----------------------CCCchhHH
Q 006997          316 AVNLFKRLLKTSVRPN--EATLATTLSACAELGSLSKGKEIEEYIVLNG-----------------------LESNRQVQ  370 (622)
Q Consensus       316 a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----------------------~~~~~~~~  370 (622)
                      -+++++++.-.+-..+  ...-+.++-...+ .+...+.++.+++-..+                       +..+....
T Consensus      1003 LIELLEKIvL~~S~Fse~~nLQnLLiLtAik-ad~trVm~YI~rLdnyDa~~ia~iai~~~LyEEAF~ifkkf~~n~~A~ 1081 (1666)
T KOG0985|consen 1003 LIELLEKIVLDNSVFSENRNLQNLLILTAIK-ADRTRVMEYINRLDNYDAPDIAEIAIENQLYEEAFAIFKKFDMNVSAI 1081 (1666)
T ss_pred             HHHHHHHHhcCCcccccchhhhhhHHHHHhh-cChHHHHHHHHHhccCCchhHHHHHhhhhHHHHHHHHHHHhcccHHHH
Confidence            8888888765331111  1112222222111 12222222222222111                       11222222


Q ss_pred             HHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCch
Q 006997          371 TSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMV  450 (622)
Q Consensus       371 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~  450 (622)
                      +.|++   .-+.++.|.+.-++..  .+..|..+..+-.+.|...+|++-|-+..       |+..|..+++.+.+.|.+
T Consensus      1082 ~VLie---~i~~ldRA~efAe~~n--~p~vWsqlakAQL~~~~v~dAieSyikad-------Dps~y~eVi~~a~~~~~~ 1149 (1666)
T KOG0985|consen 1082 QVLIE---NIGSLDRAYEFAERCN--EPAVWSQLAKAQLQGGLVKDAIESYIKAD-------DPSNYLEVIDVASRTGKY 1149 (1666)
T ss_pred             HHHHH---HhhhHHHHHHHHHhhC--ChHHHHHHHHHHHhcCchHHHHHHHHhcC-------CcHHHHHHHHHHHhcCcH
Confidence            22222   2244555555544443  34578999999999999999988775543       467799999999999999


Q ss_pred             HHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHc
Q 006997          451 DDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLT  530 (622)
Q Consensus       451 ~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  530 (622)
                      ++-.+++..+.++ .-+|.+.  +.|+-+|++.++..+-.+++    ..|+.......+.-|...|.++.|.-+|.    
T Consensus      1150 edLv~yL~MaRkk-~~E~~id--~eLi~AyAkt~rl~elE~fi----~gpN~A~i~~vGdrcf~~~~y~aAkl~y~---- 1218 (1666)
T KOG0985|consen 1150 EDLVKYLLMARKK-VREPYID--SELIFAYAKTNRLTELEEFI----AGPNVANIQQVGDRCFEEKMYEAAKLLYS---- 1218 (1666)
T ss_pred             HHHHHHHHHHHHh-hcCccch--HHHHHHHHHhchHHHHHHHh----cCCCchhHHHHhHHHhhhhhhHHHHHHHH----
Confidence            9999999877765 4555544  46899999999988866554    46788888889999999999999998887    


Q ss_pred             cCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 006997          531 LNPGSTGNYILMANLFTSAGMWKEAATARGLMD  563 (622)
Q Consensus       531 ~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (622)
                          +.+.|..|+..+...|.+..|...-++.-
T Consensus      1219 ----~vSN~a~La~TLV~LgeyQ~AVD~aRKAn 1247 (1666)
T KOG0985|consen 1219 ----NVSNFAKLASTLVYLGEYQGAVDAARKAN 1247 (1666)
T ss_pred             ----HhhhHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence                66778899999999999998887666553

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.11  E-value=1.7e-06  Score=84.85  Aligned_cols=78  Identities=5%  Similarity=-0.043  Sum_probs=43.6

Q ss_pred             HHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHHHHHHHhCCC
Q 006997           34 PLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACL  113 (622)
Q Consensus        34 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~  113 (622)
                      ...+..|.....++++..+-+   ..|.+.-...-.+.++++...|+-+.|-++-..    ..|  + -+-|+.|.+.|.
T Consensus       561 e~aigmy~~lhkwde~i~lae---~~~~p~~eklk~sy~q~l~dt~qd~ka~elk~s----dgd--~-laaiqlyika~~  630 (1636)
T KOG3616|consen  561 EEAIGMYQELHKWDEAIALAE---AKGHPALEKLKRSYLQALMDTGQDEKAAELKES----DGD--G-LAAIQLYIKAGK  630 (1636)
T ss_pred             HHHHHHHHHHHhHHHHHHHHH---hcCChHHHHHHHHHHHHHHhcCchhhhhhhccc----cCc--c-HHHHHHHHHcCC
Confidence            345556666666777666544   334333334445566666677777776554221    112  1 234667777887


Q ss_pred             chHHHHHH
Q 006997          114 NDEAILVL  121 (622)
Q Consensus       114 ~~~A~~~~  121 (622)
                      +.+|.+..
T Consensus       631 p~~a~~~a  638 (1636)
T KOG3616|consen  631 PAKAARAA  638 (1636)
T ss_pred             chHHHHhh
Confidence            77776653

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.08  E-value=7e-07  Score=90.57  Aligned_cols=179  Identities=12%  Similarity=0.075  Sum_probs=109.8

Q ss_pred             chhHHHHHHHHHhCCCCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhcc
Q 006997           11 FEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDE   90 (622)
Q Consensus        11 ~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~   90 (622)
                      ...|+..|-+..+..+.. ...|..+...|+...|...|.+.|+.+.+.. ..+...+......|++..+++.|..+.-.
T Consensus       474 ~~~al~ali~alrld~~~-apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  474 SALALHALIRALRLDVSL-APAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             HHHHHHHHHHHHhcccch-hHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            455555555554432221 2246667777776667777777777776665 44556666777777777777777766333


Q ss_pred             CCCC-CCCcch--HHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhh
Q 006997           91 MPVR-LRSVVS--WNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPL  167 (622)
Q Consensus        91 ~~~~-~~~~~~--~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (622)
                      ..+. +.-...  |....-.|...++..+|+.-|+...+.                                 .|.|...
T Consensus       552 ~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~---------------------------------dPkD~n~  598 (1238)
T KOG1127|consen  552 AAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRT---------------------------------DPKDYNL  598 (1238)
T ss_pred             HhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcC---------------------------------CchhHHH
Confidence            2221 111222  222333455666666666666666542                                 3338888


Q ss_pred             HhHHHHHHHhcCChHHHHHHHhhcCCCCcch-HHH--HHHHHHcCCChhHHHHHHHHHHH
Q 006997          168 ANSVMSMYAKFGKVNEARSIFDEIGETSIVS-WTT--IIGGYVNVGNVNEAFGLCNQMRR  224 (622)
Q Consensus       168 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~--li~~~~~~~~~~~a~~~~~~m~~  224 (622)
                      |..+..+|.++|++..|.+.|.+...-++.. |..  .....+..|.+.+++..+.....
T Consensus       599 W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  599 WLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             HHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            9999999999999999999998876533322 222  22334567888888888877643

>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=99.07  E-value=1.3e-08  Score=93.72  Aligned_cols=250  Identities=14%  Similarity=0.086  Sum_probs=157.0

Q ss_pred             HHHhcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHH
Q 006997          275 MYTKCGDLELARRVFDAVLEK---SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKG  351 (622)
Q Consensus       275 ~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a  351 (622)
                      -+.-.|++..++.-.+.-...   +......+.+++...|+++.++.   ++.... .|.......+...+...++.+.+
T Consensus        10 n~fy~G~Y~~~i~e~~~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl~---ei~~~~-~~~l~av~~la~y~~~~~~~e~~   85 (290)
T PF04733_consen   10 NQFYLGNYQQCINEASLKSFSPENKLERDFYQYRSYIALGQYDSVLS---EIKKSS-SPELQAVRLLAEYLSSPSDKESA   85 (290)
T ss_dssp             HHHCTT-HHHHCHHHHCHTSTCHHHHHHHHHHHHHHHHTT-HHHHHH---HS-TTS-SCCCHHHHHHHHHHCTSTTHHCH
T ss_pred             HHHHhhhHHHHHHHhhccCCCchhHHHHHHHHHHHHHHcCChhHHHH---HhccCC-ChhHHHHHHHHHHHhCccchHHH
Confidence            355567777777555411111   22344556778888888776543   333333 66666666666555544455555


Q ss_pred             HHHHHHHHHcCCC-CchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCC
Q 006997          352 KEIEEYIVLNGLE-SNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGL  430 (622)
Q Consensus       352 ~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  430 (622)
                      ..-++........ .+..+......++...|++++|.+++...  .+.......+..|.+.++++.|.+.++.|.+   +
T Consensus        86 l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~---~  160 (290)
T PF04733_consen   86 LEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQ---I  160 (290)
T ss_dssp             HHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC---C
T ss_pred             HHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh---c
Confidence            4444433322222 23333344445677789999999988876  4566667778889999999999999999987   5


Q ss_pred             CCCHHHHHHHHHHHh----ccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHh
Q 006997          431 KPDAVVYTSILSACS----HSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQV  504 (622)
Q Consensus       431 ~p~~~~~~~ll~~~~----~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~  504 (622)
                      ..|.. ...+..++.    -.+.+.+|..+|+++..+  ..+++.+.+.+..++...|++++|.+++++..  .+.++.+
T Consensus       161 ~eD~~-l~qLa~awv~l~~g~e~~~~A~y~f~El~~~--~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~  237 (290)
T PF04733_consen  161 DEDSI-LTQLAEAWVNLATGGEKYQDAFYIFEELSDK--FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDT  237 (290)
T ss_dssp             SCCHH-HHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC--S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHH
T ss_pred             CCcHH-HHHHHHHHHHHHhCchhHHHHHHHHHHHHhc--cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHH
Confidence            55543 333444332    234688899999998754  35677788888888888888888888888765  3344666


Q ss_pred             HHHHHHHHHhcCCH-HHHHHHHHHHHccCCCCC
Q 006997          505 WAPLLSACMKHHNV-ELGEYAAKNLLTLNPGST  536 (622)
Q Consensus       505 ~~~l~~~~~~~~~~-~~a~~~~~~~~~~~p~~~  536 (622)
                      +..++......|+. +.+.+.+.++....|+++
T Consensus       238 LaNliv~~~~~gk~~~~~~~~l~qL~~~~p~h~  270 (290)
T PF04733_consen  238 LANLIVCSLHLGKPTEAAERYLSQLKQSNPNHP  270 (290)
T ss_dssp             HHHHHHHHHHTT-TCHHHHHHHHHCHHHTTTSH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHhCCCCh
Confidence            77777777777776 667778888777888654

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.

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

Probab=99.06  E-value=1.3e-06  Score=77.95  Aligned_cols=307  Identities=10%  Similarity=0.096  Sum_probs=189.1

Q ss_pred             ChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHH---HHHHcCCChhHHHHHHHHHHHCCCCCCHhHHH-HHHH
Q 006997          164 EIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTII---GGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFL-NLIL  239 (622)
Q Consensus       164 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li---~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~-~ll~  239 (622)
                      ++.-.-.+.+.+...|++.+|+.-|....+-|...|.++.   ..|...|+...|+.=+....+  .+||-..-. .-..
T Consensus        37 dvekhlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle--lKpDF~~ARiQRg~  114 (504)
T KOG0624|consen   37 DVEKHLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE--LKPDFMAARIQRGV  114 (504)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHh--cCccHHHHHHHhch
Confidence            3333445667777788899999999888887777666654   567788888888887777776  467643321 1233


Q ss_pred             HHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 006997          240 GCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNL  319 (622)
Q Consensus       240 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  319 (622)
                      .+.+.|.++.|..-|+.+++...  +..+   ...++.+.--.++-..            ....+..+...|+...|++.
T Consensus       115 vllK~Gele~A~~DF~~vl~~~~--s~~~---~~eaqskl~~~~e~~~------------l~~ql~s~~~~GD~~~ai~~  177 (504)
T KOG0624|consen  115 VLLKQGELEQAEADFDQVLQHEP--SNGL---VLEAQSKLALIQEHWV------------LVQQLKSASGSGDCQNAIEM  177 (504)
T ss_pred             hhhhcccHHHHHHHHHHHHhcCC--Ccch---hHHHHHHHHhHHHHHH------------HHHHHHHHhcCCchhhHHHH
Confidence            45677888888888887776642  1110   0111111111111111            11223334455666666666


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC--CC
Q 006997          320 FKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD--KD  397 (622)
Q Consensus       320 ~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~  397 (622)
                      ...+++.. +.+...+..-..+|...|++..|+.=++...+.. ..+...+-.+-..+...|+.+.++...++..+  ||
T Consensus       178 i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpd  255 (504)
T KOG0624|consen  178 ITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKLDPD  255 (504)
T ss_pred             HHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcc
Confidence            66665542 3355555555556666666666655555554443 22333344455555566666666666555543  22


Q ss_pred             hh----HHHHH---------HHHHHHcCCHHHHHHHHHHhHHhcCCCCCH--H---HHHHHHHHHhccCchHHHHHHHHH
Q 006997          398 LA----VWSAM---------INGYAIHGMGDQALNLFYKMQHVEGLKPDA--V---VYTSILSACSHSGMVDDGLSFFKS  459 (622)
Q Consensus       398 ~~----~~~~l---------~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~--~---~~~~ll~~~~~~g~~~~a~~~~~~  459 (622)
                      ..    .|..+         +......++|.++++..+...+   ..|..  .   .+..+-.++...|++.+|++...+
T Consensus       256 HK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk---~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~e  332 (504)
T KOG0624|consen  256 HKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLK---NEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKE  332 (504)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh---cCCcccceeeeeeheeeecccccCCHHHHHHHHHH
Confidence            11    11111         2234567888999998888887   45542  2   344566678889999999999999


Q ss_pred             hHHhcCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCC
Q 006997          460 MQSNFGIEPS-IEHYLCLVDLLGRAGRFDLALKTIHEMP  497 (622)
Q Consensus       460 ~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  497 (622)
                      +.   .+.|+ +.++.--..+|.-...+++|+.-|+.+.
T Consensus       333 vL---~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~  368 (504)
T KOG0624|consen  333 VL---DIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKAL  368 (504)
T ss_pred             HH---hcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            98   56775 8888888999999999999999999886

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

Probab=99.01  E-value=3.8e-07  Score=90.52  Aligned_cols=286  Identities=14%  Similarity=0.099  Sum_probs=190.0

Q ss_pred             HHHHHhcCChHHHHHHHhhcCC--CCc-chHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHh----c-
Q 006997          172 MSMYAKFGKVNEARSIFDEIGE--TSI-VSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCA----Q-  243 (622)
Q Consensus       172 ~~~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~----~-  243 (622)
                      ...+...|++++|++.++.-..  .|. .........+.+.|+.++|..++..+.+.  .|+...|...+..+.    . 
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~r--NPdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDR--NPDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHhhhccc
Confidence            3456788999999999987655  343 34556678899999999999999999987  477777666666555    1 


Q ss_pred             -cCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHH-HHHHHHhhcCCCCH-HHHHHHHHHHHhcCChHHHHHHH
Q 006997          244 -VGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLE-LARRVFDAVLEKSV-FLWTSMIGGYAQLGYPSEAVNLF  320 (622)
Q Consensus       244 -~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~  320 (622)
                       ..+.+....+++.+...-  |.......+.-.+.....+. .+...+.....+++ .+|+.+-..|.......-..+++
T Consensus        89 ~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~  166 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLV  166 (517)
T ss_pred             ccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHH
Confidence             235677788888776553  32222222221122222232 23344444444444 56777766666555555555555


Q ss_pred             HHHHhC----C----------CCCCH--HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChH
Q 006997          321 KRLLKT----S----------VRPNE--ATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRIN  384 (622)
Q Consensus       321 ~~m~~~----~----------~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  384 (622)
                      ......    +          -.|+.  .++..+...|...|+++.|.++.+.++++. |..+..|..-...|-+.|+++
T Consensus       167 ~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht-Pt~~ely~~KarilKh~G~~~  245 (517)
T PF12569_consen  167 EEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT-PTLVELYMTKARILKHAGDLK  245 (517)
T ss_pred             HHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHCCCHH
Confidence            554432    1          12333  244555667788899999999999888875 445778888888899999999


Q ss_pred             HHHHHhccCCCC---ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHH--------HHHHHHHHHhccCchHHH
Q 006997          385 KAKEVFERVPDK---DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAV--------VYTSILSACSHSGMVDDG  453 (622)
Q Consensus       385 ~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~--------~~~~ll~~~~~~g~~~~a  453 (622)
                      +|.+.++....-   |-..-+..+..+.++|+.++|.+++..... .+..|-..        -..-...+|.+.|++..|
T Consensus       246 ~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr-~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~A  324 (517)
T PF12569_consen  246 EAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTR-EDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLA  324 (517)
T ss_pred             HHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcC-CCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence            999988877753   445555667788889999999999888877 55444221        124456678888998888


Q ss_pred             HHHHHHhHHh
Q 006997          454 LSFFKSMQSN  463 (622)
Q Consensus       454 ~~~~~~~~~~  463 (622)
                      ++.|..+.+.
T Consensus       325 Lk~~~~v~k~  334 (517)
T PF12569_consen  325 LKRFHAVLKH  334 (517)
T ss_pred             HHHHHHHHHH
Confidence            8877776643

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 [], [].

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.01  E-value=5.7e-07  Score=78.49  Aligned_cols=383  Identities=11%  Similarity=0.032  Sum_probs=237.1

Q ss_pred             hHHHHHHHhcCChHHHHHHHhhcCCC---CcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHH-HHHHHhcc
Q 006997          169 NSVMSMYAKFGKVNEARSIFDEIGET---SIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLN-LILGCAQV  244 (622)
Q Consensus       169 ~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-ll~~~~~~  244 (622)
                      ++.+-.+.+..++++|++++....++   +......+..+|....++..|-+.++++-..  .|...-|.. -...+.+.
T Consensus        14 taviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY~A   91 (459)
T KOG4340|consen   14 TAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLYKA   91 (459)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHHHh
Confidence            55566667778888888888766553   4556777788888888888888888888664  455444432 23455567


Q ss_pred             CChHHHHHHHHHHHHhCCCCCch--hHHHHHHHHHhcCCHHHHHHHHhhcCC-CCHHHHHHHHHHHHhcCChHHHHHHHH
Q 006997          245 GNLFLALSMHSLLLKSGYNNEDP--LDNLLVSMYTKCGDLELARRVFDAVLE-KSVFLWTSMIGGYAQLGYPSEAVNLFK  321 (622)
Q Consensus       245 ~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~  321 (622)
                      +.+..|..+...|.+.   +...  +...-....-..+++..+..++++.+. .+..+.+.......+.|+++.|.+-|+
T Consensus        92 ~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFq  168 (459)
T KOG4340|consen   92 CIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQ  168 (459)
T ss_pred             cccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHH
Confidence            7788888887776542   1111  111111123356788888888888874 556666666666778889999999998


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCch----------------------------hHHHHH
Q 006997          322 RLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNR----------------------------QVQTSL  373 (622)
Q Consensus       322 ~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----------------------------~~~~~l  373 (622)
                      ...+-+---....|+..+ +..+.++++.|.+...+++++|+...+                            ..+|.-
T Consensus       169 aAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLK  247 (459)
T KOG4340|consen  169 AALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLK  247 (459)
T ss_pred             HHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhh
Confidence            887754333445565444 455678888888888888877653211                            112222


Q ss_pred             HHHHHhcCChHHHHHHhccCCC-----CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhcc
Q 006997          374 IHMFSKCGRINKAKEVFERVPD-----KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHS  447 (622)
Q Consensus       374 ~~~~~~~~~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~  447 (622)
                      ...+.+.|+++.|.+.+-.|+.     -|++|...+.-. -..+++.+..+-+.-+..   +.| -..||..++-.|++.
T Consensus       248 aAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~---~nPfP~ETFANlLllyCKN  323 (459)
T KOG4340|consen  248 AAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQ---QNPFPPETFANLLLLYCKN  323 (459)
T ss_pred             hhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHh---cCCCChHHHHHHHHHHhhh
Confidence            3345678999999999999984     366776554322 124556666665666555   445 357899999999999


Q ss_pred             CchHHHHHHHHHhHHhcCC-CCChhHHHHHHHHH-HhcCChHHHHHHHHhCCCCCcHHhHHHHHHH--HHhcCC---HHH
Q 006997          448 GMVDDGLSFFKSMQSNFGI-EPSIEHYLCLVDLL-GRAGRFDLALKTIHEMPVEVQAQVWAPLLSA--CMKHHN---VEL  520 (622)
Q Consensus       448 g~~~~a~~~~~~~~~~~~~-~p~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~--~~~~~~---~~~  520 (622)
                      .-++-|-.++-+-... .. -.+...|+ |++++ ...-..++|.+-++.+...-....-...+..  -...++   ...
T Consensus       324 eyf~lAADvLAEn~~l-Tyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l~~kLRklAi~vQe~r~~~dd~a~R~  401 (459)
T KOG4340|consen  324 EYFDLAADVLAENAHL-TYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGMLTEKLRKLAIQVQEARHNRDDEAIRK  401 (459)
T ss_pred             HHHhHHHHHHhhCcch-hHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHH
Confidence            8888888887543211 00 11333343 33333 3445677777766654311001111111111  111222   233


Q ss_pred             HHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          521 GEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       521 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      +++-|++.+++.-   .+....++.|.+..++.-+.+.|+.-.+-.
T Consensus       402 ai~~Yd~~LE~YL---PVlMa~AkiyW~~~Dy~~vEk~Fr~SvefC  444 (459)
T KOG4340|consen  402 AVNEYDETLEKYL---PVLMAQAKIYWNLEDYPMVEKIFRKSVEFC  444 (459)
T ss_pred             HHHHHHHHHHHHH---HHHHHHHHhhccccccHHHHHHHHHHHhhh
Confidence            4555666666431   366788899999999999999999877643

>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=99.00  E-value=1.8e-08  Score=92.85  Aligned_cols=245  Identities=14%  Similarity=0.042  Sum_probs=164.4

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChH
Q 006997          305 GGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRIN  384 (622)
Q Consensus       305 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  384 (622)
                      +-+.-.|++..++.-.+ ........+......+.+++...|+.+.+.   .++.+.. +|.......+...+...++-+
T Consensus         9 rn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e   83 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKE   83 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHH
T ss_pred             HHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchH
Confidence            44556788888886665 222221223334556677888888876443   3333333 566666655555444435556


Q ss_pred             HHHHHhccCC-CC----ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHH
Q 006997          385 KAKEVFERVP-DK----DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKS  459 (622)
Q Consensus       385 ~A~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  459 (622)
                      .+..-+++.. ++    +..........+...|++++|++++.+.       .+.......+.++.+.++++.|.+.++.
T Consensus        84 ~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~-------~~lE~~al~Vqi~L~~~R~dlA~k~l~~  156 (290)
T PF04733_consen   84 SALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG-------GSLELLALAVQILLKMNRPDLAEKELKN  156 (290)
T ss_dssp             CHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT-------TCHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc-------CcccHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            6666665443 22    2222222234566679999999887542       3456677788899999999999999999


Q ss_pred             hHHhcCCCCChhHHHHHHHH----HHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCC
Q 006997          460 MQSNFGIEPSIEHYLCLVDL----LGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNP  533 (622)
Q Consensus       460 ~~~~~~~~p~~~~~~~l~~~----~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  533 (622)
                      |.   .+..|.. ...++.+    +.-.+.+.+|..+|+++.  ..+++.+++.++.+....|++++|+++++++++.+|
T Consensus       157 ~~---~~~eD~~-l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~  232 (290)
T PF04733_consen  157 MQ---QIDEDSI-LTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDP  232 (290)
T ss_dssp             HH---CCSCCHH-HHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-C
T ss_pred             HH---hcCCcHH-HHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc
Confidence            98   4455533 3333333    333457999999999986  456788889999999999999999999999999999


Q ss_pred             CCCchHHHHHHHHHhcCCh-HHHHHHHHHhhhC
Q 006997          534 GSTGNYILMANLFTSAGMW-KEAATARGLMDDR  565 (622)
Q Consensus       534 ~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~  565 (622)
                      +++.+..+++-+..-.|+. +.+.+.+.++...
T Consensus       233 ~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  233 NDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             CHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             CCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            9999999999999999998 6778888888764

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.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.00  E-value=1.5e-06  Score=76.03  Aligned_cols=293  Identities=12%  Similarity=0.060  Sum_probs=161.4

Q ss_pred             CCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHH-H
Q 006997           26 VHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNS-I  104 (622)
Q Consensus        26 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~-l  104 (622)
                      +.....-+.+++..+.+..++..|.+++..-.+.. +.+......|...|-...++..|-..++++....|...-|.. -
T Consensus         6 ~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~   84 (459)
T KOG4340|consen    6 AQIPEGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQ   84 (459)
T ss_pred             ccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHH
Confidence            33334445666666666667777777766655553 234555555666666677777777777776654444444432 2


Q ss_pred             HHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHH
Q 006997          105 ISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEA  184 (622)
Q Consensus       105 i~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  184 (622)
                      ...+.+.+.+.+|+++...|...   |+.                  +...++            .-.......+++..+
T Consensus        85 AQSLY~A~i~ADALrV~~~~~D~---~~L------------------~~~~lq------------LqaAIkYse~Dl~g~  131 (459)
T KOG4340|consen   85 AQSLYKACIYADALRVAFLLLDN---PAL------------------HSRVLQ------------LQAAIKYSEGDLPGS  131 (459)
T ss_pred             HHHHHHhcccHHHHHHHHHhcCC---HHH------------------HHHHHH------------HHHHHhcccccCcch
Confidence            23455566777777777666431   110                  111100            001122346778888


Q ss_pred             HHHHhhcCC-CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCC
Q 006997          185 RSIFDEIGE-TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYN  263 (622)
Q Consensus       185 ~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  263 (622)
                      ..+.++.+. .+..+.+...-...+.|+++.|.+-|+...+-+--.....|+..+ +..+.++.+.|.+...+++++|+.
T Consensus       132 rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r  210 (459)
T KOG4340|consen  132 RSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIR  210 (459)
T ss_pred             HHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhh
Confidence            888888874 555666666666778888998888888877654333445666554 444678888888888888888754


Q ss_pred             CCchh----------------------------HHHHHHHHHhcCCHHHHHHHHhhcCCC-----CHHHHHHHHHHHHhc
Q 006997          264 NEDPL----------------------------DNLLVSMYTKCGDLELARRVFDAVLEK-----SVFLWTSMIGGYAQL  310 (622)
Q Consensus       264 ~~~~~----------------------------~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~l~~~~~~~  310 (622)
                      ..+..                            +|.-...+.+.|+.+.|.+.+..|+.+     |++|...+.-. -..
T Consensus       211 ~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~  289 (459)
T KOG4340|consen  211 QHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMD  289 (459)
T ss_pred             cCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-ccc
Confidence            32221                            111222234455555555555555433     34443333211 112


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHH
Q 006997          311 GYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIE  355 (622)
Q Consensus       311 ~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  355 (622)
                      +++....+-+.-+...+. ....||..++-.||+..-++.|-.++
T Consensus       290 ~~p~~g~~KLqFLL~~nP-fP~ETFANlLllyCKNeyf~lAADvL  333 (459)
T KOG4340|consen  290 ARPTEGFEKLQFLLQQNP-FPPETFANLLLLYCKNEYFDLAADVL  333 (459)
T ss_pred             CCccccHHHHHHHHhcCC-CChHHHHHHHHHHhhhHHHhHHHHHH
Confidence            333333333444443322 33445555555555555555555444

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.99  E-value=1.8e-05  Score=78.91  Aligned_cols=50  Identities=20%  Similarity=0.155  Sum_probs=35.3

Q ss_pred             CHHHHHHHHHHHHccCCC------CCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          517 NVELGEYAAKNLLTLNPG------STGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       517 ~~~~a~~~~~~~~~~~p~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      |....+.-...+++ .|.      ....|-.++..+....+|..|-+.++.|..+.+
T Consensus      1306 D~~~~i~qc~~lle-ep~ld~~Ir~~~~~a~lie~~v~~k~y~~AyRal~el~~k~p 1361 (1416)
T KOG3617|consen 1306 DAADGIRQCTTLLE-EPILDDIIRCTRLFALLIEDHVSRKNYKPAYRALTELQKKVP 1361 (1416)
T ss_pred             hHHHHHHHHHHHhh-CcCCCCcchhHHHHHHHHHHHHhhhhccHHHHHHHHHhhcCC
Confidence            44444444444444 232      235788899999999999999999999987654

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

Probab=98.97  E-value=1.5e-06  Score=84.97  Aligned_cols=257  Identities=12%  Similarity=0.006  Sum_probs=133.9

Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH----hccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 006997          306 GYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSAC----AELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCG  381 (622)
Q Consensus       306 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  381 (622)
                      .+...|++++|.+.+++..+.. +.+...+.. ...+    ...+..+.+.+.+... ....+........+...+...|
T Consensus        52 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~~~~~~a~~~~~~G  128 (355)
T cd05804          52 SAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLGAFGLGDFSGMRDHVARVLPLW-APENPDYWYLLGMLAFGLEEAG  128 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHHHHHhcccccCchhHHHHHhcc-CcCCCCcHHHHHHHHHHHHHcC
Confidence            3445566666666666665542 112222221 1111    1223333333333321 1111222233344555666677


Q ss_pred             ChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH--HHHHHHHHHHhccCchHHHHHH
Q 006997          382 RINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDA--VVYTSILSACSHSGMVDDGLSF  456 (622)
Q Consensus       382 ~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~--~~~~~ll~~~~~~g~~~~a~~~  456 (622)
                      ++++|.+.+++..+   .+...+..+..++...|++++|...+++........|+.  ..|..+...+...|++++|..+
T Consensus       129 ~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~  208 (355)
T cd05804         129 QYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAI  208 (355)
T ss_pred             CHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHH
Confidence            77777777766553   234455666667777777777777777766511111222  2344566677777777777777


Q ss_pred             HHHhHHhcCCCCChhHH-H--HHHHHHHhcCChHHHHHH--H-HhCC-CCCc---HHhHHHHHHHHHhcCCHHHHHHHHH
Q 006997          457 FKSMQSNFGIEPSIEHY-L--CLVDLLGRAGRFDLALKT--I-HEMP-VEVQ---AQVWAPLLSACMKHHNVELGEYAAK  526 (622)
Q Consensus       457 ~~~~~~~~~~~p~~~~~-~--~l~~~~~~~g~~~~A~~~--~-~~~~-~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~  526 (622)
                      ++++.......+..... +  .+...+...|..+.+.++  + .... ..+.   .........++...|+.+.|...++
T Consensus       209 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~  288 (355)
T cd05804         209 YDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLA  288 (355)
T ss_pred             HHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHH
Confidence            77765221111111111 1  222333334432222222  1 1111 0011   1122245556677888888888888


Q ss_pred             HHHccCC---------CCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          527 NLLTLNP---------GSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       527 ~~~~~~p---------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      .+....-         .........+.++...|++++|.+.+......
T Consensus       289 ~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         289 ALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             HHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            7755221         13455667788889999999999999988764

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.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.95  E-value=6.1e-08  Score=77.78  Aligned_cols=120  Identities=11%  Similarity=0.030  Sum_probs=101.0

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHH
Q 006997          469 SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLF  546 (622)
Q Consensus       469 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (622)
                      +......+...+...|++++|.++|+-.. ..| +...|..|+.++...|++++|+..|.++..++|++|.++..++.++
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~  113 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECY  113 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            34556667778889999999999999876 444 5778999999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHhhhCCCccCCCceEEEECCeEEEEEecCCCCcchHHHHHHHHHHHHHHHH
Q 006997          547 TSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLLE  611 (622)
Q Consensus       547 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  611 (622)
                      ...|+.++|++.|+..+...-                       .+|+..++.++....+..+.+
T Consensus       114 L~lG~~~~A~~aF~~Ai~~~~-----------------------~~~~~~~l~~~A~~~L~~l~~  155 (157)
T PRK15363        114 LACDNVCYAIKALKAVVRICG-----------------------EVSEHQILRQRAEKMLQQLSD  155 (157)
T ss_pred             HHcCCHHHHHHHHHHHHHHhc-----------------------cChhHHHHHHHHHHHHHHhhc
Confidence            999999999999998876321                       367777777777666666543

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.95  E-value=3.8e-06  Score=83.59  Aligned_cols=355  Identities=16%  Similarity=0.159  Sum_probs=201.7

Q ss_pred             CchhHHHHH--HHhhcCCChhHHHHHhccCCCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHc-C--------CCCC
Q 006997           64 DAFVQTGLI--DMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVL-G--------LELS  132 (622)
Q Consensus        64 ~~~~~~~l~--~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~-~--------~~p~  132 (622)
                      |..+-.+++  +.|+.-|+.+.|.+-.+.++    +-..|..|.+.|.+.++++-|.-.+-.|... |        ..|+
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~Ik----S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~  800 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIK----SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE  800 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHh----hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc
Confidence            455555555  36778899999988888776    5567999999999998888887777666431 1        1121


Q ss_pred             h-hhHHHHHhh-hh-hhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCC-CcchHHHHHHHHHc
Q 006997          133 A-STFVSVVSG-CS-FRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGET-SIVSWTTIIGGYVN  208 (622)
Q Consensus       133 ~-~t~~~ll~~-~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~  208 (622)
                      . ..-.+++.. +. .+.|..+++...+.          ..|-+.|...|.+++|.++-+.--+- =..+|..-...+-.
T Consensus       801 e~eakvAvLAieLgMlEeA~~lYr~ckR~----------DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lea  870 (1416)
T KOG3617|consen  801 EDEAKVAVLAIELGMLEEALILYRQCKRY----------DLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEA  870 (1416)
T ss_pred             chhhHHHHHHHHHhhHHHHHHHHHHHHHH----------HHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHh
Confidence            1 111111111 11 66677777665543          33446677778888887776543221 12355555666666


Q ss_pred             CCChhHHHHHHHHHH----------HCC---------CCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhH
Q 006997          209 VGNVNEAFGLCNQMR----------RMS---------VTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLD  269 (622)
Q Consensus       209 ~~~~~~a~~~~~~m~----------~~~---------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  269 (622)
                      .++.+.|++.|++..          ...         -.-|...|.......-..|+.+.|+.+|....+         |
T Consensus       871 r~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~  941 (1416)
T KOG3617|consen  871 RRDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------Y  941 (1416)
T ss_pred             hccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------h
Confidence            777777777776531          110         012333444444444555666666666665543         3


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc-----
Q 006997          270 NLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAE-----  344 (622)
Q Consensus       270 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-----  344 (622)
                      -+++...|-.|+.++|-++-++  ..|..+...|.+.|-..|++.+|...|.+.+.         |...|+.|-.     
T Consensus       942 fs~VrI~C~qGk~~kAa~iA~e--sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsnAIRlcKEnd~~d 1010 (1416)
T KOG3617|consen  942 FSMVRIKCIQGKTDKAARIAEE--SGDKAACYHLARMYENDGDVVKAVKFFTRAQA---------FSNAIRLCKENDMKD 1010 (1416)
T ss_pred             hhheeeEeeccCchHHHHHHHh--cccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHHHHHHHHhcCHHH
Confidence            3455555666666666666543  33556677788888888888888888876542         2222222211     


Q ss_pred             ----------cCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC--------------CChhH
Q 006997          345 ----------LGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD--------------KDLAV  400 (622)
Q Consensus       345 ----------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--------------~~~~~  400 (622)
                                ..+.-.|.++|++.   |.     -...-+..|-+.|.+.+|+++--+-.+              .|+..
T Consensus      1011 ~L~nlal~s~~~d~v~aArYyEe~---g~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~l 1082 (1416)
T KOG3617|consen 1011 RLANLALMSGGSDLVSAARYYEEL---GG-----YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKL 1082 (1416)
T ss_pred             HHHHHHhhcCchhHHHHHHHHHHc---ch-----hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHH
Confidence                      11222333333332   11     123345567788888887775433221              25555


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhHHh---------cC----------------CCCCH----HHHHHHHHHHhccCchH
Q 006997          401 WSAMINGYAIHGMGDQALNLFYKMQHV---------EG----------------LKPDA----VVYTSILSACSHSGMVD  451 (622)
Q Consensus       401 ~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~----------------~~p~~----~~~~~ll~~~~~~g~~~  451 (622)
                      .+.-..-++.+.++++|..++-...+.         .|                -.|+.    .....+...|.+.|.+.
T Consensus      1083 l~RcadFF~~~~qyekAV~lL~~ar~~~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh 1162 (1416)
T KOG3617|consen 1083 LRRCADFFENNQQYEKAVNLLCLAREFSGALQLCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYH 1162 (1416)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchH
Confidence            555555556666666666555443321         01                11222    23556667788888888


Q ss_pred             HHHHHHHHh
Q 006997          452 DGLSFFKSM  460 (622)
Q Consensus       452 ~a~~~~~~~  460 (622)
                      .|.+-|.++
T Consensus      1163 ~AtKKfTQA 1171 (1416)
T KOG3617|consen 1163 AATKKFTQA 1171 (1416)
T ss_pred             HHHHHHhhh
Confidence            777766554

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.93  E-value=4.3e-06  Score=85.07  Aligned_cols=538  Identities=11%  Similarity=0.007  Sum_probs=287.3

Q ss_pred             CchhHHHHHHHHHhCCCCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhc-CCCCchhHHHHHHHhhcCCChhHHHHHh
Q 006997           10 SFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVG-FQQDAFVQTGLIDMYSKCSDFVSSRKVL   88 (622)
Q Consensus        10 ~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~   88 (622)
                      +...|...|++.-+.+.. +..........+++..+++.|..+.-...+.. ...-...|..+.-.|.+.++...|+.-|
T Consensus       507 Dm~RA~kCf~KAFeLDat-daeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~f  585 (1238)
T KOG1127|consen  507 DMKRAKKCFDKAFELDAT-DAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEF  585 (1238)
T ss_pred             HHHHHHHHHHHHhcCCch-hhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHH
Confidence            456788888888775322 44567778899999999999988833222221 0111223334455677888999999999


Q ss_pred             ccCCCC-CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhh---hh---hhhhHHHHHHHHHhC--
Q 006997           89 DEMPVR-LRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSG---CS---FRQGISMHCCVYKLG--  159 (622)
Q Consensus        89 ~~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~---~~---~~~~~~~~~~~~~~~--  159 (622)
                      +...+. +.|...|..+..+|.+.|++..|+++|.+...  +.|+. +|.....+   |.   ...+...+..++...  
T Consensus       586 QsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~--LrP~s-~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~  662 (1238)
T KOG1127|consen  586 QSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASL--LRPLS-KYGRFKEAVMECDNGKYKEALDALGLIIYAFSL  662 (1238)
T ss_pred             HHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHh--cCcHh-HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Confidence            987655 67788999999999999999999999988765  44543 23222222   22   334444433333221  


Q ss_pred             ---CCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHH-HHHHcCCC----hhHHHHHHHHHHHCCCCCCH
Q 006997          160 ---LLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTII-GGYVNVGN----VNEAFGLCNQMRRMSVTPDL  231 (622)
Q Consensus       160 ---~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li-~~~~~~~~----~~~a~~~~~~m~~~~~~p~~  231 (622)
                         ...+-..++-.+...+...|-...|..+|+.-.    ..+...+ ...+....    ...|..+|-+.. .. .|+.
T Consensus       663 e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksi----e~f~~~l~h~~~~~~~~Wi~asdac~~f~q~e-~~-~vn~  736 (1238)
T KOG1127|consen  663 ERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSI----ESFIVSLIHSLQSDRLQWIVASDACYIFSQEE-PS-IVNM  736 (1238)
T ss_pred             HHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHH----HHHHHHHHHhhhhhHHHHHHHhHHHHHHHHhc-cc-chHH
Confidence               111112222222233333333334444443321    1111111 11000000    112223333322 11 2333


Q ss_pred             hHHHHHHHHHhccCCh---H---HHHHHHHHHHHhCCCCCchhHHHHHHHHHh----c----CCHHHHHHHHhhcC---C
Q 006997          232 VVFLNLILGCAQVGNL---F---LALSMHSLLLKSGYNNEDPLDNLLVSMYTK----C----GDLELARRVFDAVL---E  294 (622)
Q Consensus       232 ~~~~~ll~~~~~~~~~---~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~----~~~~~a~~~~~~~~---~  294 (622)
                      .....+..-.-+.+..   +   .+.+.+-.-.  .+..+..+|..|+..|.+    .    .+...|...+....   .
T Consensus       737 h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hl--sl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~a  814 (1238)
T KOG1127|consen  737 HYLIILSKQLEKTGALKKNDLLFLGYECGIAHL--SLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLCA  814 (1238)
T ss_pred             HHHHHHHHHHHhcccCcchhHHHHHHHHhhHHH--HHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHhh
Confidence            3333333222222222   1   1111111111  112223344334333332    1    12335666666543   3


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHH
Q 006997          295 KSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLI  374 (622)
Q Consensus       295 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  374 (622)
                      .+...||.|.-. ...|.+.-+...|-+-.... +....+|..+.-.+....+++.|...|....... |.+...+-...
T Consensus       815 nn~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLd-P~nl~~WlG~A  891 (1238)
T KOG1127|consen  815 NNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLD-PLNLVQWLGEA  891 (1238)
T ss_pred             ccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhhcC-chhhHHHHHHH
Confidence            466788877665 55567777777776655543 3355677777777888888998888888777654 33444444333


Q ss_pred             HHHHhcCChHHHHHHhccC-----C---CCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHh--------cCCCCCHHHHH
Q 006997          375 HMFSKCGRINKAKEVFERV-----P---DKDLAVWSAMINGYAIHGMGDQALNLFYKMQHV--------EGLKPDAVVYT  438 (622)
Q Consensus       375 ~~~~~~~~~~~A~~~~~~~-----~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~~p~~~~~~  438 (622)
                      ..-...|+.-++..+|..-     .   .++..-|-........+|+.++-+...+++..-        .+.+.+...|.
T Consensus       892 li~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~fAy~  971 (1238)
T KOG1127|consen  892 LIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFLGHPQLCFAYA  971 (1238)
T ss_pred             HhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchhHHHH
Confidence            3444567666777776541     1   134445555555556677666554444443220        12333456777


Q ss_pred             HHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHH----HHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHh
Q 006997          439 SILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYL----CLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMK  514 (622)
Q Consensus       439 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~----~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~  514 (622)
                      ..+...-+.+.+..|.+...+...-...+-+...|+    .+.+.+...|.++.|..-+.......+..+...-+.. .-
T Consensus       972 ~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~~~evdEdi~gt~l~l-Ff 1050 (1238)
T KOG1127|consen  972 ANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKEWMEVDEDIRGTDLTL-FF 1050 (1238)
T ss_pred             HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhcccchhHHHHHhhhhHHH-HH
Confidence            777777777777777776666542211123444444    3445566778888777776665544444443333333 34


Q ss_pred             cCCHHHHHHHHHHHHccCCCCCc---hHHHHHHHHHhcCChHHHHHHHHHhh
Q 006997          515 HHNVELGEYAAKNLLTLNPGSTG---NYILMANLFTSAGMWKEAATARGLMD  563 (622)
Q Consensus       515 ~~~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (622)
                      .++++++.+.|++++.+...+..   ....++.+....|..+.|...+-+..
T Consensus      1051 kndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~ 1102 (1238)
T KOG1127|consen 1051 KNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVK 1102 (1238)
T ss_pred             HhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHH
Confidence            57889999999998886544444   23344555566677777776554443

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

Probab=98.92  E-value=8.7e-08  Score=83.37  Aligned_cols=148  Identities=11%  Similarity=0.095  Sum_probs=116.7

Q ss_pred             HHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcC
Q 006997          405 INGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAG  484 (622)
Q Consensus       405 ~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  484 (622)
                      +..|...|+++.+....+.+..     |.        ..+...++.+++...++...+.  -+.+...|..+...|...|
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~-----~~--------~~~~~~~~~~~~i~~l~~~L~~--~P~~~~~w~~Lg~~~~~~g   87 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD-----PL--------HQFASQQTPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWRN   87 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC-----cc--------ccccCchhHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCC
Confidence            3467888888887555433322     11        0122366778888888887754  2447888999999999999


Q ss_pred             ChHHHHHHHHhCC-C-CCcHHhHHHHHHHH-HhcCC--HHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHH
Q 006997          485 RFDLALKTIHEMP-V-EVQAQVWAPLLSAC-MKHHN--VELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATAR  559 (622)
Q Consensus       485 ~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~-~~~~~--~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  559 (622)
                      ++++|...+++.. . +.+...+..+..++ ...|+  .++|.++++++++.+|+++.++..++..+.+.|++++|...+
T Consensus        88 ~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~  167 (198)
T PRK10370         88 DYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELW  167 (198)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999886 3 44577788888864 67677  599999999999999999999999999999999999999999


Q ss_pred             HHhhhCCC
Q 006997          560 GLMDDRRL  567 (622)
Q Consensus       560 ~~~~~~~~  567 (622)
                      +++.+...
T Consensus       168 ~~aL~l~~  175 (198)
T PRK10370        168 QKVLDLNS  175 (198)
T ss_pred             HHHHhhCC
Confidence            99987544

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.92  E-value=7.6e-08  Score=87.74  Aligned_cols=180  Identities=10%  Similarity=0.016  Sum_probs=110.5

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHhccCCC--CC-h---hHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHH----
Q 006997          366 NRQVQTSLIHMFSKCGRINKAKEVFERVPD--KD-L---AVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAV----  435 (622)
Q Consensus       366 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~-~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~----  435 (622)
                      ....+..+...+...|++++|...|+++..  |+ .   ..+..+..++...|++++|...++++.+   ..|+..    
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~---~~p~~~~~~~  108 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIR---LHPNHPDADY  108 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---HCcCCCchHH
Confidence            344555566666666777777777665543  21 1   2445556666666777777777777665   334321    


Q ss_pred             HHHHHHHHHhcc--------CchHHHHHHHHHhHHhcCCCCCh-hHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHH
Q 006997          436 VYTSILSACSHS--------GMVDDGLSFFKSMQSNFGIEPSI-EHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWA  506 (622)
Q Consensus       436 ~~~~ll~~~~~~--------g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  506 (622)
                      ++..+..++...        |++++|.+.++.+...   .|+. ..+..+.....    ....   .        .....
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~~~----~~~~---~--------~~~~~  170 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRMDY----LRNR---L--------AGKEL  170 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHHHH----HHHH---H--------HHHHH
Confidence            344444444433        5566666666666643   3432 12211111100    0000   0        00112


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHccCCCCC---chHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          507 PLLSACMKHHNVELGEYAAKNLLTLNPGST---GNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       507 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      .+...+...|++++|+..++++++..|+++   ..+..++.++.+.|++++|..+++.+..+.
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            456678889999999999999999887654   689999999999999999999999887643

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).

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

Probab=98.92  E-value=6.4e-05  Score=71.74  Aligned_cols=149  Identities=14%  Similarity=0.112  Sum_probs=84.8

Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCC-chhHHHHHHHHHHhcCChHHHHHHhc
Q 006997          313 PSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLES-NRQVQTSLIHMFSKCGRINKAKEVFE  391 (622)
Q Consensus       313 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~  391 (622)
                      .+...+.++++...-..--..+|...+....+..-+..|..+|.++.+.+..+ ++.++++++.-|+. ++.+-|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS-KDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc-CChhHHHHHHH
Confidence            44455555555443222223345556666666666666777777766665444 55666666665543 55666666666


Q ss_pred             cCCC--CC-hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH--HHHHHHHHHHhccCchHHHHHHHHHhHHh
Q 006997          392 RVPD--KD-LAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDA--VVYTSILSACSHSGMVDDGLSFFKSMQSN  463 (622)
Q Consensus       392 ~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  463 (622)
                      --.+  +| +.--...++-+...|+-..+..+|++... .++.|+.  ..|..++.--+.-|+...+.++-+++...
T Consensus       426 LGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~-s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  426 LGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLT-SVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             HHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHh-ccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            4432  22 23333445555666666666667776666 4555542  45666666666666666666666655544

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.92  E-value=2.6e-08  Score=81.92  Aligned_cols=108  Identities=10%  Similarity=-0.022  Sum_probs=87.5

Q ss_pred             HHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccC
Q 006997          455 SFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLN  532 (622)
Q Consensus       455 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  532 (622)
                      .++++..   .+.|+  .+..+...+...|++++|...|+...  .+.+...|..++.++...|++++|...|+++++++
T Consensus        14 ~~~~~al---~~~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLL---SVDPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHH---HcCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            4455555   23454  35567788888999999999998876  34457788889999999999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          533 PGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       533 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      |+++.++..++.++.+.|++++|...|+...+..+
T Consensus        89 p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p  123 (144)
T PRK15359         89 ASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSY  123 (144)
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999998877433

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.91  E-value=2.6e-08  Score=81.94  Aligned_cols=123  Identities=9%  Similarity=-0.010  Sum_probs=103.5

Q ss_pred             HHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhC
Q 006997          418 LNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEM  496 (622)
Q Consensus       418 ~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  496 (622)
                      ..++++..+   +.|+.  +.....++...|++++|...|+.+..   +.| +...+..+..++.+.|++++|+..|+++
T Consensus        13 ~~~~~~al~---~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~A   84 (144)
T PRK15359         13 EDILKQLLS---VDPET--VYASGYASWQEGDYSRAVIDFSWLVM---AQPWSWRAHIALAGTWMMLKEYTTAINFYGHA   84 (144)
T ss_pred             HHHHHHHHH---cCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            345666666   66664  44567788899999999999999884   355 6788889999999999999999999998


Q ss_pred             C--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHh
Q 006997          497 P--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTS  548 (622)
Q Consensus       497 ~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (622)
                      .  .+.+...+..++.++...|+.++|+..+++++++.|+++..+...+.+...
T Consensus        85 l~l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~~  138 (144)
T PRK15359         85 LMLDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQIM  138 (144)
T ss_pred             HhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence            7  455678899999999999999999999999999999999999888887654

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

Probab=98.90  E-value=9.6e-08  Score=91.16  Aligned_cols=248  Identities=14%  Similarity=0.075  Sum_probs=173.8

Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHH
Q 006997          306 GYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINK  385 (622)
Q Consensus       306 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  385 (622)
                      -+.+.|+..+|.-.|+..++.. +-+...|..|.......++-..|+..+++..+.. +.+..+.-.|.-.|...|.-..
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHH
Confidence            3456677777777777776653 2244566666666677777777777777777665 4566667777777777777777


Q ss_pred             HHHHhccCCCCCh-hHHHHHH---------HHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHH
Q 006997          386 AKEVFERVPDKDL-AVWSAMI---------NGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLS  455 (622)
Q Consensus       386 A~~~~~~~~~~~~-~~~~~l~---------~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~  455 (622)
                      |..+++......+ ..|....         ..+..........++|-++....+..+|+.....|.-.|-..|++++|+.
T Consensus       372 Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD  451 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD  451 (579)
T ss_pred             HHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH
Confidence            7777765421100 0000000         11111223345556666655535655777788888888889999999999


Q ss_pred             HHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccC
Q 006997          456 FFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLN  532 (622)
Q Consensus       456 ~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  532 (622)
                      .|+.++.   +.| |...||.|...++...+.++|+.-|.++. ..|. +.++..|+-.|...|.+++|...|-.++.+.
T Consensus       452 cf~~AL~---v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq  528 (579)
T KOG1125|consen  452 CFEAALQ---VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQ  528 (579)
T ss_pred             HHHHHHh---cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhh
Confidence            9999994   477 67889999999999999999999999987 6777 6688899999999999999999999999876


Q ss_pred             CC-----CC-----chHHHHHHHHHhcCChHHHHHH
Q 006997          533 PG-----ST-----GNYILMANLFTSAGMWKEAATA  558 (622)
Q Consensus       533 p~-----~~-----~~~~~l~~~~~~~g~~~~A~~~  558 (622)
                      +.     ..     .+|..|=.++.-+++.|-+.++
T Consensus       529 ~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  529 RKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             hcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence            54     11     3666666677777777654443

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

Probab=98.90  E-value=1.5e-07  Score=98.48  Aligned_cols=199  Identities=16%  Similarity=0.183  Sum_probs=167.8

Q ss_pred             CCchhHHHHHHHHHHhcCChHHHHHHhccCCCC--------ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHH
Q 006997          364 ESNRQVQTSLIHMFSKCGRINKAKEVFERVPDK--------DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAV  435 (622)
Q Consensus       364 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~  435 (622)
                      |.+...|-..+......++.++|.+++++....        -...|.++++.-...|.-+...++|+++.+   +--.-.
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcq---ycd~~~ 1531 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQ---YCDAYT 1531 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHH---hcchHH
Confidence            455677777888888899999999999887641        235788888877788888899999999987   322345


Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC---cHHhHHHHHHH
Q 006997          436 VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEV---QAQVWAPLLSA  511 (622)
Q Consensus       436 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~---~~~~~~~l~~~  511 (622)
                      .|..|...|.+.+.+++|.++++.|.++++  -....|..+++.+.+..+-++|..++.++. .-|   ........+..
T Consensus      1532 V~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqL 1609 (1710)
T KOG1070|consen 1532 VHLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQL 1609 (1710)
T ss_pred             HHHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHH
Confidence            688899999999999999999999998876  667889999999999999999999998875 222   35566677777


Q ss_pred             HHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          512 CMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       512 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      -.+.||.+++..+|+-.+.-.|.-.+.|..+++.-.+.|+.+.++.+|+++...++
T Consensus      1610 EFk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l 1665 (1710)
T KOG1070|consen 1610 EFKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKL 1665 (1710)
T ss_pred             HhhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCC
Confidence            88999999999999999999999999999999999999999999999999988665

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.87  E-value=4e-06  Score=93.13  Aligned_cols=324  Identities=12%  Similarity=0.003  Sum_probs=204.4

Q ss_pred             hccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcC----CC----C--H--HHHHHHHHHHHh
Q 006997          242 AQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVL----EK----S--V--FLWTSMIGGYAQ  309 (622)
Q Consensus       242 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~----~--~--~~~~~l~~~~~~  309 (622)
                      ...|+++.+...+..+.......+..........+...|+++++...+....    ..    +  .  .....+...+..
T Consensus       385 ~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  464 (903)
T PRK04841        385 FNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAIN  464 (903)
T ss_pred             HhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHh
Confidence            3456666666666554221112223333445556677889999888876542    11    1  1  122223445667


Q ss_pred             cCChHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHhccCChHHHHHHHHHHHHcCC---CC--chhHHHHHHHHHHhc
Q 006997          310 LGYPSEAVNLFKRLLKTSVRPNE----ATLATTLSACAELGSLSKGKEIEEYIVLNGL---ES--NRQVQTSLIHMFSKC  380 (622)
Q Consensus       310 ~~~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~  380 (622)
                      .|++++|...+++..+.-...+.    .....+...+...|+++.|...++.......   .+  .......+...+...
T Consensus       465 ~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~  544 (903)
T PRK04841        465 DGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQ  544 (903)
T ss_pred             CCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHC
Confidence            89999999999987763111121    2334555567788999999998887764311   11  123445567778889


Q ss_pred             CChHHHHHHhccCCC-------CC----hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhc-CCCCC--HHHHHHHHHHHhc
Q 006997          381 GRINKAKEVFERVPD-------KD----LAVWSAMINGYAIHGMGDQALNLFYKMQHVE-GLKPD--AVVYTSILSACSH  446 (622)
Q Consensus       381 ~~~~~A~~~~~~~~~-------~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~p~--~~~~~~ll~~~~~  446 (622)
                      |+++.|...+++...       ++    ...+..+...+...|++++|...+.+..... ...+.  ...+..+......
T Consensus       545 G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~  624 (903)
T PRK04841        545 GFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLA  624 (903)
T ss_pred             CCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHH
Confidence            999999888776442       11    1234445566777899999999998876511 11222  2344556667788


Q ss_pred             cCchHHHHHHHHHhHHhcCCCCChhHH-----HHHHHHHHhcCChHHHHHHHHhCCCC--CcH----HhHHHHHHHHHhc
Q 006997          447 SGMVDDGLSFFKSMQSNFGIEPSIEHY-----LCLVDLLGRAGRFDLALKTIHEMPVE--VQA----QVWAPLLSACMKH  515 (622)
Q Consensus       447 ~g~~~~a~~~~~~~~~~~~~~p~~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~----~~~~~l~~~~~~~  515 (622)
                      .|+++.|...++++............+     ...+..+...|+.+.|..++......  ...    ..+..+..++...
T Consensus       625 ~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~  704 (903)
T PRK04841        625 RGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILL  704 (903)
T ss_pred             cCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHc
Confidence            999999999998875421111111111     11224455689999999998776511  111    1134566678889


Q ss_pred             CCHHHHHHHHHHHHccCC------CCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          516 HNVELGEYAAKNLLTLNP------GSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       516 ~~~~~a~~~~~~~~~~~p------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      |+.++|...++++++...      ....++..++.++.+.|+.++|...+.+..+.
T Consensus       705 g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        705 GQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             CCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999987421      22346778899999999999999999998864

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

Probab=98.83  E-value=2.2e-05  Score=76.78  Aligned_cols=192  Identities=15%  Similarity=0.065  Sum_probs=95.6

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCC-----Ch--hHHHHHHHHHHH
Q 006997          338 TLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDK-----DL--AVWSAMINGYAI  410 (622)
Q Consensus       338 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~--~~~~~l~~~~~~  410 (622)
                      +...+...|+++.|...++...+.. +.+...+..+..+|...|++++|...+++....     +.  ..|..+...+..
T Consensus       120 ~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~  198 (355)
T cd05804         120 LAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLE  198 (355)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHH
Confidence            3344555556666666665555544 333445555566666666666666666554431     11  123345566667


Q ss_pred             cCCHHHHHHHHHHhHHhcCC-CCCHHHH-H--HHHHHHhccCchHHHHHH--HHHhHHhcCCCCC--hhHHHHHHHHHHh
Q 006997          411 HGMGDQALNLFYKMQHVEGL-KPDAVVY-T--SILSACSHSGMVDDGLSF--FKSMQSNFGIEPS--IEHYLCLVDLLGR  482 (622)
Q Consensus       411 ~~~~~~a~~~~~~~~~~~~~-~p~~~~~-~--~ll~~~~~~g~~~~a~~~--~~~~~~~~~~~p~--~~~~~~l~~~~~~  482 (622)
                      .|++++|..++++... ... .+..... .  .++.-+...|..+.+.+.  +...... ..+..  .......+.++..
T Consensus       199 ~G~~~~A~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~-~~~~~~~~~~~~~~a~~~~~  276 (355)
T cd05804         199 RGDYEAALAIYDTHIA-PSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAW-HFPDHGLAFNDLHAALALAG  276 (355)
T ss_pred             CCCHHHHHHHHHHHhc-cccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHh-hcCcccchHHHHHHHHHHhc
Confidence            7777777777777654 111 1111111 1  223333333433222222  1111111 00111  1111245566677


Q ss_pred             cCChHHHHHHHHhCC--CCC---c------HHhHHHHHHHHHhcCCHHHHHHHHHHHHccC
Q 006997          483 AGRFDLALKTIHEMP--VEV---Q------AQVWAPLLSACMKHHNVELGEYAAKNLLTLN  532 (622)
Q Consensus       483 ~g~~~~A~~~~~~~~--~~~---~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  532 (622)
                      .|+.++|..+++.+.  ...   .      .........++...|+.+.|.+.+..++.+.
T Consensus       277 ~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         277 AGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             CCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            788888888887764  111   1      1111223334567889999998888887653

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.76  E-value=2.5e-05  Score=86.88  Aligned_cols=361  Identities=11%  Similarity=0.026  Sum_probs=222.6

Q ss_pred             HHHHhcCChHHHHHHHhhcCCCCcch--HHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHH
Q 006997          173 SMYAKFGKVNEARSIFDEIGETSIVS--WTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLA  250 (622)
Q Consensus       173 ~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  250 (622)
                      ..+...|++.+|..............  ...........|+++.+...+..+.......+..........+...|+++++
T Consensus       349 ~~~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a  428 (903)
T PRK04841        349 EAWLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEV  428 (903)
T ss_pred             HHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHH
Confidence            34455566666665555544332111  1112234455677777777766652211112222233344455677899999


Q ss_pred             HHHHHHHHHhCCC------CC--chhHHHHHHHHHhcCCHHHHHHHHhhcCC----CCH----HHHHHHHHHHHhcCChH
Q 006997          251 LSMHSLLLKSGYN------NE--DPLDNLLVSMYTKCGDLELARRVFDAVLE----KSV----FLWTSMIGGYAQLGYPS  314 (622)
Q Consensus       251 ~~~~~~~~~~~~~------~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~----~~~~~l~~~~~~~~~~~  314 (622)
                      ...+......--.      +.  ......+...+...|++++|...+++...    .+.    .+.+.+...+...|+++
T Consensus       429 ~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~  508 (903)
T PRK04841        429 NTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELA  508 (903)
T ss_pred             HHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHH
Confidence            9998887653111      11  11222334556788999999999887532    121    34566777788899999


Q ss_pred             HHHHHHHHHHhCCC---CCC--HHHHHHHHHHHhccCChHHHHHHHHHHHHc----CCCC---chhHHHHHHHHHHhcCC
Q 006997          315 EAVNLFKRLLKTSV---RPN--EATLATTLSACAELGSLSKGKEIEEYIVLN----GLES---NRQVQTSLIHMFSKCGR  382 (622)
Q Consensus       315 ~a~~~~~~m~~~~~---~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~---~~~~~~~l~~~~~~~~~  382 (622)
                      +|...+++.....-   .+.  ..++..+...+...|+++.|...+++....    +...   ....+..+...+...|+
T Consensus       509 ~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~  588 (903)
T PRK04841        509 RALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWAR  588 (903)
T ss_pred             HHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcC
Confidence            99999988765211   111  234455666788899999999998876543    2211   22334556667778899


Q ss_pred             hHHHHHHhccCCC------C--ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHH-----HHHHHHHhccCc
Q 006997          383 INKAKEVFERVPD------K--DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVY-----TSILSACSHSGM  449 (622)
Q Consensus       383 ~~~A~~~~~~~~~------~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~-----~~ll~~~~~~g~  449 (622)
                      +++|...+.+...      +  ....+..+...+...|++++|...+.+.............+     ...+..+...|+
T Consensus       589 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~  668 (903)
T PRK04841        589 LDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGD  668 (903)
T ss_pred             HHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCC
Confidence            9999998887642      1  12234445667788999999999998886511111111111     112234455889


Q ss_pred             hHHHHHHHHHhHHhcCCCCC---hhHHHHHHHHHHhcCChHHHHHHHHhCC-------CCCc-HHhHHHHHHHHHhcCCH
Q 006997          450 VDDGLSFFKSMQSNFGIEPS---IEHYLCLVDLLGRAGRFDLALKTIHEMP-------VEVQ-AQVWAPLLSACMKHHNV  518 (622)
Q Consensus       450 ~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~-~~~~~~l~~~~~~~~~~  518 (622)
                      .+.|...+...... .....   ...+..+..++...|++++|...+++..       ...+ ..+...+..++...|+.
T Consensus       669 ~~~A~~~l~~~~~~-~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~  747 (903)
T PRK04841        669 KEAAANWLRQAPKP-EFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRK  747 (903)
T ss_pred             HHHHHHHHHhcCCC-CCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCH
Confidence            99999998775521 11111   1113456778899999999999998874       1111 23556677788899999


Q ss_pred             HHHHHHHHHHHccCCC
Q 006997          519 ELGEYAAKNLLTLNPG  534 (622)
Q Consensus       519 ~~a~~~~~~~~~~~p~  534 (622)
                      ++|...+.+++++...
T Consensus       748 ~~A~~~L~~Al~la~~  763 (903)
T PRK04841        748 SEAQRVLLEALKLANR  763 (903)
T ss_pred             HHHHHHHHHHHHHhCc
Confidence            9999999999997653

>PLN02789 farnesyltranstransferase

Probab=98.72  E-value=5e-06  Score=77.90  Aligned_cols=144  Identities=11%  Similarity=0.050  Sum_probs=101.3

Q ss_pred             HHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhc---CCh----
Q 006997          415 DQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRA---GRF----  486 (622)
Q Consensus       415 ~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~~----  486 (622)
                      ++++.+++++.+   ..|+ ..+|.....++...|+++++++.++++++. + .-+...|+....++.+.   |..    
T Consensus       125 ~~el~~~~kal~---~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~-d-~~N~sAW~~R~~vl~~~~~l~~~~~~~  199 (320)
T PLN02789        125 NKELEFTRKILS---LDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEE-D-VRNNSAWNQRYFVITRSPLLGGLEAMR  199 (320)
T ss_pred             HHHHHHHHHHHH---hCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-C-CCchhHHHHHHHHHHhccccccccccH
Confidence            566777777776   5564 567777777777888888888888888754 1 22556666555555443   222    


Q ss_pred             HHHHHHHHhCC--CCCcHHhHHHHHHHHHhc----CCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcC----------
Q 006997          487 DLALKTIHEMP--VEVQAQVWAPLLSACMKH----HNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAG----------  550 (622)
Q Consensus       487 ~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g----------  550 (622)
                      ++++++..++.  .+.+...|+.+...+...    +...+|...+.+++..+|+++.++..|+++|....          
T Consensus       200 e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~  279 (320)
T PLN02789        200 DSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTV  279 (320)
T ss_pred             HHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhh
Confidence            45666665554  344577888888888773    34567889999999999999999999999998743          


Q ss_pred             --------ChHHHHHHHHHhh
Q 006997          551 --------MWKEAATARGLMD  563 (622)
Q Consensus       551 --------~~~~A~~~~~~~~  563 (622)
                              ..++|.++++.+.
T Consensus       280 ~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        280 DTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             hccccccccHHHHHHHHHHHH
Confidence                    2366777777773

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.71  E-value=1e-06  Score=90.98  Aligned_cols=136  Identities=9%  Similarity=0.048  Sum_probs=100.5

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH-HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHH
Q 006997          397 DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDA-VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYL  474 (622)
Q Consensus       397 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~  474 (622)
                      ++..+-.|.....+.|++++|+.+++...+   +.||. .....+..++.+.+.+++|...+++....   .| +.....
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~---~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~---~p~~~~~~~  158 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQ---RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG---GSSSAREIL  158 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHh---hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc---CCCCHHHHH
Confidence            466777777778888888888888888877   77774 45677777888888888888888887743   55 455566


Q ss_pred             HHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCch
Q 006997          475 CLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGN  538 (622)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  538 (622)
                      .+..++.+.|++++|..+|+++. ..|+ ...|.++..++...|+.++|...|+++++........
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~  224 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARK  224 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHH
Confidence            77777888888888888888876 3333 6677778888888888888888888888765433333

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

Probab=98.66  E-value=1.9e-06  Score=74.43  Aligned_cols=122  Identities=16%  Similarity=0.091  Sum_probs=57.6

Q ss_pred             HHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCC
Q 006997          440 ILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHN  517 (622)
Q Consensus       440 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~  517 (622)
                      +-..+...|+-+....+......  ..+-+......++....+.|++.+|+..+.+..  .++|...|+.+..+|-+.|+
T Consensus        72 ~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~Gr  149 (257)
T COG5010          72 LATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLGR  149 (257)
T ss_pred             HHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHccC
Confidence            33344444444444444444331  112233334444445555555555555555443  34444455555555555555


Q ss_pred             HHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 006997          518 VELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMD  563 (622)
Q Consensus       518 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (622)
                      ++.|...|.+++++.|+++.+..+++..|.-.|++++|..++....
T Consensus       150 ~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~  195 (257)
T COG5010         150 FDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAY  195 (257)
T ss_pred             hhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHH
Confidence            5555555555555555555555555555555555555555554443

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

Probab=98.66  E-value=1.3e-06  Score=86.00  Aligned_cols=189  Identities=17%  Similarity=0.176  Sum_probs=145.3

Q ss_pred             CCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHH
Q 006997          362 GLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSIL  441 (622)
Q Consensus       362 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll  441 (622)
                      +.+|-...-..+...+...|-...|..+|+++.     .|.-.+.+|+..|+..+|..+..+-.+   -+||+..|..++
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erle-----mw~~vi~CY~~lg~~~kaeei~~q~le---k~~d~~lyc~LG  464 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERLE-----MWDPVILCYLLLGQHGKAEEINRQELE---KDPDPRLYCLLG  464 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhHH-----HHHHHHHHHHHhcccchHHHHHHHHhc---CCCcchhHHHhh
Confidence            345555666677888888899999999988754     566678888888888888888887765   678888888888


Q ss_pred             HHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHH
Q 006997          442 SACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVE  519 (622)
Q Consensus       442 ~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~  519 (622)
                      +......-+++|+++.+....+        .-..+.....+.++++++.+.++...  .+-...+|-.++.+..+.++++
T Consensus       465 Dv~~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q  536 (777)
T KOG1128|consen  465 DVLHDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQ  536 (777)
T ss_pred             hhccChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhH
Confidence            8877777788888887765422        11223333445788888888888654  3445778888888888888888


Q ss_pred             HHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          520 LGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       520 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      .|.+.|...+.++|++...|+++.-+|.+.|+..+|...++...+-+
T Consensus       537 ~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn  583 (777)
T KOG1128|consen  537 AAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN  583 (777)
T ss_pred             HHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC
Confidence            88889988888999888889999888999998888888888887754

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

Probab=98.65  E-value=4e-07  Score=74.71  Aligned_cols=108  Identities=22%  Similarity=0.269  Sum_probs=86.1

Q ss_pred             HHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccC
Q 006997          456 FFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLN  532 (622)
Q Consensus       456 ~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  532 (622)
                      .++++.   ...| +......+...+...|++++|...++.+.  .+.+...|..+...+...|++++|...++++++.+
T Consensus         5 ~~~~~l---~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~   81 (135)
T TIGR02552         5 TLKDLL---GLDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD   81 (135)
T ss_pred             hHHHHH---cCChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            344444   3355 34556667777888888888888888775  34457778888888889999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          533 PGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       533 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      |.++..+..++.+|...|++++|.+.++...+.+
T Consensus        82 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        82 PDDPRPYFHAAECLLALGEPESALKALDLAIEIC  115 (135)
T ss_pred             CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            9999999999999999999999999999887743

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

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

Probab=98.65  E-value=3.1e-06  Score=73.70  Aligned_cols=153  Identities=12%  Similarity=0.155  Sum_probs=114.7

Q ss_pred             HHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCchHH
Q 006997          374 IHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGMVDD  452 (622)
Q Consensus       374 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~  452 (622)
                      +-.|...|+++.+....+.+..+.        ..+...++.+++...+++..+   ..| |...|..+...|...|+++.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~---~~P~~~~~w~~Lg~~~~~~g~~~~   91 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIR---ANPQNSEQWALLGEYYLWRNDYDN   91 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHCCCHHH
Confidence            345667777766655543332221        011235667788888888776   555 46789999999999999999


Q ss_pred             HHHHHHHhHHhcCCCC-ChhHHHHHHHHH-HhcCC--hHHHHHHHHhCC-CCC-cHHhHHHHHHHHHhcCCHHHHHHHHH
Q 006997          453 GLSFFKSMQSNFGIEP-SIEHYLCLVDLL-GRAGR--FDLALKTIHEMP-VEV-QAQVWAPLLSACMKHHNVELGEYAAK  526 (622)
Q Consensus       453 a~~~~~~~~~~~~~~p-~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~  526 (622)
                      |...|++..+   +.| +...+..+..++ ...|+  .++|.+++++.. ..| +...+..++..+...|++++|+..++
T Consensus        92 A~~a~~~Al~---l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         92 ALLAYRQALQ---LRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHH---hCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999884   355 677788888864 67777  599999999987 444 57788899999999999999999999


Q ss_pred             HHHccCCCCCchHH
Q 006997          527 NLLTLNPGSTGNYI  540 (622)
Q Consensus       527 ~~~~~~p~~~~~~~  540 (622)
                      +++++.|.+..-+.
T Consensus       169 ~aL~l~~~~~~r~~  182 (198)
T PRK10370        169 KVLDLNSPRVNRTQ  182 (198)
T ss_pred             HHHhhCCCCccHHH
Confidence            99999886655443

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

Probab=98.64  E-value=2e-06  Score=74.31  Aligned_cols=157  Identities=14%  Similarity=0.097  Sum_probs=110.9

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHH
Q 006997          402 SAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLG  481 (622)
Q Consensus       402 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  481 (622)
                      ..+-..+...|+-+....+..+...  ....|.......+....+.|++..|+..++++..  .-++|...|+.+.-+|.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaald  145 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALD  145 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHH
Confidence            3344556666776666666666543  1222334455566777777888888888777763  33556777777778888


Q ss_pred             hcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHH
Q 006997          482 RAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATAR  559 (622)
Q Consensus       482 ~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  559 (622)
                      +.|++++|..-|.+..  ...++...+.++..+.-.||++.|+.++..+....+.++.+-..++.+....|++++|..+-
T Consensus       146 q~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         146 QLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             HccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhc
Confidence            8888888877777665  34456667788888888888888888888888887878888888888888888888887766


Q ss_pred             HHh
Q 006997          560 GLM  562 (622)
Q Consensus       560 ~~~  562 (622)
                      .+-
T Consensus       226 ~~e  228 (257)
T COG5010         226 VQE  228 (257)
T ss_pred             ccc
Confidence            543

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

Probab=98.60  E-value=2.5e-06  Score=84.00  Aligned_cols=217  Identities=15%  Similarity=0.091  Sum_probs=158.6

Q ss_pred             CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCC--CCChhHHHHHHH
Q 006997          329 RPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVP--DKDLAVWSAMIN  406 (622)
Q Consensus       329 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~l~~  406 (622)
                      +|-...-..+...+...|-...|..+++.+.         .+...+.+|...|+..+|..+..+-.  +||+..|..+.+
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGD  465 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGD  465 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhh
Confidence            3333344455666677777777888777653         34567788888888888888776554  356777777777


Q ss_pred             HHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCC
Q 006997          407 GYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGR  485 (622)
Q Consensus       407 ~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~  485 (622)
                      ......-+++|.++++.... .       .-..+.....+.++++++.+.|+.-.+   +.| -..+|-.+.-+..+.++
T Consensus       466 v~~d~s~yEkawElsn~~sa-r-------A~r~~~~~~~~~~~fs~~~~hle~sl~---~nplq~~~wf~~G~~ALqlek  534 (777)
T KOG1128|consen  466 VLHDPSLYEKAWELSNYISA-R-------AQRSLALLILSNKDFSEADKHLERSLE---INPLQLGTWFGLGCAALQLEK  534 (777)
T ss_pred             hccChHHHHHHHHHhhhhhH-H-------HHHhhccccccchhHHHHHHHHHHHhh---cCccchhHHHhccHHHHHHhh
Confidence            66655567777777766554 1       112222223346888888888887663   344 56778888888888889


Q ss_pred             hHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 006997          486 FDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMD  563 (622)
Q Consensus       486 ~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (622)
                      +..|.+.|.... ..|+ ...|+++..+|.+.++-.+|...++++++-+-++..+|.+..-+..+-|.+++|.+.+.++.
T Consensus       535 ~q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll  614 (777)
T KOG1128|consen  535 EQAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLL  614 (777)
T ss_pred             hHHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHH
Confidence            998888888776 5555 66799999999999999999999999998888788888888888889999999999998887


Q ss_pred             hC
Q 006997          564 DR  565 (622)
Q Consensus       564 ~~  565 (622)
                      .-
T Consensus       615 ~~  616 (777)
T KOG1128|consen  615 DL  616 (777)
T ss_pred             Hh
Confidence            63

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

Probab=98.59  E-value=1.3e-05  Score=84.56  Aligned_cols=227  Identities=14%  Similarity=0.154  Sum_probs=169.4

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHc-CCCC---chhHHHHHHHHHHhcCChHHHHHHhccCCCC-C-hhHHHHH
Q 006997          331 NEATLATTLSACAELGSLSKGKEIEEYIVLN-GLES---NRQVQTSLIHMFSKCGRINKAKEVFERVPDK-D-LAVWSAM  404 (622)
Q Consensus       331 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~l  404 (622)
                      +...|..-|......++.+.|.++.+++... ++.-   -..+|.++++....-|.-+...++|+++.+- | ...|..|
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L 1536 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKL 1536 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHH
Confidence            3445666777778888888888888887654 2221   2356677777777778788888899888763 3 3578888


Q ss_pred             HHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC---ChhHHHHHHHHHH
Q 006997          405 INGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP---SIEHYLCLVDLLG  481 (622)
Q Consensus       405 ~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p---~~~~~~~l~~~~~  481 (622)
                      ...|.+.+++++|.++++.|.++.+  -....|...+..+.+.++-+.|..++.++.+-   -|   ........+..-.
T Consensus      1537 ~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~---lPk~eHv~~IskfAqLEF 1611 (1710)
T KOG1070|consen 1537 LGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKS---LPKQEHVEFISKFAQLEF 1611 (1710)
T ss_pred             HHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhh---cchhhhHHHHHHHHHHHh
Confidence            8999999999999999999997444  45677888999999999999999999998853   34   3555666777778


Q ss_pred             hcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHcc--CCCCCchHHHHHHHHHh-cCChHHHH
Q 006997          482 RAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTL--NPGSTGNYILMANLFTS-AGMWKEAA  556 (622)
Q Consensus       482 ~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~~l~~~~~~-~g~~~~A~  556 (622)
                      +.|+.+.+..+|+...  .+.....|+.++..-.++|+.+.++.+|++++++  .|.....++-.---|.+ .|+-..+.
T Consensus      1612 k~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE 1691 (1710)
T KOG1070|consen 1612 KYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVE 1691 (1710)
T ss_pred             hcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHH
Confidence            8999999999999876  4446888999999999999999999999999885  45555544443333433 46666555


Q ss_pred             HHHHHh
Q 006997          557 TARGLM  562 (622)
Q Consensus       557 ~~~~~~  562 (622)
                      .+-.++
T Consensus      1692 ~VKarA 1697 (1710)
T KOG1070|consen 1692 YVKARA 1697 (1710)
T ss_pred             HHHHHH
Confidence            444443

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

Probab=98.58  E-value=3.1e-05  Score=81.12  Aligned_cols=112  Identities=17%  Similarity=0.162  Sum_probs=58.2

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCC
Q 006997          334 TLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGM  413 (622)
Q Consensus       334 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~  413 (622)
                      .+..+..+|.+.|+.+++..+|+++.+.. +.++.+.|.+...|... ++++|.+++.+.           +..|...++
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KA-----------V~~~i~~kq  184 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKA-----------IYRFIKKKQ  184 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHH-----------HHHHHhhhc
Confidence            44455555555555555555555555555 44555555555555555 555555555442           222444445


Q ss_pred             HHHHHHHHHHhHHhcCCCCC---------------------HHHHHHHHHHHhccCchHHHHHHHHHhH
Q 006997          414 GDQALNLFYKMQHVEGLKPD---------------------AVVYTSILSACSHSGMVDDGLSFFKSMQ  461 (622)
Q Consensus       414 ~~~a~~~~~~~~~~~~~~p~---------------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~  461 (622)
                      +..+.++|.++..   ..|+                     ..++..+-..|...++++++..+++.+.
T Consensus       185 ~~~~~e~W~k~~~---~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL  250 (906)
T PRK14720        185 YVGIEEIWSKLVH---YNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKIL  250 (906)
T ss_pred             chHHHHHHHHHHh---cCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHH
Confidence            5555555555554   3332                     2233333444555556666666666665

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.56  E-value=3.6e-06  Score=76.71  Aligned_cols=181  Identities=14%  Similarity=0.069  Sum_probs=127.0

Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCc---hhHHHHHHHHHHhcCChHHHHHHhccCCC--CC-hh---H
Q 006997          330 PNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESN---RQVQTSLIHMFSKCGRINKAKEVFERVPD--KD-LA---V  400 (622)
Q Consensus       330 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~-~~---~  400 (622)
                      .....+..+...+...|+++.|...++.+.+.. +.+   ...+..+..+|.+.|++++|...++++.+  |+ ..   +
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  109 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA  109 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHH
Confidence            355677788888999999999999999998765 222   24667788999999999999999998864  32 22   3


Q ss_pred             HHHHHHHHHHc--------CCHHHHHHHHHHhHHhcCCCCCHH-HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChh
Q 006997          401 WSAMINGYAIH--------GMGDQALNLFYKMQHVEGLKPDAV-VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIE  471 (622)
Q Consensus       401 ~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~  471 (622)
                      +..+..++...        |+.++|.+.|+++.+   ..|+.. ....+.....    .      .....         .
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~---~~p~~~~~~~a~~~~~~----~------~~~~~---------~  167 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIR---RYPNSEYAPDAKKRMDY----L------RNRLA---------G  167 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHH---HCCCChhHHHHHHHHHH----H------HHHHH---------H
Confidence            55555566554        778999999999998   566643 2222111100    0      00000         1


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC-CCC----cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCC
Q 006997          472 HYLCLVDLLGRAGRFDLALKTIHEMP-VEV----QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNP  533 (622)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  533 (622)
                      ....+...|.+.|++++|+..+++.. ..|    ....+..++.++...|++++|...++.+....|
T Consensus       168 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       168 KELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            11246677888999999999988875 222    246788888999999999999998888776655

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=98.54  E-value=1e-05  Score=75.83  Aligned_cols=184  Identities=11%  Similarity=0.095  Sum_probs=136.3

Q ss_pred             HHhcCChHHHHHHhccCCCC---ChhHHHHHHHHHHHcC-CHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCch-
Q 006997          377 FSKCGRINKAKEVFERVPDK---DLAVWSAMINGYAIHG-MGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMV-  450 (622)
Q Consensus       377 ~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~-  450 (622)
                      +...++.++|.....++...   +..+|+.-..++...| ++++++..++++.+   ..|+ ..+|..-...+.+.|.. 
T Consensus        47 l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~---~npknyqaW~~R~~~l~~l~~~~  123 (320)
T PLN02789         47 YASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAE---DNPKNYQIWHHRRWLAEKLGPDA  123 (320)
T ss_pred             HHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHH---HCCcchHHhHHHHHHHHHcCchh
Confidence            34456677777777766643   3345555555566666 57999999999987   5554 45666655556666653 


Q ss_pred             -HHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhc---CC----HH
Q 006997          451 -DDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKH---HN----VE  519 (622)
Q Consensus       451 -~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~---~~----~~  519 (622)
                       +++..+++++.+.   .| +...|+....++.+.|+++++++.++++.  ...+..+|+.......+.   |.    .+
T Consensus       124 ~~~el~~~~kal~~---dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~~e  200 (320)
T PLN02789        124 ANKELEFTRKILSL---DAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAMRD  200 (320)
T ss_pred             hHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccccccHH
Confidence             6788899888844   55 68888888899999999999999999987  345577888877766554   22    35


Q ss_pred             HHHHHHHHHHccCCCCCchHHHHHHHHHh----cCChHHHHHHHHHhhhCC
Q 006997          520 LGEYAAKNLLTLNPGSTGNYILMANLFTS----AGMWKEAATARGLMDDRR  566 (622)
Q Consensus       520 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~  566 (622)
                      .++....+++..+|+|.++|..++.++..    .++..+|.+......+.+
T Consensus       201 ~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~  251 (320)
T PLN02789        201 SELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD  251 (320)
T ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc
Confidence            78888889999999999999999999988    456677888888766543

>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=98.51  E-value=2.3e-06  Score=81.70  Aligned_cols=123  Identities=14%  Similarity=0.171  Sum_probs=105.2

Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHH
Q 006997          436 VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACM  513 (622)
Q Consensus       436 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~  513 (622)
                      ....++..+...++++.|+.+++++.+.   .|+  ....++..+...++-.+|++++.+..  .+.+...+......+.
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~---~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            3456677778889999999999999855   455  44458888888899999999998876  3345666777777888


Q ss_pred             hcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 006997          514 KHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMD  563 (622)
Q Consensus       514 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (622)
                      ..++.+.|..+.++++++.|.+...|..|+.+|.+.|++++|+-.+..++
T Consensus       246 ~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999999999999999999999999999999999999999999886

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

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

Probab=98.51  E-value=0.00013  Score=63.34  Aligned_cols=249  Identities=14%  Similarity=0.057  Sum_probs=141.8

Q ss_pred             HHhcCCHHHHHHHHhhcCC--CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHH-
Q 006997          276 YTKCGDLELARRVFDAVLE--KSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGK-  352 (622)
Q Consensus       276 ~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~-  352 (622)
                      +.-.|.+..++..-.....  .++..-.-+.++|...|++...+.-   +.. |-.|....+..+.......++.+.-. 
T Consensus        18 ~fY~Gnyq~~ine~~~~~~~~~~~e~d~y~~raylAlg~~~~~~~e---I~~-~~~~~lqAvr~~a~~~~~e~~~~~~~~   93 (299)
T KOG3081|consen   18 YFYLGNYQQCINEAEKFSSSKTDVELDVYMYRAYLALGQYQIVISE---IKE-GKATPLQAVRLLAEYLELESNKKSILA   93 (299)
T ss_pred             HHHhhHHHHHHHHHHhhccccchhHHHHHHHHHHHHcccccccccc---ccc-ccCChHHHHHHHHHHhhCcchhHHHHH
Confidence            3444666666554443321  2333334455667777765443322   222 22444444444444444444433333 


Q ss_pred             HHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC
Q 006997          353 EIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP  432 (622)
Q Consensus       353 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p  432 (622)
                      .+.+.+.......+......-...|...|++++|.+......  +....-.=+..+.+..+.+-|.+.+++|.+   + -
T Consensus        94 ~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~--~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~---i-d  167 (299)
T KOG3081|consen   94 SLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE--NLEAAALNVQILLKMHRFDLAEKELKKMQQ---I-D  167 (299)
T ss_pred             HHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHc---c-c
Confidence            334444443333333333444556778888888888887733  222222233455667778888888888876   3 2


Q ss_pred             CHHHHHHHHHHHhc----cCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHH
Q 006997          433 DAVVYTSILSACSH----SGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWA  506 (622)
Q Consensus       433 ~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~  506 (622)
                      +..|.+.|..++.+    .+.+.+|.-+|+++..+  .+|++.+.+....++...|++++|..++++..  ...++.++.
T Consensus       168 ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k--~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~  245 (299)
T KOG3081|consen  168 EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK--TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLA  245 (299)
T ss_pred             hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc--cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHH
Confidence            34566666665543    34577788888888743  47777777777777777788888888877765  334455665


Q ss_pred             HHHHHHHhcCCH-HHHHHHHHHHHccCCCCC
Q 006997          507 PLLSACMKHHNV-ELGEYAAKNLLTLNPGST  536 (622)
Q Consensus       507 ~l~~~~~~~~~~-~~a~~~~~~~~~~~p~~~  536 (622)
                      .++-.....|.. +.-.+...++....|+++
T Consensus       246 Nliv~a~~~Gkd~~~~~r~l~QLk~~~p~h~  276 (299)
T KOG3081|consen  246 NLIVLALHLGKDAEVTERNLSQLKLSHPEHP  276 (299)
T ss_pred             HHHHHHHHhCCChHHHHHHHHHHHhcCCcch
Confidence            665555555543 445566666666677544

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.49  E-value=0.0023  Score=65.45  Aligned_cols=521  Identities=13%  Similarity=0.075  Sum_probs=267.1

Q ss_pred             hhcCCchhHHHHHHHHHhCCCCCCcccHHHHHHHhh--ccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhH
Q 006997            6 TNNGSFEETLSTYSSMLQTGVHGNSFTFPLVLKACA--NINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVS   83 (622)
Q Consensus         6 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   83 (622)
                      ...+++..|+....++.++  .|+. .|..++.++.  +.|..++|..+++.....+ ..|..+...+-..|.+.++.++
T Consensus        20 ld~~qfkkal~~~~kllkk--~Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~-~~D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKK--HPNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLK-GTDDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHH--CCCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCC-CCchHHHHHHHHHHHHHhhhhH
Confidence            4567888999988888774  4444 3666666654  7889999998888876665 3477888899999999999999


Q ss_pred             HHHHhccCCCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhh--------------hhhhH
Q 006997           84 SRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCS--------------FRQGI  149 (622)
Q Consensus        84 A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~--------------~~~~~  149 (622)
                      |..+++...+..|+..-...+..+|+|-+++.+-.+.--+|-+ ...-+.+.|-++++...              ...+.
T Consensus        96 ~~~~Ye~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~  174 (932)
T KOG2053|consen   96 AVHLYERANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPILLALAE  174 (932)
T ss_pred             HHHHHHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchhHHHHH
Confidence            9999999987767766666777788888877553333333332 23335566666665543              33444


Q ss_pred             HHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhh-c----CCCCcchHHHHHHHHHcCCChhHHHHHHHHHHH
Q 006997          150 SMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDE-I----GETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRR  224 (622)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-~----~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  224 (622)
                      .....+++.+-......-...-...+...|+.++|..++.. .    ..-+...-|.-+..+...+++.+..++..++..
T Consensus       175 ~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~  254 (932)
T KOG2053|consen  175 KMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLE  254 (932)
T ss_pred             HHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHH
Confidence            44444444431110111122223445566777777777732 1    112333344556666677777777777777766


Q ss_pred             CCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCC-CHHHHHHH
Q 006997          225 MSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEK-SVFLWTSM  303 (622)
Q Consensus       225 ~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~l  303 (622)
                      .|  +|.  |......            +++.+.....+|- ..      .+...+..+...+...+.... ....|-+-
T Consensus       255 k~--~Dd--y~~~~~s------------v~klLe~~~~~~a-~~------~~s~~~~l~~~~ek~~~~i~~~~Rgp~LA~  311 (932)
T KOG2053|consen  255 KG--NDD--YKIYTDS------------VFKLLELLNKEPA-EA------AHSLSKSLDECIEKAQKNIGSKSRGPYLAR  311 (932)
T ss_pred             hC--Ccc--hHHHHHH------------HHHHHHhcccccc-hh------hhhhhhhHHHHHHHHHHhhcccccCcHHHH
Confidence            54  222  2222221            1111111111111 11      011122233333322222211 11122222


Q ss_pred             HHH---HHhcCChHHHHHHHHHHHhCCCCC-------------CHHHHHHHHHHHhccC-ChHHHHHHHHHH-------H
Q 006997          304 IGG---YAQLGYPSEAVNLFKRLLKTSVRP-------------NEATLATTLSACAELG-SLSKGKEIEEYI-------V  359 (622)
Q Consensus       304 ~~~---~~~~~~~~~a~~~~~~m~~~~~~~-------------~~~~~~~ll~~~~~~~-~~~~a~~~~~~~-------~  359 (622)
                      +..   +-.-|+.+++...|-+-  -|-.|             +......++..+.... +.....+.+...       .
T Consensus       312 lel~kr~~~~gd~ee~~~~y~~k--fg~kpcc~~Dl~~yl~~l~~~q~~~l~~~l~~~~~~~s~~~k~l~~h~c~l~~~r  389 (932)
T KOG2053|consen  312 LELDKRYKLIGDSEEMLSYYFKK--FGDKPCCAIDLNHYLGHLNIDQLKSLMSKLVLADDDSSGDEKVLQQHLCVLLLLR  389 (932)
T ss_pred             HHHHHHhcccCChHHHHHHHHHH--hCCCcHhHhhHHHhhccCCHHHHHHHHHHhhccCCcchhhHHHHHHHHHHHHHHH
Confidence            222   22335555544333221  11111             1111222333322211 111111111110       0


Q ss_pred             HcC----CCCch-hHH-HHHHHHHHhcCChHHHHHHhc-cCCCCCh---hHHHHHHHHHHHcCCHH---HHHHHHHHhHH
Q 006997          360 LNG----LESNR-QVQ-TSLIHMFSKCGRINKAKEVFE-RVPDKDL---AVWSAMINGYAIHGMGD---QALNLFYKMQH  426 (622)
Q Consensus       360 ~~~----~~~~~-~~~-~~l~~~~~~~~~~~~A~~~~~-~~~~~~~---~~~~~l~~~~~~~~~~~---~a~~~~~~~~~  426 (622)
                      -.|    .+.+. ..| ..++..|.+.  .+-...++- ++...+.   .+-+.|+..+.+.++..   +|+-+++.-..
T Consensus       390 l~G~~~~l~ad~i~a~~~kl~~~ye~g--ls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt  467 (932)
T KOG2053|consen  390 LLGLYEKLPADSILAYVRKLKLTYEKG--LSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLT  467 (932)
T ss_pred             HhhccccCChHHHHHHHHHHHHHHhcc--ccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhh
Confidence            001    11110 111 1111112111  000000000 0000011   24567778888888765   45555555544


Q ss_pred             hcCCCC-CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHH
Q 006997          427 VEGLKP-DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQ  503 (622)
Q Consensus       427 ~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~  503 (622)
                         ..| |..+-..+++.|+-.|-+..|.+.|+.+.-+ .+..|...|. +...+...|++..+...+....  ...+..
T Consensus       468 ---~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK-~IQ~DTlgh~-~~~~~~t~g~~~~~s~~~~~~lkfy~~~~k  542 (932)
T KOG2053|consen  468 ---KSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIK-NIQTDTLGHL-IFRRAETSGRSSFASNTFNEHLKFYDSSLK  542 (932)
T ss_pred             ---cCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchH-HhhhccchHH-HHHHHHhcccchhHHHHHHHHHHHHhhhhh
Confidence               344 4556677888999999999999999988655 5666544442 4456667788888888877654  121211


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHccCCC----CCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 006997          504 VWAPLLSACMKHHNVELGEYAAKNLLTLNPG----STGNYILMANLFTSAGMWKEAATARGLMD  563 (622)
Q Consensus       504 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (622)
                      -..-++....+.|.+.+-.+...---.++-.    -..+-....+.+...++.++-...++.|.
T Consensus       543 E~~eyI~~AYr~g~ySkI~em~~fr~rL~~S~q~~a~~VE~~~l~ll~~~~~~~q~~~~~~~~~  606 (932)
T KOG2053|consen  543 ETPEYIALAYRRGAYSKIPEMLAFRDRLMHSLQKWACRVENLQLSLLCNADRGTQLLKLLESMK  606 (932)
T ss_pred             hhHHHHHHHHHcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHhccc
Confidence            1122333334667776665554433223221    12334456677788899998888888886

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

Probab=98.48  E-value=3e-05  Score=73.24  Aligned_cols=137  Identities=16%  Similarity=0.133  Sum_probs=100.9

Q ss_pred             HHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhcC
Q 006997          407 GYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS-IEHYLCLVDLLGRAG  484 (622)
Q Consensus       407 ~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g  484 (622)
                      .+...|++++|+..++.+..   -.|| +.........+...++..+|.+.++++..   ..|+ ....-.+..+|.+.|
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~---~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~~a~all~~g  388 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIA---AQPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLNLAQALLKGG  388 (484)
T ss_pred             HHHHhcccchHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHHHHHHHHhcC
Confidence            44567788888888888776   5555 44455556678888888888888888874   3665 455556778888888


Q ss_pred             ChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 006997          485 RFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLM  562 (622)
Q Consensus       485 ~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (622)
                      ++.+|+.++++..  .+.|+..|..|..+|...|+..++..                 ..++.|.-.|++++|...+...
T Consensus       389 ~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~-----------------A~AE~~~~~G~~~~A~~~l~~A  451 (484)
T COG4783         389 KPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALL-----------------ARAEGYALAGRLEQAIIFLMRA  451 (484)
T ss_pred             ChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHH-----------------HHHHHHHhCCCHHHHHHHHHHH
Confidence            8888888888776  45567788888888888888666554                 4456677788888888888877


Q ss_pred             hhCC
Q 006997          563 DDRR  566 (622)
Q Consensus       563 ~~~~  566 (622)
                      .++.
T Consensus       452 ~~~~  455 (484)
T COG4783         452 SQQV  455 (484)
T ss_pred             HHhc
Confidence            7654

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.48  E-value=4.7e-05  Score=65.48  Aligned_cols=130  Identities=15%  Similarity=0.194  Sum_probs=96.3

Q ss_pred             HHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChH
Q 006997          408 YAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFD  487 (622)
Q Consensus       408 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  487 (622)
                      +-..|++++|+++++...+ .. +.|..++..=+...-..|..-+|++-+.+..+.  +..|.+.|.-+.+.|...|+++
T Consensus        96 lEa~~~~~~A~e~y~~lL~-dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~--F~~D~EAW~eLaeiY~~~~~f~  171 (289)
T KOG3060|consen   96 LEATGNYKEAIEYYESLLE-DD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK--FMNDQEAWHELAEIYLSEGDFE  171 (289)
T ss_pred             HHHhhchhhHHHHHHHHhc-cC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHhHhHHH
Confidence            4456788888888888876 22 334566666666666677777888888888764  4678899999999999999999


Q ss_pred             HHHHHHHhCC-CCCc-HHhHHHHHHHHHhc---CCHHHHHHHHHHHHccCCCCCchHHH
Q 006997          488 LALKTIHEMP-VEVQ-AQVWAPLLSACMKH---HNVELGEYAAKNLLTLNPGSTGNYIL  541 (622)
Q Consensus       488 ~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~p~~~~~~~~  541 (622)
                      +|.-.++++. ..|. +..+..+...+...   .+.+.|.+.|.++++++|.+...+.-
T Consensus       172 kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~ral~G  230 (289)
T KOG3060|consen  172 KAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNLRALFG  230 (289)
T ss_pred             HHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhHHHHHH
Confidence            9999999986 4554 55566666655443   47788999999999999965554443

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

Probab=98.46  E-value=0.00019  Score=68.05  Aligned_cols=122  Identities=16%  Similarity=0.142  Sum_probs=106.6

Q ss_pred             HHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcC
Q 006997          440 ILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHH  516 (622)
Q Consensus       440 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~  516 (622)
                      ..-.+...|.+++|+..++.+...   .| |+..+....+.+.+.++.++|.+.++++. ..|+ ...+..+..++.+.|
T Consensus       312 ~A~~~~~~~~~d~A~~~l~~L~~~---~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g  388 (484)
T COG4783         312 RALQTYLAGQYDEALKLLQPLIAA---QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGG  388 (484)
T ss_pred             HHHHHHHhcccchHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcC
Confidence            334455679999999999999854   55 56666677899999999999999999987 5666 667888999999999


Q ss_pred             CHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          517 NVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       517 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ++++|+..++..+..+|+++..|..|+.+|..+|+..+|...+-....
T Consensus       389 ~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~  436 (484)
T COG4783         389 KPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYA  436 (484)
T ss_pred             ChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999998887654

>PF12854 PPR_1: PPR repeat

Probab=98.44  E-value=3.7e-07  Score=52.96  Aligned_cols=32  Identities=28%  Similarity=0.421  Sum_probs=16.6

Q ss_pred             CCCCCchhHHHHHHHHHhcCCHHHHHHHHhhc
Q 006997          261 GYNNEDPLDNLLVSMYTKCGDLELARRVFDAV  292 (622)
Q Consensus       261 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  292 (622)
                      |+.||..+|++|+++|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            44455555555555555555555555555544

>PF12854 PPR_1: PPR repeat

Probab=98.43  E-value=4.4e-07  Score=52.62  Aligned_cols=32  Identities=41%  Similarity=0.623  Sum_probs=20.3

Q ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHHhC
Q 006997          465 GIEPSIEHYLCLVDLLGRAGRFDLALKTIHEM  496 (622)
Q Consensus       465 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  496 (622)
                      |+.||..+|+.||++|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            55666666666666666666666666666665

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.43  E-value=3.9e-05  Score=79.59  Aligned_cols=143  Identities=10%  Similarity=0.037  Sum_probs=110.8

Q ss_pred             CCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC--CC-hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH-HHH
Q 006997          362 GLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD--KD-LAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDA-VVY  437 (622)
Q Consensus       362 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~  437 (622)
                      ..+.+...+..|.....+.|++++|..+++.+.+  || ......+..++.+.+++++|+..+++...   ..|+. ...
T Consensus        81 ~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~---~~p~~~~~~  157 (694)
T PRK15179         81 RYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS---GGSSSAREI  157 (694)
T ss_pred             hccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh---cCCCCHHHH
Confidence            3456678888888888999999999999988774  43 45666778888899999999999999887   77775 456


Q ss_pred             HHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHH
Q 006997          438 TSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLL  509 (622)
Q Consensus       438 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~  509 (622)
                      ..+..++.+.|++++|..+|+++...  .+-+...+..+..++...|+.++|...|++..  ..|....|+.++
T Consensus       158 ~~~a~~l~~~g~~~~A~~~y~~~~~~--~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~  229 (694)
T PRK15179        158 LLEAKSWDEIGQSEQADACFERLSRQ--HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHHHhcchHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH
Confidence            66677888899999999999998853  12347788888889999999999999998876  445555554443

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

Probab=98.42  E-value=0.00011  Score=77.16  Aligned_cols=243  Identities=9%  Similarity=0.033  Sum_probs=142.4

Q ss_pred             HHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCC--CCc-chHHHHHHHHHcCCChhHHHHHHHHHHHCCCCC
Q 006997          153 CCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGE--TSI-VSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTP  229 (622)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  229 (622)
                      .+..-..+.|.+...+..|+..|...|++++|.++.+...+  |+. ..|-.+...+.+.++.+.+..+  .+.      
T Consensus        19 ~r~~~~~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l------   90 (906)
T PRK14720         19 TRADANNYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL--NLI------   90 (906)
T ss_pred             hhcccccCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh--hhh------
Confidence            33334455666888899999999999999999999987654  333 3444444467777776665554  222      


Q ss_pred             CHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCC---CHHHHHHHHHH
Q 006997          230 DLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEK---SVFLWTSMIGG  306 (622)
Q Consensus       230 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~  306 (622)
                               .......++....-+...+.+.  ..+...+..+..+|-+.|+.++|..+++++.+-   |+.+.|.+...
T Consensus        91 ---------~~~~~~~~~~~ve~~~~~i~~~--~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~  159 (906)
T PRK14720         91 ---------DSFSQNLKWAIVEHICDKILLY--GENKLALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATS  159 (906)
T ss_pred             ---------hhcccccchhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHH
Confidence                     2222223333333333333332  233346666777777777777777777776543   56677777777


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHH
Q 006997          307 YAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKA  386 (622)
Q Consensus       307 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  386 (622)
                      |... +.++|.+++.+....               +...+++..+.++|..+.... +.+...+-.+.......-..   
T Consensus       160 ~ae~-dL~KA~~m~~KAV~~---------------~i~~kq~~~~~e~W~k~~~~~-~~d~d~f~~i~~ki~~~~~~---  219 (906)
T PRK14720        160 YEEE-DKEKAITYLKKAIYR---------------FIKKKQYVGIEEIWSKLVHYN-SDDFDFFLRIERKVLGHREF---  219 (906)
T ss_pred             HHHh-hHHHHHHHHHHHHHH---------------HHhhhcchHHHHHHHHHHhcC-cccchHHHHHHHHHHhhhcc---
Confidence            7777 777777777766543               444556667777777776654 22332222222222111111   


Q ss_pred             HHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHh
Q 006997          387 KEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACS  445 (622)
Q Consensus       387 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~  445 (622)
                              ..-+.++-.+-..|...++++++..+++.+.+   ..|+ .....-++.+|.
T Consensus       220 --------~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~---~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        220 --------TRLVGLLEDLYEPYKALEDWDEVIYILKKILE---HDNKNNKAREELIRFYK  268 (906)
T ss_pred             --------chhHHHHHHHHHHHhhhhhhhHHHHHHHHHHh---cCCcchhhHHHHHHHHH
Confidence                    11233444455666677777777777777776   4443 445555665554

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.39  E-value=2.9e-06  Score=74.89  Aligned_cols=109  Identities=13%  Similarity=0.109  Sum_probs=87.2

Q ss_pred             HHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCH
Q 006997          442 SACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNV  518 (622)
Q Consensus       442 ~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~  518 (622)
                      .-..+.+++.+|+..|.+++   .+.| |+.-|..-..+|.+.|.++.|++-.+... +.|. ..+|..|+.+|...|++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI---~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAI---ELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHH---hcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcH
Confidence            34567788899999998888   4566 45566677888999999999999888877 5555 66899999999999999


Q ss_pred             HHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChH
Q 006997          519 ELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWK  553 (622)
Q Consensus       519 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  553 (622)
                      ++|++.|+++++++|++......|-.+-.+.+..+
T Consensus       166 ~~A~~aykKaLeldP~Ne~~K~nL~~Ae~~l~e~~  200 (304)
T KOG0553|consen  166 EEAIEAYKKALELDPDNESYKSNLKIAEQKLNEPK  200 (304)
T ss_pred             HHHHHHHHhhhccCCCcHHHHHHHHHHHHHhcCCC
Confidence            99999999999999999877777766655544444

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

Probab=98.38  E-value=1.4e-05  Score=66.21  Aligned_cols=115  Identities=11%  Similarity=0.089  Sum_probs=69.0

Q ss_pred             cCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCcH----HhHHHHHHHHHhcCCHHH
Q 006997          447 SGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQA----QVWAPLLSACMKHHNVEL  520 (622)
Q Consensus       447 ~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~----~~~~~l~~~~~~~~~~~~  520 (622)
                      .++...+...++.+...++-.| .....-.+...+...|++++|...|+.+. ..|+.    .....|...+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            5666666666666665421111 11222234566666777777777777665 22332    234445666677777777


Q ss_pred             HHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 006997          521 GEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLM  562 (622)
Q Consensus       521 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (622)
                      |+..++.. .-.+-.+..+..+|++|.+.|++++|...|++.
T Consensus       104 Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  104 ALATLQQI-PDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHhc-cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            77777553 223334566777788888888888888887754

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

Probab=98.36  E-value=1.2e-05  Score=66.00  Aligned_cols=115  Identities=9%  Similarity=0.023  Sum_probs=91.1

Q ss_pred             HHHHhHHhcCCCCCH-HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-
Q 006997          420 LFYKMQHVEGLKPDA-VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-  497 (622)
Q Consensus       420 ~~~~~~~~~~~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-  497 (622)
                      .++++..   ..|+. .....+...+...|++++|.+.++.+...  -+.+...+..+...+...|++++|..++++.. 
T Consensus         5 ~~~~~l~---~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~   79 (135)
T TIGR02552         5 TLKDLLG---LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAA   79 (135)
T ss_pred             hHHHHHc---CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4555554   56654 45666777888899999999999998754  13467788888999999999999999998875 


Q ss_pred             -CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchH
Q 006997          498 -VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNY  539 (622)
Q Consensus       498 -~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  539 (622)
                       .+.+...+..+...+...|++++|...++++++++|++....
T Consensus        80 ~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  122 (135)
T TIGR02552        80 LDPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPEYS  122 (135)
T ss_pred             cCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHH
Confidence             344577788888899999999999999999999999776543

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

>PRK15331 chaperone protein SicA; Provisional

Probab=98.35  E-value=1.1e-05  Score=65.26  Aligned_cols=100  Identities=12%  Similarity=0.016  Sum_probs=83.8

Q ss_pred             CCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHH
Q 006997          465 GIEPS-IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYIL  541 (622)
Q Consensus       465 ~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  541 (622)
                      |++++ .........-+...|++++|..+|+-+.  ..-+..-|..|..++...+++++|+..|..+..++++||.++..
T Consensus        31 gis~~~le~iY~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~  110 (165)
T PRK15331         31 GIPQDMMDGLYAHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFF  110 (165)
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccch
Confidence            44443 2333344555678899999999998765  34457778999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHhhh
Q 006997          542 MANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       542 l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      .+.+|...|+.++|+..|+...+
T Consensus       111 agqC~l~l~~~~~A~~~f~~a~~  133 (165)
T PRK15331        111 TGQCQLLMRKAAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHh
Confidence            99999999999999999998876

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

Probab=98.32  E-value=0.0037  Score=60.23  Aligned_cols=210  Identities=13%  Similarity=0.135  Sum_probs=139.8

Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC---ChHHHHHHhccCCC----CChhHHHHHHHHHHHcCCHHHHHHHH
Q 006997          349 SKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCG---RINKAKEVFERVPD----KDLAVWSAMINGYAIHGMGDQALNLF  421 (622)
Q Consensus       349 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~  421 (622)
                      +++..+++.....-...+...|..+.+---..-   ..+...+.++++..    .-..+|..++..-.+..-...|..+|
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            444555555544322233344443333221111   24455555555542    23357888888888888899999999


Q ss_pred             HHhHHhcCCCC-CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC---
Q 006997          422 YKMQHVEGLKP-DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP---  497 (622)
Q Consensus       422 ~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---  497 (622)
                      .++.+ .+..+ +.....+++.-++. ++..-|.++|+.-..++|  -++.--...++-+...++-..|..+|++..   
T Consensus       390 ~kaR~-~~r~~hhVfVa~A~mEy~cs-kD~~~AfrIFeLGLkkf~--d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~  465 (656)
T KOG1914|consen  390 KKARE-DKRTRHHVFVAAALMEYYCS-KDKETAFRIFELGLKKFG--DSPEYVLKYLDFLSHLNDDNNARALFERVLTSV  465 (656)
T ss_pred             HHHhh-ccCCcchhhHHHHHHHHHhc-CChhHHHHHHHHHHHhcC--CChHHHHHHHHHHHHhCcchhHHHHHHHHHhcc
Confidence            99998 77777 56677777777664 788999999998886643  233444577888899999999999999986   


Q ss_pred             CCCc--HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC----CchHHHHHHHHHhcCChHHHHHHHHHh
Q 006997          498 VEVQ--AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS----TGNYILMANLFTSAGMWKEAATARGLM  562 (622)
Q Consensus       498 ~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (622)
                      ..|+  ...|..++.--..-||...+.++-++.....|.+    ...-....+-|.=++.+..-..-++.+
T Consensus       466 l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c~~~elk~l  536 (656)
T KOG1914|consen  466 LSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYPCSLDELKFL  536 (656)
T ss_pred             CChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhcccccccHHHHHhh
Confidence            2333  5689999999999999999999999887766622    123344555666666655444444433

>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=98.31  E-value=1.3e-06  Score=61.59  Aligned_cols=65  Identities=15%  Similarity=0.185  Sum_probs=60.2

Q ss_pred             cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcC-ChHHHHHHHHHhhhC
Q 006997          501 QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAG-MWKEAATARGLMDDR  565 (622)
Q Consensus       501 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~  565 (622)
                      +...|..++..+...|++++|+..|+++++++|+++.++..++.+|.+.| ++++|++.+++..+.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            45678899999999999999999999999999999999999999999999 799999999988763

...

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.28  E-value=8.7e-05  Score=63.89  Aligned_cols=161  Identities=14%  Similarity=0.181  Sum_probs=126.4

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHH-HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHH
Q 006997          401 WSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAV-VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVD  478 (622)
Q Consensus       401 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~  478 (622)
                      |..++-+....|+.+.|...++.+..  .+ |.+. .-..-.--+-..|++++|+++|+.+.++   .| |..++.--+.
T Consensus        55 ~EqV~IAAld~~~~~lAq~C~~~L~~--~f-p~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~d---dpt~~v~~KRKlA  128 (289)
T KOG3060|consen   55 YEQVFIAALDTGRDDLAQKCINQLRD--RF-PGSKRVGKLKAMLLEATGNYKEAIEYYESLLED---DPTDTVIRKRKLA  128 (289)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHH--hC-CCChhHHHHHHHHHHHhhchhhHHHHHHHHhcc---CcchhHHHHHHHH
Confidence            33444556677889999999999886  23 5433 2222222345678999999999999976   45 5666666666


Q ss_pred             HHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcC---ChH
Q 006997          479 LLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAG---MWK  553 (622)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g---~~~  553 (622)
                      ..-..|+.-+|++-+.+..  +..|...|..+...|...|+++.|.-++++++=.+|-++-.+..+++++.-.|   +..
T Consensus       129 ilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~  208 (289)
T KOG3060|consen  129 ILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLE  208 (289)
T ss_pred             HHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHH
Confidence            7777888888888887765  67889999999999999999999999999999999999999999999987776   566


Q ss_pred             HHHHHHHHhhhCCC
Q 006997          554 EAATARGLMDDRRL  567 (622)
Q Consensus       554 ~A~~~~~~~~~~~~  567 (622)
                      -|+++|.+..+-..
T Consensus       209 ~arkyy~~alkl~~  222 (289)
T KOG3060|consen  209 LARKYYERALKLNP  222 (289)
T ss_pred             HHHHHHHHHHHhCh
Confidence            68889988877544

>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=98.27  E-value=7.6e-06  Score=62.37  Aligned_cols=93  Identities=22%  Similarity=0.210  Sum_probs=76.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC-C-CCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcC
Q 006997          473 YLCLVDLLGRAGRFDLALKTIHEMP-V-EVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAG  550 (622)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  550 (622)
                      +..++..+...|++++|...++++. . +.+...+..++..+...+++++|...+++++...|.++..+..++.++...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            4556777778888888888888765 2 3334667778888888899999999999999999988889999999999999


Q ss_pred             ChHHHHHHHHHhhhC
Q 006997          551 MWKEAATARGLMDDR  565 (622)
Q Consensus       551 ~~~~A~~~~~~~~~~  565 (622)
                      ++++|...++...+.
T Consensus        83 ~~~~a~~~~~~~~~~   97 (100)
T cd00189          83 KYEEALEAYEKALEL   97 (100)
T ss_pred             hHHHHHHHHHHHHcc
Confidence            999999999887653

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

Probab=98.27  E-value=6.7e-07  Score=65.93  Aligned_cols=78  Identities=18%  Similarity=0.235  Sum_probs=56.8

Q ss_pred             cCChHHHHHHHHhCC-CCC---cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHH
Q 006997          483 AGRFDLALKTIHEMP-VEV---QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATA  558 (622)
Q Consensus       483 ~g~~~~A~~~~~~~~-~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  558 (622)
                      .|+++.|+.+++++. ..|   +...|..++.++.+.|++++|..++++ .+.+|.++.....++.++.+.|++++|+++
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            466677777777665 222   445566678888888888888888888 777777777777888888888888888888


Q ss_pred             HHH
Q 006997          559 RGL  561 (622)
Q Consensus       559 ~~~  561 (622)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            875

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.26  E-value=1.1e-05  Score=64.49  Aligned_cols=96  Identities=14%  Similarity=0.042  Sum_probs=67.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC-CCCc----HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC---CchHHHHH
Q 006997          472 HYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ----AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS---TGNYILMA  543 (622)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~  543 (622)
                      ++..++..+.+.|++++|.+.++++. ..|+    ...+..++.++...|+++.|...+++++...|++   +.++..++
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            44556666667777777777776664 2222    3355567777778888888888888888877764   45677778


Q ss_pred             HHHHhcCChHHHHHHHHHhhhCCC
Q 006997          544 NLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       544 ~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      .++.+.|++++|.+.++.+.+..+
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p  107 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYP  107 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCc
Confidence            888888888888888887776533

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.

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.25  E-value=2.5e-06  Score=59.21  Aligned_cols=60  Identities=15%  Similarity=0.165  Sum_probs=52.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          508 LLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       508 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ++..+...|++++|+..++++++..|+++.++..++.++...|++++|...|+++.+..+
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P   62 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDP   62 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            456788899999999999999999999999999999999999999999999999876543

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

Probab=98.23  E-value=0.00025  Score=61.63  Aligned_cols=243  Identities=14%  Similarity=0.036  Sum_probs=157.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCh
Q 006997          304 IGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRI  383 (622)
Q Consensus       304 ~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  383 (622)
                      ++-+.-.|.+..++..-.......  -+...-.-+-++|...|++....   ..+.... .+.......+......-++.
T Consensus        15 iRn~fY~Gnyq~~ine~~~~~~~~--~~~e~d~y~~raylAlg~~~~~~---~eI~~~~-~~~lqAvr~~a~~~~~e~~~   88 (299)
T KOG3081|consen   15 IRNYFYLGNYQQCINEAEKFSSSK--TDVELDVYMYRAYLALGQYQIVI---SEIKEGK-ATPLQAVRLLAEYLELESNK   88 (299)
T ss_pred             HHHHHHhhHHHHHHHHHHhhcccc--chhHHHHHHHHHHHHcccccccc---ccccccc-CChHHHHHHHHHHhhCcchh
Confidence            455566788887777665544332  34444445566777666653322   2222222 33333334344333334443


Q ss_pred             HHHHH-HhccCCCC----ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHH
Q 006997          384 NKAKE-VFERVPDK----DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFK  458 (622)
Q Consensus       384 ~~A~~-~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  458 (622)
                      ++-.. +.+.+..+    +......-...|+..+++++|++.......       ......=...+.+..+.+-|.+.++
T Consensus        89 ~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~~-------lE~~Al~VqI~lk~~r~d~A~~~lk  161 (299)
T KOG3081|consen   89 KSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGEN-------LEAAALNVQILLKMHRFDLAEKELK  161 (299)
T ss_pred             HHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccch-------HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33322 23333322    222223334578899999999999876322       2223333345667788999999999


Q ss_pred             HhHHhcCCCCChhHHHHHHHHHH----hcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccC
Q 006997          459 SMQSNFGIEPSIEHYLCLVDLLG----RAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLN  532 (622)
Q Consensus       459 ~~~~~~~~~p~~~~~~~l~~~~~----~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  532 (622)
                      +|.+   +. +..+.+.|..++.    -.++..+|.-+|+++.  .+|++.+.+....++...|++++|+.+++.++..+
T Consensus       162 ~mq~---id-ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd  237 (299)
T KOG3081|consen  162 KMQQ---ID-EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD  237 (299)
T ss_pred             HHHc---cc-hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc
Confidence            9983   22 4456665666554    4567999999999997  67888899999999999999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcCChHHHHH-HHHHhh
Q 006997          533 PGSTGNYILMANLFTSAGMWKEAAT-ARGLMD  563 (622)
Q Consensus       533 p~~~~~~~~l~~~~~~~g~~~~A~~-~~~~~~  563 (622)
                      |++|++..+++-+-...|...++.+ .+.++.
T Consensus       238 ~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk  269 (299)
T KOG3081|consen  238 AKDPETLANLIVLALHLGKDAEVTERNLSQLK  269 (299)
T ss_pred             CCCHHHHHHHHHHHHHhCCChHHHHHHHHHHH
Confidence            9999999999988888898877654 444443

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

Probab=98.23  E-value=7.9e-05  Score=61.63  Aligned_cols=124  Identities=17%  Similarity=0.199  Sum_probs=89.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH----HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC--hhHHH
Q 006997          401 WSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDA----VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS--IEHYL  474 (622)
Q Consensus       401 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~  474 (622)
                      |..++..+ ..++...+...++.+.+   -.|+.    .....+...+...|++++|...|+.+... ...|+  .....
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~---~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l   89 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAK---DYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARL   89 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHH---HCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHH
Confidence            33444444 47888888888888887   23432    33445667788899999999999998865 22222  22344


Q ss_pred             HHHHHHHhcCChHHHHHHHHhCC-CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 006997          475 CLVDLLGRAGRFDLALKTIHEMP-VEVQAQVWAPLLSACMKHHNVELGEYAAKNLL  529 (622)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  529 (622)
                      .|...+...|++++|+..++... ....+..+...+..+...|+.++|...|++++
T Consensus        90 ~LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen   90 RLARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             HHHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence            57788889999999999998865 23335566778888999999999999998864

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

Probab=98.21  E-value=2.2e-05  Score=75.53  Aligned_cols=101  Identities=16%  Similarity=0.176  Sum_probs=53.2

Q ss_pred             HHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-cHHhHHHHHHHHHhcCCH
Q 006997          442 SACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEV-QAQVWAPLLSACMKHHNV  518 (622)
Q Consensus       442 ~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~  518 (622)
                      ..+...|+++.|+..|+++++.   .| +...|..+..+|.+.|++++|+..++++. ..| +...|..++.+|...|++
T Consensus        10 ~~a~~~~~~~~Ai~~~~~Al~~---~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088         10 KEAFVDDDFALAVDLYTQAIDL---DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCH
Confidence            3444555666666666665532   33 34445555555555555555555555554 222 344455555555555555


Q ss_pred             HHHHHHHHHHHccCCCCCchHHHHHHH
Q 006997          519 ELGEYAAKNLLTLNPGSTGNYILMANL  545 (622)
Q Consensus       519 ~~a~~~~~~~~~~~p~~~~~~~~l~~~  545 (622)
                      ++|+..++++++++|+++.+...+..+
T Consensus        87 ~eA~~~~~~al~l~P~~~~~~~~l~~~  113 (356)
T PLN03088         87 QTAKAALEKGASLAPGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            555555555555555555544444333

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.17  E-value=3.3e-06  Score=50.03  Aligned_cols=35  Identities=31%  Similarity=0.469  Sum_probs=32.9

Q ss_pred             chHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCCh
Q 006997           99 VSWNSIISAHSRACLNDEAILVLKEMWVLGLELSA  133 (622)
Q Consensus        99 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~  133 (622)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47999999999999999999999999999999983

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.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.13  E-value=4.5e-06  Score=48.98  Aligned_cols=34  Identities=26%  Similarity=0.379  Sum_probs=32.1

Q ss_pred             cchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCC
Q 006997           98 VVSWNSIISAHSRACLNDEAILVLKEMWVLGLEL  131 (622)
Q Consensus        98 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p  131 (622)
                      +.+|+.++.+|++.|+++.|.++|++|.+.|++|
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            4689999999999999999999999999999987

>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=98.12  E-value=8.1e-05  Score=71.27  Aligned_cols=123  Identities=19%  Similarity=0.266  Sum_probs=96.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhcc
Q 006997          369 VQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHS  447 (622)
Q Consensus       369 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~  447 (622)
                      ...+|+..+...++++.|..+|+++.+.++.....++..+...++-.+|.+++++..+   ..| +...+..-...|.+.
T Consensus       171 Lv~~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  171 LVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALK---ENPQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHhc
Confidence            3345566666678888888888888877777777788888888888888888888886   344 455566666678888


Q ss_pred             CchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC
Q 006997          448 GMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP  497 (622)
Q Consensus       448 g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  497 (622)
                      ++++.|+.+.+++..   ..| +..+|..|+.+|.+.|++++|+..++.++
T Consensus       248 ~~~~lAL~iAk~av~---lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  248 KKYELALEIAKKAVE---LSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             CCHHHHHHHHHHHHH---hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            899999999998884   466 46688889999999999999999998887

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

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.10  E-value=0.00027  Score=65.35  Aligned_cols=154  Identities=12%  Similarity=0.085  Sum_probs=109.6

Q ss_pred             HHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHH-----------
Q 006997          406 NGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHY-----------  473 (622)
Q Consensus       406 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-----------  473 (622)
                      .++...|+.++|.+.--...+   ..++ ......-..++-..++.+.+...|++.+   .+.|+...-           
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilk---ld~~n~~al~vrg~~~yy~~~~~ka~~hf~qal---~ldpdh~~sk~~~~~~k~le  250 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILK---LDATNAEALYVRGLCLYYNDNADKAINHFQQAL---RLDPDHQKSKSASMMPKKLE  250 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHh---cccchhHHHHhcccccccccchHHHHHHHhhhh---ccChhhhhHHhHhhhHHHHH
Confidence            355677888888887777766   3333 2222222234556778888888888877   446653221           


Q ss_pred             --HHHHHHHHhcCChHHHHHHHHhCC-CC-----CcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHH
Q 006997          474 --LCLVDLLGRAGRFDLALKTIHEMP-VE-----VQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANL  545 (622)
Q Consensus       474 --~~l~~~~~~~g~~~~A~~~~~~~~-~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  545 (622)
                        ..=.+-..+.|.+.+|.+.+.+.. +.     |+...|.....+..+.|+..+|+.-.+.+++++|.-...+...+.+
T Consensus       251 ~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c  330 (486)
T KOG0550|consen  251 VKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANC  330 (486)
T ss_pred             HHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHH
Confidence              112233467888999999998876 33     3455566666677788999999999999999999888888899999


Q ss_pred             HHhcCChHHHHHHHHHhhhC
Q 006997          546 FTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       546 ~~~~g~~~~A~~~~~~~~~~  565 (622)
                      +...++|++|.+-+++..+.
T Consensus       331 ~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  331 HLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999888664

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=98.08  E-value=9e-05  Score=66.20  Aligned_cols=105  Identities=19%  Similarity=0.132  Sum_probs=89.5

Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhc---CCHHHHHHHHHHHHccCCCCCchHHH
Q 006997          467 EPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKH---HNVELGEYAAKNLLTLNPGSTGNYIL  541 (622)
Q Consensus       467 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~p~~~~~~~~  541 (622)
                      +-|.+.|..|...|...|+...|..-|.+..  .++++..+..+..++...   .+..++..++++++.++|.|..+...
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~l  232 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSL  232 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHH
Confidence            4478999999999999999999999998876  455677777777766543   45788999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhCCCccCC
Q 006997          542 MANLFTSAGMWKEAATARGLMDDRRLTKEP  571 (622)
Q Consensus       542 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  571 (622)
                      |+..+...|++.+|...++.|.+.....+|
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCCCCCc
Confidence            999999999999999999999986664443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=98.07  E-value=0.00035  Score=57.10  Aligned_cols=152  Identities=13%  Similarity=0.074  Sum_probs=117.1

Q ss_pred             HHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHH
Q 006997          409 AIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDL  488 (622)
Q Consensus       409 ~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  488 (622)
                      .+.=+++...+-..+-.+   ..|+...-..+..+....|+..+|...|++.... -+..|....-.+.++....+++.+
T Consensus        67 ~q~ldP~R~~Rea~~~~~---~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG-~fA~d~a~lLglA~Aqfa~~~~A~  142 (251)
T COG4700          67 QQKLDPERHLREATEELA---IAPTVQNRYRLANALAELGRYHEAVPHYQQALSG-IFAHDAAMLLGLAQAQFAIQEFAA  142 (251)
T ss_pred             HHhcChhHHHHHHHHHHh---hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhcc-ccCCCHHHHHHHHHHHHhhccHHH
Confidence            333344444433333333   6777777778889999999999999999998853 334578888888899999999999


Q ss_pred             HHHHHHhCC-CCC---cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          489 ALKTIHEMP-VEV---QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       489 A~~~~~~~~-~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      |...+++.. .+|   ++.....+..++...|..+.|+..|+.++.-.| ++......+..+.++|+.++|..-+..+.+
T Consensus       143 a~~tLe~l~e~~pa~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~yp-g~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         143 AQQTLEDLMEYNPAFRSPDGHLLFARTLAAQGKYADAESAFEVAISYYP-GPQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             HHHHHHHHhhcCCccCCCCchHHHHHHHHhcCCchhHHHHHHHHHHhCC-CHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            999998864 222   234455678889999999999999999999999 688888899999999999999877766655


Q ss_pred             C
Q 006997          565 R  565 (622)
Q Consensus       565 ~  565 (622)
                      .
T Consensus       222 ~  222 (251)
T COG4700         222 T  222 (251)
T ss_pred             H
Confidence            3

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.07  E-value=7.1e-06  Score=48.54  Aligned_cols=34  Identities=35%  Similarity=0.657  Sum_probs=29.0

Q ss_pred             chHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCC
Q 006997          197 VSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPD  230 (622)
Q Consensus       197 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  230 (622)
                      .+||++|.+|++.|++++|.++|.+|.+.|++||
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            3688888888888888888888888888888887

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

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.04  E-value=4.9e-05  Score=65.08  Aligned_cols=82  Identities=15%  Similarity=0.067  Sum_probs=62.8

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc----HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHH
Q 006997          470 IEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ----AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMAN  544 (622)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  544 (622)
                      ...+..+...+...|++++|...++++. ..|+    ...+..++..+...|++++|...++++++..|+++..+..++.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~  114 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence            3445566666777777777777777664 2222    3567788888889999999999999999999998888889999


Q ss_pred             HHHhcCC
Q 006997          545 LFTSAGM  551 (622)
Q Consensus       545 ~~~~~g~  551 (622)
                      +|...|+
T Consensus       115 ~~~~~g~  121 (172)
T PRK02603        115 IYHKRGE  121 (172)
T ss_pred             HHHHcCC
Confidence            9988776

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.04  E-value=9.5e-05  Score=58.97  Aligned_cols=105  Identities=12%  Similarity=0.128  Sum_probs=69.3

Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc----HHhHHHHH
Q 006997          436 VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ----AQVWAPLL  509 (622)
Q Consensus       436 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~  509 (622)
                      ++......+.+.|++++|.+.|+.+.+.+.-.+ ....+..+..++.+.|++++|.+.++++. ..|+    ..++..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            344555666667777777777777765421111 13345556777777777777777777664 2233    44577777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHccCCCCCchHH
Q 006997          510 SACMKHHNVELGEYAAKNLLTLNPGSTGNYI  540 (622)
Q Consensus       510 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  540 (622)
                      .++...|+.++|...++++++..|+++.+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  114 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSAAKL  114 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChhHHH
Confidence            7888888888888888888888887665443

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.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.04  E-value=1.8e-05  Score=70.00  Aligned_cols=90  Identities=16%  Similarity=0.138  Sum_probs=79.9

Q ss_pred             HHHHHhcCChHHHHHHHHhCC-CC-CcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHH
Q 006997          477 VDLLGRAGRFDLALKTIHEMP-VE-VQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKE  554 (622)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~~-~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  554 (622)
                      .+-+.+.+++++|+..|.+++ .. .|.+.|..=..+|.+.|.++.|++-.+.++.++|....+|..|+.+|..+|++++
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHH
Confidence            345678899999999999987 44 4566677788899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhCC
Q 006997          555 AATARGLMDDRR  566 (622)
Q Consensus       555 A~~~~~~~~~~~  566 (622)
                      |++.|++.++-+
T Consensus       168 A~~aykKaLeld  179 (304)
T KOG0553|consen  168 AIEAYKKALELD  179 (304)
T ss_pred             HHHHHHhhhccC
Confidence            999999887643

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.03  E-value=0.024  Score=58.40  Aligned_cols=64  Identities=16%  Similarity=0.178  Sum_probs=53.6

Q ss_pred             hHHHHHHHHHhcCCH---HHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          504 VWAPLLSACMKHHNV---ELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       504 ~~~~l~~~~~~~~~~---~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      +-+.|+..+.+.+|.   -+|+.+++..+...|.|+..-..++.+|.-.|-+..|.+.|+.+--+.+
T Consensus       438 av~~Lid~~rktnd~~~l~eaI~LLE~glt~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~I  504 (932)
T KOG2053|consen  438 AVNHLIDLWRKTNDLTDLFEAITLLENGLTKSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNI  504 (932)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHh
Confidence            345677888888765   5688888888999999999999999999999999999999998865544

>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=98.03  E-value=8.3e-06  Score=57.28  Aligned_cols=54  Identities=17%  Similarity=0.229  Sum_probs=48.5

Q ss_pred             HhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          513 MKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       513 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      ...|++++|++.++++++.+|+++.++..++.+|.+.|++++|.++++++....
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~   55 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQD   55 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            467899999999999999999999999999999999999999999999887643

...

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.03  E-value=0.00026  Score=71.31  Aligned_cols=62  Identities=18%  Similarity=0.180  Sum_probs=33.8

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          503 QVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      ..+..+.......|++++|...++++++++| +...|..+|.++...|+.++|.+.+++..+.
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3444444444445555555555555555555 3455555555555556666555555555443

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

Probab=98.02  E-value=6.8e-05  Score=72.21  Aligned_cols=100  Identities=13%  Similarity=0.132  Sum_probs=81.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHH
Q 006997          404 MINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLG  481 (622)
Q Consensus       404 l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~  481 (622)
                      -...+...|++++|+..|+++.+   ..|+ ...|..+..+|...|++++|+..++++...   .| +...|..+..+|.
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~---~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l---~P~~~~a~~~lg~~~~   81 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAID---LDPNNAELYADRAQANIKLGNFTEAVADANKAIEL---DPSLAKAYLRKGTACM   81 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcCCHHHHHHHHHHHH
Confidence            34566788999999999999998   6675 567888888999999999999999999843   55 5778888999999


Q ss_pred             hcCChHHHHHHHHhCC-CCCcHHhHHHHH
Q 006997          482 RAGRFDLALKTIHEMP-VEVQAQVWAPLL  509 (622)
Q Consensus       482 ~~g~~~~A~~~~~~~~-~~~~~~~~~~l~  509 (622)
                      ..|++++|+..|+++. ..|+.......+
T Consensus        82 ~lg~~~eA~~~~~~al~l~P~~~~~~~~l  110 (356)
T PLN03088         82 KLEEYQTAKAALEKGASLAPGDSRFTKLI  110 (356)
T ss_pred             HhCCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            9999999999999986 555544443333

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.99  E-value=1.2e-05  Score=47.11  Aligned_cols=33  Identities=18%  Similarity=0.485  Sum_probs=25.3

Q ss_pred             chHHHHHHHHHcCCChhHHHHHHHHHHHCCCCC
Q 006997          197 VSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTP  229 (622)
Q Consensus       197 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  229 (622)
                      .+||.+|.+|++.|+++.|.++|++|.+.|++|
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            467777777777777777777777777777766

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.99  E-value=2.1e-05  Score=56.16  Aligned_cols=59  Identities=14%  Similarity=0.113  Sum_probs=53.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          509 LSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       509 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ...+.+.++++.|.++++++++++|+++..+...+.++.+.|++++|.+.++...+.++
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            45678899999999999999999999999999999999999999999999999987544

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.98  E-value=5.3e-05  Score=64.61  Aligned_cols=94  Identities=14%  Similarity=-0.056  Sum_probs=75.8

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc----HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHH
Q 006997          470 IEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ----AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMAN  544 (622)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  544 (622)
                      ...+..++..+...|++++|+..++++. ..|+    ..+|..+...+...|++++|+..+++++++.|.....+..++.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~  114 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHH
Confidence            4556677777888888888888888774 2222    3478889999999999999999999999999999998999998


Q ss_pred             HHH-------hcCChHHHHHHHHHhh
Q 006997          545 LFT-------SAGMWKEAATARGLMD  563 (622)
Q Consensus       545 ~~~-------~~g~~~~A~~~~~~~~  563 (622)
                      ++.       +.|++++|...+++..
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~a~  140 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQAA  140 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHHHH
Confidence            888       8888887766666543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.92  E-value=0.00033  Score=59.95  Aligned_cols=128  Identities=14%  Similarity=0.134  Sum_probs=73.1

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC--HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHH
Q 006997          399 AVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD--AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLC  475 (622)
Q Consensus       399 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~  475 (622)
                      ..+..+...+...|++++|...|++..+ ....+.  ...+..+..++.+.|++++|...+++..+.   .| +...+..
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~-~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~  111 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALK-LEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL---NPKQPSALNN  111 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH-HhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcccHHHHHH
Confidence            3455555566666777777777776665 221111  245556666666667777777766666632   33 3444455


Q ss_pred             HHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCC
Q 006997          476 LVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGM  551 (622)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  551 (622)
                      +..+|...|+...+..-++...                  ..+++|.++++++++++|++   +..++..+...|+
T Consensus       112 lg~~~~~~g~~~~a~~~~~~A~------------------~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        112 IAVIYHKRGEKAEEAGDQDEAE------------------ALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHHcCChHhHhhCHHHHH------------------HHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcCc
Confidence            5555555555444433222211                  12677888888888888865   5555555555443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.91  E-value=2.4e-05  Score=54.27  Aligned_cols=61  Identities=16%  Similarity=0.232  Sum_probs=49.6

Q ss_pred             HHHHHHhcCChHHHHHHHHhCC-CCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCC
Q 006997          476 LVDLLGRAGRFDLALKTIHEMP-VEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGST  536 (622)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  536 (622)
                      +...+...|++++|++.|+++. ..| +...|..++.++...|++++|...++++++..|++|
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            4567788888999999988876 344 577888899999999999999999999999999764

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.87  E-value=0.04  Score=55.66  Aligned_cols=129  Identities=14%  Similarity=0.102  Sum_probs=98.0

Q ss_pred             HHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC
Q 006997          418 LNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP  497 (622)
Q Consensus       418 ~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  497 (622)
                      +++.+......|......+.+--+.-+...|+..+|.++-.+.+     -||...|.--+.+++..+++++-+++-+...
T Consensus       668 l~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfAkskk  742 (829)
T KOG2280|consen  668 LKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFAKSKK  742 (829)
T ss_pred             HHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC
Confidence            34444444434444455566666777778899999998887765     6888889888999999999999988888765


Q ss_pred             CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 006997          498 VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLM  562 (622)
Q Consensus       498 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (622)
                         .+..|.-+..+|.+.|+.++|.+++-+.-.+        .....+|.+.|++.+|.+.--+-
T Consensus       743 ---sPIGy~PFVe~c~~~~n~~EA~KYiprv~~l--------~ekv~ay~~~~~~~eAad~A~~~  796 (829)
T KOG2280|consen  743 ---SPIGYLPFVEACLKQGNKDEAKKYIPRVGGL--------QEKVKAYLRVGDVKEAADLAAEH  796 (829)
T ss_pred             ---CCCCchhHHHHHHhcccHHHHhhhhhccCCh--------HHHHHHHHHhccHHHHHHHHHHh
Confidence               3667888899999999999999888755322        16788999999999998765433

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.86  E-value=0.023  Score=52.63  Aligned_cols=271  Identities=16%  Similarity=0.173  Sum_probs=177.3

Q ss_pred             cCCHHHHHHHHhhc---CCCCHHHHHHHHH--HHHhcCChHHHHHHHHHHHhCCCCCCHH--HHHHHHHHHhccCChHHH
Q 006997          279 CGDLELARRVFDAV---LEKSVFLWTSMIG--GYAQLGYPSEAVNLFKRLLKTSVRPNEA--TLATTLSACAELGSLSKG  351 (622)
Q Consensus       279 ~~~~~~a~~~~~~~---~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~ll~~~~~~~~~~~a  351 (622)
                      .|+-..|.+.-.+.   ...|-...-.++.  +-.-.|+++.|.+-|+.|...   |...  -+..|.-...+.|+.+.|
T Consensus        97 AGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaA  173 (531)
T COG3898          97 AGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAA  173 (531)
T ss_pred             cCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHH
Confidence            34555555544332   2223333333332  334468888888888888752   2222  233344444667888888


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCC-----CCChhH--HHHHHHHH---HHcCCHHHHHHHH
Q 006997          352 KEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVP-----DKDLAV--WSAMINGY---AIHGMGDQALNLF  421 (622)
Q Consensus       352 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-----~~~~~~--~~~l~~~~---~~~~~~~~a~~~~  421 (622)
                      .++-+..-..- +.-.-...+.+...+..|+++.|+++.+.-.     ++++.-  --.|+.+-   .-.-+...|...-
T Consensus       174 r~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A  252 (531)
T COG3898         174 RHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDA  252 (531)
T ss_pred             HHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHH
Confidence            87777765543 3344566778888888888888888887543     344321  11222211   1234566777776


Q ss_pred             HHhHHhcCCCCCHH-HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHH------
Q 006997          422 YKMQHVEGLKPDAV-VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIH------  494 (622)
Q Consensus       422 ~~~~~~~~~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~------  494 (622)
                      .+..+   +.||.. .-.....++.+.|+..++-.+++.+-+.   .|.+.++...  .+.+.|+.  +++=++      
T Consensus       253 ~~a~K---L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~---ePHP~ia~lY--~~ar~gdt--a~dRlkRa~~L~  322 (531)
T COG3898         253 LEANK---LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKA---EPHPDIALLY--VRARSGDT--ALDRLKRAKKLE  322 (531)
T ss_pred             HHHhh---cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhc---CCChHHHHHH--HHhcCCCc--HHHHHHHHHHHH
Confidence            66666   888854 4555667899999999999999998844   7877766433  33455553  333332      


Q ss_pred             hCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhc-CChHHHHHHHHHhhhC
Q 006997          495 EMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSA-GMWKEAATARGLMDDR  565 (622)
Q Consensus       495 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~  565 (622)
                      .|. +.+..+......+....|++..|..-.+.+....| ..+.|..|+++-... |+-.++...+-+..+.
T Consensus       323 slk-~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~p-res~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         323 SLK-PNNAESSLAVAEAALDAGEFSAARAKAEAAAREAP-RESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             hcC-ccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCc-hhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            333 44566777788888899999999999999999999 578899999988766 9999999999888764

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.84  E-value=9.9e-06  Score=46.91  Aligned_cols=34  Identities=32%  Similarity=0.532  Sum_probs=31.5

Q ss_pred             HHHHHHccCCCCCchHHHHHHHHHhcCChHHHHH
Q 006997          524 AAKNLLTLNPGSTGNYILMANLFTSAGMWKEAAT  557 (622)
Q Consensus       524 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  557 (622)
                      +|+++++++|+++.+|..++.+|...|++++|++
T Consensus         1 ~y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    1 CYKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             ChHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            3789999999999999999999999999999963

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.82  E-value=0.00051  Score=56.19  Aligned_cols=137  Identities=15%  Similarity=0.171  Sum_probs=107.2

Q ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC---CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC--CCchH
Q 006997          465 GIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP---VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG--STGNY  539 (622)
Q Consensus       465 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~--~~~~~  539 (622)
                      .+.|+...-..|...+.+.|+..||...|++..   ...|......+.++....+++..|...++++.+-+|.  .|...
T Consensus        84 ~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~  163 (251)
T COG4700          84 AIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGH  163 (251)
T ss_pred             hhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCch
Confidence            567888888889999999999999999999876   6677888899999999999999999999999998884  77889


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhhhCCCccCCCceEEEECCeEEEEEecCCCCcchHHHHHHHHHHHHHHHH
Q 006997          540 ILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLLE  611 (622)
Q Consensus       540 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  611 (622)
                      ..++.+|...|++.+|+..|+......+.+..-+.+.       .|+.   +.+...+..+++.++.+..+.
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y~-------e~La---~qgr~~ea~aq~~~v~d~~~r  225 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYPGPQARIYYA-------EMLA---KQGRLREANAQYVAVVDTAKR  225 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHHH-------HHHH---HhcchhHHHHHHHHHHHHHHh
Confidence            9999999999999999999999987655443222111       1222   244455555555666655543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.81  E-value=0.0013  Score=61.41  Aligned_cols=144  Identities=16%  Similarity=0.218  Sum_probs=82.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhcc-CchHHHHHHHHHhHHhcCCCCC----hhHHHHHHH
Q 006997          404 MINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHS-GMVDDGLSFFKSMQSNFGIEPS----IEHYLCLVD  478 (622)
Q Consensus       404 l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~-g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~  478 (622)
                      .+..|...|++..|-+.+.+                +...|... |++++|++.|+++..-+.....    ..++..++.
T Consensus       100 A~~~y~~~G~~~~aA~~~~~----------------lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~  163 (282)
T PF14938_consen  100 AIEIYREAGRFSQAAKCLKE----------------LAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAAD  163 (282)
T ss_dssp             HHHHHHHCT-HHHHHHHHHH----------------HHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHhcCcHHHHHHHHHH----------------HHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHH
Confidence            34555556665555554444                33455555 7778888777776643322222    344566777


Q ss_pred             HHHhcCChHHHHHHHHhCC---CC-----CcHH-hHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCc-----hHHHHHH
Q 006997          479 LLGRAGRFDLALKTIHEMP---VE-----VQAQ-VWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTG-----NYILMAN  544 (622)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~~---~~-----~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~-----~~~~l~~  544 (622)
                      .+.+.|++++|.++|+++.   ..     .+.. .+...+-++...||...|...+++..+.+|.-.+     ....|+.
T Consensus       164 l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~  243 (282)
T PF14938_consen  164 LYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLE  243 (282)
T ss_dssp             HHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHH
Confidence            8888888888888888753   11     1111 2223333556678999999999999888885433     3334455


Q ss_pred             HHHh--cCChHHHHHHHHHhh
Q 006997          545 LFTS--AGMWKEAATARGLMD  563 (622)
Q Consensus       545 ~~~~--~g~~~~A~~~~~~~~  563 (622)
                      ++-.  ...+++|..-|+.+.
T Consensus       244 A~~~~D~e~f~~av~~~d~~~  264 (282)
T PF14938_consen  244 AYEEGDVEAFTEAVAEYDSIS  264 (282)
T ss_dssp             HHHTT-CCCHHHHCHHHTTSS
T ss_pred             HHHhCCHHHHHHHHHHHcccC
Confidence            5543  355666666666554

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.80  E-value=0.014  Score=54.58  Aligned_cols=101  Identities=13%  Similarity=0.208  Sum_probs=56.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-----CCHH-HHHHHHHHHhccCChHHHHHHHHHHHHcC--CCCc--hh
Q 006997          299 LWTSMIGGYAQLGYPSEAVNLFKRLLKTSVR-----PNEA-TLATTLSACAELGSLSKGKEIEEYIVLNG--LESN--RQ  368 (622)
Q Consensus       299 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-----~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~--~~  368 (622)
                      .+..+...+.+.|++++|+++|++.......     .+.. .|...+-.+...||...|...++......  +..+  ..
T Consensus       157 ~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~  236 (282)
T PF14938_consen  157 CLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYK  236 (282)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHH
Confidence            3445667788888888888888887664321     1121 22223334555677778877777765442  2222  34


Q ss_pred             HHHHHHHHHHh--cCChHHHHHHhccCCCCChh
Q 006997          369 VQTSLIHMFSK--CGRINKAKEVFERVPDKDLA  399 (622)
Q Consensus       369 ~~~~l~~~~~~--~~~~~~A~~~~~~~~~~~~~  399 (622)
                      ....|+.++-.  ...++.+..-|+.+.+-|..
T Consensus       237 ~~~~l~~A~~~~D~e~f~~av~~~d~~~~ld~w  269 (282)
T PF14938_consen  237 FLEDLLEAYEEGDVEAFTEAVAEYDSISRLDNW  269 (282)
T ss_dssp             HHHHHHHHHHTT-CCCHHHHCHHHTTSS---HH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHcccCccHHH
Confidence            45556666654  34567777777777665543

>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=97.78  E-value=6.1e-05  Score=52.96  Aligned_cols=65  Identities=20%  Similarity=0.196  Sum_probs=52.9

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcC-CHHHHHHHHHHHHccCC
Q 006997          469 SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHH-NVELGEYAAKNLLTLNP  533 (622)
Q Consensus       469 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~p  533 (622)
                      ++..|..+...+...|++++|+..|++..  .+.+...|..++.++...| ++++|++.++++++++|
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            35667777888888888888888888776  3445778888888999998 79999999999999887

...

>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=97.77  E-value=0.00025  Score=53.71  Aligned_cols=92  Identities=20%  Similarity=0.244  Sum_probs=52.2

Q ss_pred             HHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhc
Q 006997          439 SILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKH  515 (622)
Q Consensus       439 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~  515 (622)
                      .+...+...|++++|...++++.+.   .| +...+..+...+...|++++|.+.+++..  .+.+...+..+...+...
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALEL---DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHhc---CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHH
Confidence            3444445555666666666555532   22 23444555555666666666666665543  222334566666666677


Q ss_pred             CCHHHHHHHHHHHHccCC
Q 006997          516 HNVELGEYAAKNLLTLNP  533 (622)
Q Consensus       516 ~~~~~a~~~~~~~~~~~p  533 (622)
                      |+.+.|...++++++..|
T Consensus        82 ~~~~~a~~~~~~~~~~~~   99 (100)
T cd00189          82 GKYEEALEAYEKALELDP   99 (100)
T ss_pred             HhHHHHHHHHHHHHccCC
Confidence            777777777777766665

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

Probab=97.77  E-value=0.0013  Score=61.11  Aligned_cols=134  Identities=13%  Similarity=0.146  Sum_probs=101.0

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHH-HhccCchHHHHHHHHHhHHhcCCCCChhHHHHHH
Q 006997          399 AVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSA-CSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLV  477 (622)
Q Consensus       399 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~-~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  477 (622)
                      .+|..++....+.+..+.|..+|.++.+ .+ ..+...|...... +...++.+.|..+|+...+.+  ..+...|...+
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~-~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f--~~~~~~~~~Y~   77 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARK-DK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKF--PSDPDFWLEYL   77 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHC-CC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHH--TT-HHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHc-CC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCCHHHHHHHH
Confidence            4677888888888889999999999986 22 2233445444444 333577788999999998764  55778888999


Q ss_pred             HHHHhcCChHHHHHHHHhCC--CCCc---HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCC
Q 006997          478 DLLGRAGRFDLALKTIHEMP--VEVQ---AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGST  536 (622)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~--~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  536 (622)
                      +.+.+.|+.+.|..+|++..  ..++   ...|...+..-.+.|+.+....+.+++.+..|++.
T Consensus        78 ~~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~  141 (280)
T PF05843_consen   78 DFLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDN  141 (280)
T ss_dssp             HHHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-
T ss_pred             HHHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhh
Confidence            99999999999999999986  2222   35899999999999999999999999999888633

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.

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.77  E-value=0.037  Score=52.06  Aligned_cols=110  Identities=15%  Similarity=0.192  Sum_probs=71.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccC
Q 006997          369 VQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSG  448 (622)
Q Consensus       369 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g  448 (622)
                      +.+..+.-+...|+...|.++-.+..-||-..|-..+.+++..++|++-.++...       +-.+.-|..++.+|.+.|
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s-------kKsPIGyepFv~~~~~~~  251 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS-------KKSPIGYEPFVEACLKYG  251 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC-------CCCCCChHHHHHHHHHCC
Confidence            3444455566677777777777777777777777777777777777766654321       122366777777777777


Q ss_pred             chHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC
Q 006997          449 MVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEM  496 (622)
Q Consensus       449 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  496 (622)
                      +..+|..+..++.           +..-+..|.++|++.+|.+.--+.
T Consensus       252 ~~~eA~~yI~k~~-----------~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  252 NKKEASKYIPKIP-----------DEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             CHHHHHHHHHhCC-----------hHHHHHHHHHCCCHHHHHHHHHHc
Confidence            7777777765421           133566677777777776665543

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

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

Probab=97.76  E-value=3.6e-05  Score=43.87  Aligned_cols=31  Identities=35%  Similarity=0.473  Sum_probs=27.7

Q ss_pred             chHHHHHHHHHhCCCchHHHHHHHHHHHcCC
Q 006997           99 VSWNSIISAHSRACLNDEAILVLKEMWVLGL  129 (622)
Q Consensus        99 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~  129 (622)
                      .+||+++++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4799999999999999999999999988764

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.

>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=97.73  E-value=4e-05  Score=53.74  Aligned_cols=49  Identities=18%  Similarity=0.330  Sum_probs=23.8

Q ss_pred             ccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC
Q 006997          446 HSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP  497 (622)
Q Consensus       446 ~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  497 (622)
                      +.|++++|+++|+++...   .| +...+..++.+|.+.|++++|.++++++.
T Consensus         3 ~~~~~~~A~~~~~~~l~~---~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~   52 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQR---NPDNPEARLLLAQCYLKQGQYDEAEELLERLL   52 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHH---TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCH
T ss_pred             hccCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            345555555555555533   23 34444445555555555555555555544

...

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

Probab=97.72  E-value=0.00012  Score=53.88  Aligned_cols=76  Identities=16%  Similarity=0.373  Sum_probs=32.8

Q ss_pred             CCHHHHHHHHHHhHHhcCCCC---CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChH
Q 006997          412 GMGDQALNLFYKMQHVEGLKP---DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFD  487 (622)
Q Consensus       412 ~~~~~a~~~~~~~~~~~~~~p---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~  487 (622)
                      |+++.|+.+++++.+   ..|   +...+..+..++.+.|++++|..+++. .   ...| +......+..+|.+.|+++
T Consensus         3 ~~y~~Ai~~~~k~~~---~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~---~~~~~~~~~~~l~a~~~~~l~~y~   75 (84)
T PF12895_consen    3 GNYENAIKYYEKLLE---LDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-L---KLDPSNPDIHYLLARCLLKLGKYE   75 (84)
T ss_dssp             T-HHHHHHHHHHHHH---HHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-H---THHHCHHHHHHHHHHHHHHTT-HH
T ss_pred             ccHHHHHHHHHHHHH---HCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-h---CCCCCCHHHHHHHHHHHHHhCCHH
Confidence            455555555555554   222   222333345555555555555555544 1   1112 1222223344455555555


Q ss_pred             HHHHHHH
Q 006997          488 LALKTIH  494 (622)
Q Consensus       488 ~A~~~~~  494 (622)
                      +|++.++
T Consensus        76 eAi~~l~   82 (84)
T PF12895_consen   76 EAIKALE   82 (84)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            5555544

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.72  E-value=0.00083  Score=67.73  Aligned_cols=143  Identities=15%  Similarity=0.052  Sum_probs=105.6

Q ss_pred             CCCChhHHHHHHHHHHHc--C---CHHHHHHHHHHhHHhcCCCCCH-HHHHHHHHHHhccC--------chHHHHHHHHH
Q 006997          394 PDKDLAVWSAMINGYAIH--G---MGDQALNLFYKMQHVEGLKPDA-VVYTSILSACSHSG--------MVDDGLSFFKS  459 (622)
Q Consensus       394 ~~~~~~~~~~l~~~~~~~--~---~~~~a~~~~~~~~~~~~~~p~~-~~~~~ll~~~~~~g--------~~~~a~~~~~~  459 (622)
                      ...+...|...+.+....  +   +...|..+|+++.+   ..|+. ..+..+..++....        +...+.+...+
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~---ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK---SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            346788999988875543  2   36799999999999   88984 55665555443221        22344444444


Q ss_pred             hHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCch
Q 006997          460 MQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGN  538 (622)
Q Consensus       460 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  538 (622)
                      .........++..|.++.-.+...|++++|...++++. ..|+...|..++..+...|+.++|.+.+++++.++|.++..
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt~  489 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENTL  489 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCchH
Confidence            33211123356778888777778899999999999987 67888889999999999999999999999999999988753


Q ss_pred             H
Q 006997          539 Y  539 (622)
Q Consensus       539 ~  539 (622)
                      |
T Consensus       490 ~  490 (517)
T PRK10153        490 Y  490 (517)
T ss_pred             H
Confidence            3

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.69  E-value=0.00041  Score=54.13  Aligned_cols=88  Identities=15%  Similarity=-0.020  Sum_probs=63.7

Q ss_pred             HHHHHHhcCChHHHHHHHHhCC-C---CCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC---CCchHHHHHHHHH
Q 006997          476 LVDLLGRAGRFDLALKTIHEMP-V---EVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG---STGNYILMANLFT  547 (622)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~-~---~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~  547 (622)
                      +..++...|+.++|+.++++.. .   .++ ...+-.+.+++...|++++|..++++.+...|+   +......++.++.
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            4555666677777777777654 1   111 335666778888888888888888888887777   6667777888888


Q ss_pred             hcCChHHHHHHHHHhh
Q 006997          548 SAGMWKEAATARGLMD  563 (622)
Q Consensus       548 ~~g~~~~A~~~~~~~~  563 (622)
                      ..|+.++|.+.+-...
T Consensus        87 ~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   87 NLGRPKEALEWLLEAL  102 (120)
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            8888888888776544

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.68  E-value=0.00065  Score=57.94  Aligned_cols=61  Identities=13%  Similarity=0.149  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC--CHHHHHHHHHHHhccCchHHHHHHHHHhH
Q 006997          400 VWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP--DAVVYTSILSACSHSGMVDDGLSFFKSMQ  461 (622)
Q Consensus       400 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  461 (622)
                      .|..+...+...|++++|+..|++... ....|  ...++..+..++...|++++|+..+++..
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~-l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al   99 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMR-LEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQAL   99 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh-ccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            344444555555555555555555554 11111  11244555555555555555555555554

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.68  E-value=0.00033  Score=63.70  Aligned_cols=93  Identities=12%  Similarity=0.062  Sum_probs=60.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC-CCCc----HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC---CchHHHHHH
Q 006997          473 YLCLVDLLGRAGRFDLALKTIHEMP-VEVQ----AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS---TGNYILMAN  544 (622)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~  544 (622)
                      |...+..+.+.|++++|+..|+.+. ..|+    +..+.-++.++...|++++|...|+++++..|++   +.++..++.
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~  225 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGV  225 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHH
Confidence            3333333344566666666666554 2333    2345556777777788888888888888776664   445556677


Q ss_pred             HHHhcCChHHHHHHHHHhhhC
Q 006997          545 LFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       545 ~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      ++...|++++|.++|+++.+.
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            777888888888888877664

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

Probab=97.68  E-value=6.3e-05  Score=42.84  Aligned_cols=30  Identities=30%  Similarity=0.706  Sum_probs=22.1

Q ss_pred             chHHHHHHHHHcCCChhHHHHHHHHHHHCC
Q 006997          197 VSWTTIIGGYVNVGNVNEAFGLCNQMRRMS  226 (622)
Q Consensus       197 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  226 (622)
                      ++||.++++|++.|++++|.++|++|.+.|
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            367777777777777777777777777665

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.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.64  E-value=0.00021  Score=68.01  Aligned_cols=67  Identities=18%  Similarity=-0.010  Sum_probs=59.6

Q ss_pred             CCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCch---HHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          499 EVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGN---YILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       499 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      +.+...|+.++.++...|++++|+..|+++++++|+++..   |++++.+|..+|+.++|++.+++..+.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3457789999999999999999999999999999988854   999999999999999999999998874

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.63  E-value=0.055  Score=50.33  Aligned_cols=288  Identities=16%  Similarity=0.129  Sum_probs=158.2

Q ss_pred             CCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhc--cCChHHHHHHHHHHHHhCCCCCch--hHHHHHHHHHhcCCHHH
Q 006997          209 VGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQ--VGNLFLALSMHSLLLKSGYNNEDP--LDNLLVSMYTKCGDLEL  284 (622)
Q Consensus       209 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~  284 (622)
                      .|+-..|.++-.+-.+. +..|..-+..++.+...  .|+.+.|.+-|+.|...   |...  -...|.-.-.+.|+.+.
T Consensus        97 AGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~Garea  172 (531)
T COG3898          97 AGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREA  172 (531)
T ss_pred             cCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHH
Confidence            35555555555443322 34444555555554433  47777777777777542   1111  12223333345677777


Q ss_pred             HHHHHhhcCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCCCHH--HHHHHHHHHh---ccCChHHHHHHH
Q 006997          285 ARRVFDAVLEK---SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTS-VRPNEA--TLATTLSACA---ELGSLSKGKEIE  355 (622)
Q Consensus       285 a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~--~~~~ll~~~~---~~~~~~~a~~~~  355 (622)
                      |...-+..-..   -.-.+.+.+...|..|+|+.|+++++.-.... +.++..  .-..|+.+-.   -..+...|...-
T Consensus       173 Ar~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A  252 (531)
T COG3898         173 ARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDA  252 (531)
T ss_pred             HHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHH
Confidence            76666554322   22356677777888888888888877655432 233322  1112222211   112344455444


Q ss_pred             HHHHHcCCCCchh-HHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-
Q 006997          356 EYIVLNGLESNRQ-VQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-  433 (622)
Q Consensus       356 ~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-  433 (622)
                      .+..+.  .|+.. .--.-...+.+.|++.++-.+++.+-+..+..-  +...|......+.++.-+++..+...++|| 
T Consensus       253 ~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~--ia~lY~~ar~gdta~dRlkRa~~L~slk~nn  328 (531)
T COG3898         253 LEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPD--IALLYVRARSGDTALDRLKRAKKLESLKPNN  328 (531)
T ss_pred             HHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChH--HHHHHHHhcCCCcHHHHHHHHHHHHhcCccc
Confidence            444443  23321 122234567777888888777777654222221  122333333334555555555544457776 


Q ss_pred             HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh-cCChHHHHHHHHhCCCCCcHHhHHH
Q 006997          434 AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGR-AGRFDLALKTIHEMPVEVQAQVWAP  507 (622)
Q Consensus       434 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~  507 (622)
                      ......+..+-...|++..|..--+...   ...|....|..|.+.-.. .|+-.++..++.+....|....|..
T Consensus       329 aes~~~va~aAlda~e~~~ARa~Aeaa~---r~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~APrdPaW~a  400 (531)
T COG3898         329 AESSLAVAEAALDAGEFSAARAKAEAAA---REAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKAPRDPAWTA  400 (531)
T ss_pred             hHHHHHHHHHHHhccchHHHHHHHHHHh---hhCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCCCCCcccc
Confidence            3566667777778888888877777666   447777777777776544 4888888888877664555444543

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.62  E-value=0.063  Score=50.56  Aligned_cols=103  Identities=16%  Similarity=0.193  Sum_probs=52.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHH
Q 006997          271 LLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSK  350 (622)
Q Consensus       271 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~  350 (622)
                      ..+.-+...|+...|.++-.+..-|+..-|-..+.+++..++|++....-..      +-++..|..++.+|...|...+
T Consensus       182 ~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~e  255 (319)
T PF04840_consen  182 DTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKE  255 (319)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHH
Confidence            3344445555556666665555555555566666666666666554443221      1123455555555555555555


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHH
Q 006997          351 GKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEV  389 (622)
Q Consensus       351 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  389 (622)
                      |..+...+     +     +..-+.+|.++|++.+|.+.
T Consensus       256 A~~yI~k~-----~-----~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  256 ASKYIPKI-----P-----DEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             HHHHHHhC-----C-----hHHHHHHHHHCCCHHHHHHH
Confidence            55544431     1     13344555555555555443

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

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.59  E-value=0.0084  Score=59.05  Aligned_cols=195  Identities=16%  Similarity=0.192  Sum_probs=101.6

Q ss_pred             HHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHH
Q 006997          171 VMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLA  250 (622)
Q Consensus       171 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  250 (622)
                      +...++-.|++.+|.++|.+                  .|.-.+|+++|..|+--          -..+-+...|..++-
T Consensus       638 lA~~~Ay~gKF~EAAklFk~------------------~G~enRAlEmyTDlRMF----------D~aQE~~~~g~~~eK  689 (1081)
T KOG1538|consen  638 LADVFAYQGKFHEAAKLFKR------------------SGHENRALEMYTDLRMF----------DYAQEFLGSGDPKEK  689 (1081)
T ss_pred             HHHHHHhhhhHHHHHHHHHH------------------cCchhhHHHHHHHHHHH----------HHHHHHhhcCChHHH
Confidence            34566778999999888775                  45555666666655421          122333344444443


Q ss_pred             HHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 006997          251 LSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRP  330 (622)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~  330 (622)
                      ..+.++-.+-  .-+..--.+...++...|+.++|..+.                  ..+|-.+-++++-+++..    .
T Consensus       690 KmL~RKRA~W--Ar~~kePkaAAEmLiSaGe~~KAi~i~------------------~d~gW~d~lidI~rkld~----~  745 (1081)
T KOG1538|consen  690 KMLIRKRADW--ARNIKEPKAAAEMLISAGEHVKAIEIC------------------GDHGWVDMLIDIARKLDK----A  745 (1081)
T ss_pred             HHHHHHHHHH--hhhcCCcHHHHHHhhcccchhhhhhhh------------------hcccHHHHHHHHHhhcch----h
Confidence            3333221110  001111122334455566666665542                  233333444444333322    2


Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC--CChh---------
Q 006997          331 NEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD--KDLA---------  399 (622)
Q Consensus       331 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~---------  399 (622)
                      +..+...+...+.+...+..|.++|..+-..         .++++++...+++.+|..+-++.++  +|+.         
T Consensus       746 ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE  816 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAE  816 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccccccccchHHHHhhh
Confidence            3334444444455556666666666665332         3466667777777777777776664  2321         


Q ss_pred             --HHHHHHHHHHHcCCHHHHHHHHHHhHH
Q 006997          400 --VWSAMINGYAIHGMGDQALNLFYKMQH  426 (622)
Q Consensus       400 --~~~~l~~~~~~~~~~~~a~~~~~~~~~  426 (622)
                        -|...-.+|.+.|+-.+|.++++++..
T Consensus       817 ~DrFeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  817 NDRFEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             hhhHHHHHHHHHHhcchHHHHHHHHHhhh
Confidence              122233466777888888888887765

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.58  E-value=0.075  Score=50.57  Aligned_cols=448  Identities=13%  Similarity=0.069  Sum_probs=231.3

Q ss_pred             hhhcCCchhHHHHHHHHHhCCCCCCccc------HHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHh--h
Q 006997            5 STNNGSFEETLSTYSSMLQTGVHGNSFT------FPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMY--S   76 (622)
Q Consensus         5 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~------~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--~   76 (622)
                      +.++++..+|.++|.+..+. +..++..      -+.+++++. .++.+..........+..  | ...|-.+..++  -
T Consensus        16 Lqkq~~~~esEkifskI~~e-~~~~~f~lkeEvl~grilnAff-l~nld~Me~~l~~l~~~~--~-~s~~l~LF~~L~~Y   90 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDE-KESSPFLLKEEVLGGRILNAFF-LNNLDLMEKQLMELRQQF--G-KSAYLPLFKALVAY   90 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHH-hhcchHHHHHHHHhhHHHHHHH-HhhHHHHHHHHHHHHHhc--C-CchHHHHHHHHHHH
Confidence            45788999999999998775 3333332      334566664 356666666666665543  2 33444454443  4


Q ss_pred             cCCChhHHHHHhccCCCC-----CC-----------CcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHH
Q 006997           77 KCSDFVSSRKVLDEMPVR-----LR-----------SVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVV  140 (622)
Q Consensus        77 ~~~~~~~A~~~~~~~~~~-----~~-----------~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll  140 (622)
                      +.++++.|.+.+......     +|           +...=+..+.++...|++.+++.++++|... +-|....|    
T Consensus        91 ~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~-llkrE~~w----  165 (549)
T PF07079_consen   91 KQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIER-LLKRECEW----  165 (549)
T ss_pred             HhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHH-Hhhhhhcc----
Confidence            678899998887765443     11           1111255667788899999999999998763 12211112    


Q ss_pred             hhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHH
Q 006997          141 SGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCN  220 (622)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  220 (622)
                                             +..+|+.++-++++.--+    ++-+.+...=...|..++..|.+.-..      ++
T Consensus       166 -----------------------~~d~yd~~vlmlsrSYfL----El~e~~s~dl~pdyYemilfY~kki~~------~d  212 (549)
T PF07079_consen  166 -----------------------NSDMYDRAVLMLSRSYFL----ELKESMSSDLYPDYYEMILFYLKKIHA------FD  212 (549)
T ss_pred             -----------------------cHHHHHHHHHHHhHHHHH----HHHHhcccccChHHHHHHHHHHHHHHH------Hh
Confidence                                   555556655555442111    111111111122344555554433111      11


Q ss_pred             HHHHCCCCCCHhHHHHHHHHHhcc--CChHHHHHHHHHHHHhCCCCCch-hHHHHHHHHHhcCCHHHHHHHHhhcC----
Q 006997          221 QMRRMSVTPDLVVFLNLILGCAQV--GNLFLALSMHSLLLKSGYNNEDP-LDNLLVSMYTKCGDLELARRVFDAVL----  293 (622)
Q Consensus       221 ~m~~~~~~p~~~~~~~ll~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~----  293 (622)
                      +-.-..+.|....+..++....-.  ....--.+++......-+.|+.. +...|...+.+  +.+++..+.+.+.    
T Consensus       213 ~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i  290 (549)
T PF07079_consen  213 QRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKI  290 (549)
T ss_pred             hchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhH
Confidence            100111334444444444433322  12233344444444444444433 33444444443  4555555444332    


Q ss_pred             ----CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHH-------HHHHHh-ccCCh---HHHHHHHHHH
Q 006997          294 ----EKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLAT-------TLSACA-ELGSL---SKGKEIEEYI  358 (622)
Q Consensus       294 ----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-------ll~~~~-~~~~~---~~a~~~~~~~  358 (622)
                          +.=+.+|..++....+.++...|.+.+.-+...  .|+...-..       +-+..+ ...+.   ..-..+|+.+
T Consensus       291 ~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l--dp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~  368 (549)
T PF07079_consen  291 EKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL--DPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEI  368 (549)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc--CCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHH
Confidence                223457888888889999999998888876654  333321111       111111 11112   2223344444


Q ss_pred             HHcCCCCchhHHHHHH---HHHHhcCC-hHHHHHHhccCCC---CChhHHHHHH----HHHHH---cCCHHHHHHHHHHh
Q 006997          359 VLNGLESNRQVQTSLI---HMFSKCGR-INKAKEVFERVPD---KDLAVWSAMI----NGYAI---HGMGDQALNLFYKM  424 (622)
Q Consensus       359 ~~~~~~~~~~~~~~l~---~~~~~~~~-~~~A~~~~~~~~~---~~~~~~~~l~----~~~~~---~~~~~~a~~~~~~~  424 (622)
                      ...++.. ......|+   .-+-+.|. -++|..+++.+.+   -|...-|.+.    ..|.+   ...+..-+.+-+-+
T Consensus       369 qs~DiDr-qQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi  447 (549)
T PF07079_consen  369 QSYDIDR-QQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFI  447 (549)
T ss_pred             HhhcccH-HHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            4433221 12222222   23344454 6777777776653   2433333221    22322   12233444444444


Q ss_pred             HHhcCCCCCH----HHHHHHHHH--HhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCC
Q 006997          425 QHVEGLKPDA----VVYTSILSA--CSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPV  498 (622)
Q Consensus       425 ~~~~~~~p~~----~~~~~ll~~--~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  498 (622)
                      .+ .|++|-.    ..-+.+.+|  +...|++.++.-.-.=+.   .+.|++.+|.-+.-++....++++|+.++..+| 
T Consensus       448 ~e-~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~---~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP-  522 (549)
T PF07079_consen  448 TE-VGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLT---KIAPSPQAYRLLGLCLMENKRYQEAWEYLQKLP-  522 (549)
T ss_pred             Hh-cCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHH---HhCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCC-
Confidence            45 6777732    333444443  446788887766544444   468888888888888888888888888888876 


Q ss_pred             CCcHHhHH
Q 006997          499 EVQAQVWA  506 (622)
Q Consensus       499 ~~~~~~~~  506 (622)
                       |+...++
T Consensus       523 -~n~~~~d  529 (549)
T PF07079_consen  523 -PNERMRD  529 (549)
T ss_pred             -CchhhHH
Confidence             3544443

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

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

Probab=97.58  E-value=0.00075  Score=62.68  Aligned_cols=129  Identities=9%  Similarity=0.083  Sum_probs=102.3

Q ss_pred             HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh-cCChHHHHHHHHhCC--CCCcHHhHHHHHHH
Q 006997          435 VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGR-AGRFDLALKTIHEMP--VEVQAQVWAPLLSA  511 (622)
Q Consensus       435 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  511 (622)
                      .+|..+++...+.+..+.|+.+|.++...  -..+..+|...+..-.+ .++.+.|.++|+...  ...+...|...+..
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~--~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKD--KRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            46788889899999999999999999843  23356667666666444 566677999999886  66778889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHccCCCCC---chHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          512 CMKHHNVELGEYAAKNLLTLNPGST---GNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       512 ~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      +...++.+.|..+|++++..-|.+.   ..|..+++.-.+.|+++...++.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999999776544   57889999999999999999999888763

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.

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.58  E-value=0.0097  Score=55.51  Aligned_cols=94  Identities=13%  Similarity=0.093  Sum_probs=57.2

Q ss_pred             HhccCchHHHHHHHHHhHHhcCCCCC-----hhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHH---hHHHHHHHHHhc
Q 006997          444 CSHSGMVDDGLSFFKSMQSNFGIEPS-----IEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQ---VWAPLLSACMKH  515 (622)
Q Consensus       444 ~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~~l~~~~~~~  515 (622)
                      ..+.|++..|.+.|.+.+   ++.|+     ...|.....+..+.|+.++|+.-.+... ..|+.   .+..-..++...
T Consensus       259 ~fk~G~y~~A~E~Yteal---~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al-~iD~syikall~ra~c~l~l  334 (486)
T KOG0550|consen  259 AFKNGNYRKAYECYTEAL---NIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEAL-KIDSSYIKALLRRANCHLAL  334 (486)
T ss_pred             HhhccchhHHHHHHHHhh---cCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhh-hcCHHHHHHHHHHHHHHHHH
Confidence            345677777777777766   44553     4456566666677778888877777765 23322   223333345556


Q ss_pred             CCHHHHHHHHHHHHccCCCCCchHHHH
Q 006997          516 HNVELGEYAAKNLLTLNPGSTGNYILM  542 (622)
Q Consensus       516 ~~~~~a~~~~~~~~~~~p~~~~~~~~l  542 (622)
                      +++++|.+-++++.++... ......+
T Consensus       335 e~~e~AV~d~~~a~q~~~s-~e~r~~l  360 (486)
T KOG0550|consen  335 EKWEEAVEDYEKAMQLEKD-CEIRRTL  360 (486)
T ss_pred             HHHHHHHHHHHHHHhhccc-cchHHHH
Confidence            7778888888887776553 3343333

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.57  E-value=0.00012  Score=45.60  Aligned_cols=42  Identities=19%  Similarity=0.321  Sum_probs=38.3

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHH
Q 006997          503 QVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMAN  544 (622)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  544 (622)
                      .+|..+..++...|++++|+++++++++.+|+++.++..++.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            467889999999999999999999999999999999988875

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.56  E-value=0.00063  Score=63.29  Aligned_cols=63  Identities=11%  Similarity=0.074  Sum_probs=52.8

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          502 AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       502 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ..+++.+..++.+.+++..|++...++++++|+|...++.-+.+|...|+++.|+..|+++++
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k  319 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALK  319 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHH
Confidence            445667777888888888888888888888888888888888888888888888888888876

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.55  E-value=0.00065  Score=62.81  Aligned_cols=130  Identities=18%  Similarity=0.131  Sum_probs=92.1

Q ss_pred             HHHHHHHHHHhccCchHHHHHHHHHh---HHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--------CCCcH
Q 006997          435 VVYTSILSACSHSGMVDDGLSFFKSM---QSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--------VEVQA  502 (622)
Q Consensus       435 ~~~~~ll~~~~~~g~~~~a~~~~~~~---~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~~  502 (622)
                      ..|..+.+.|.-.|+++.|+...+.-   .+.+|-.. ....+..+.+++.-.|+++.|.+.++...        .....
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            34666666677788899988876642   22333222 24567778888888999999999887642        22234


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHcc----C--CCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          503 QVWAPLLSACMKHHNVELGEYAAKNLLTL----N--PGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ..-.+|..+|.-..+++.|+.++++=+.+    +  .....++..|+.+|...|.-++|+.+.++-.+
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            45567888888888899999888875542    2  23566888999999999999999887765543

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.55  E-value=0.013  Score=52.93  Aligned_cols=56  Identities=13%  Similarity=0.108  Sum_probs=47.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHccCCCCC---chHHHHHHHHHhcCChHHHHHHHHHhh
Q 006997          508 LLSACMKHHNVELGEYAAKNLLTLNPGST---GNYILMANLFTSAGMWKEAATARGLMD  563 (622)
Q Consensus       508 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (622)
                      ...-|.+.|.+..|..-++.+++..|+.+   ++...++.+|.+.|..++|.++.+.+.
T Consensus       181 ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        181 VAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            44567889999999999999999888754   467788899999999999999887664

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.54  E-value=0.0031  Score=51.15  Aligned_cols=89  Identities=8%  Similarity=-0.005  Sum_probs=50.0

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH-HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHH
Q 006997          403 AMINGYAIHGMGDQALNLFYKMQHVEGLKPDA-VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLL  480 (622)
Q Consensus       403 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~  480 (622)
                      .+...+...|++++|.++|+....   +.|.. .-|..|.-+|...|++.+|+..|.....   +.| ++..+-.+..++
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~---~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~---L~~ddp~~~~~ag~c~  113 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTI---YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQ---IKIDAPQAPWAAAECY  113 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHh---cCCCCchHHHHHHHHH
Confidence            334445556666666666666655   55543 3445555555566666666666666553   233 345555556666


Q ss_pred             HhcCChHHHHHHHHhCC
Q 006997          481 GRAGRFDLALKTIHEMP  497 (622)
Q Consensus       481 ~~~g~~~~A~~~~~~~~  497 (622)
                      ...|+.+.|.+.|+...
T Consensus       114 L~lG~~~~A~~aF~~Ai  130 (157)
T PRK15363        114 LACDNVCYAIKALKAVV  130 (157)
T ss_pred             HHcCCHHHHHHHHHHHH
Confidence            66666666666655543

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.54  E-value=0.12  Score=51.83  Aligned_cols=194  Identities=13%  Similarity=0.090  Sum_probs=103.1

Q ss_pred             ChhHHHHHhccCCCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHc-CCCCChhhHHHHHhhhhhhhhHHHHHHHHHh
Q 006997           80 DFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVL-GLELSASTFVSVVSGCSFRQGISMHCCVYKL  158 (622)
Q Consensus        80 ~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~-~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~  158 (622)
                      ..++|.+..+.    .|.+..|..+.......-.++-|...|-+.... |++.    .         ..-..++.+-.  
T Consensus       678 gledA~qfiEd----nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~----v---------krl~~i~s~~~--  738 (1189)
T KOG2041|consen  678 GLEDAIQFIED----NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKL----V---------KRLRTIHSKEQ--  738 (1189)
T ss_pred             chHHHHHHHhc----CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhH----H---------HHhhhhhhHHH--
Confidence            35666665554    566778888877777666777777766554332 2221    0         00001111110  


Q ss_pred             CCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCC----HhHH
Q 006997          159 GLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPD----LVVF  234 (622)
Q Consensus       159 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~  234 (622)
                               -.+=+.+  --|++++|++++-.+-++|..     |..+.+.|++-.+.++++.   .|-..|    ...+
T Consensus       739 ---------q~aei~~--~~g~feeaek~yld~drrDLA-----ielr~klgDwfrV~qL~r~---g~~d~dD~~~e~A~  799 (1189)
T KOG2041|consen  739 ---------QRAEISA--FYGEFEEAEKLYLDADRRDLA-----IELRKKLGDWFRVYQLIRN---GGSDDDDEGKEDAF  799 (1189)
T ss_pred             ---------HhHhHhh--hhcchhHhhhhhhccchhhhh-----HHHHHhhhhHHHHHHHHHc---cCCCcchHHHHHHH
Confidence                     0111222  237788888888777666542     4555666666666555542   111111    2356


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChH
Q 006997          235 LNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPS  314 (622)
Q Consensus       235 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  314 (622)
                      +.+...++....++.|.+.|..-...         ...+.++.+..++++-+.+-+.+++. ......+...+...|.-+
T Consensus       800 r~ig~~fa~~~~We~A~~yY~~~~~~---------e~~~ecly~le~f~~LE~la~~Lpe~-s~llp~~a~mf~svGMC~  869 (1189)
T KOG2041|consen  800 RNIGETFAEMMEWEEAAKYYSYCGDT---------ENQIECLYRLELFGELEVLARTLPED-SELLPVMADMFTSVGMCD  869 (1189)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccch---------HhHHHHHHHHHhhhhHHHHHHhcCcc-cchHHHHHHHHHhhchHH
Confidence            66666677777777777776553221         23455566666666655555555443 233444555566666666


Q ss_pred             HHHHHHH
Q 006997          315 EAVNLFK  321 (622)
Q Consensus       315 ~a~~~~~  321 (622)
                      +|.+.|-
T Consensus       870 qAV~a~L  876 (1189)
T KOG2041|consen  870 QAVEAYL  876 (1189)
T ss_pred             HHHHHHH
Confidence            6655543

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.50  E-value=0.005  Score=53.64  Aligned_cols=134  Identities=12%  Similarity=-0.013  Sum_probs=95.3

Q ss_pred             HHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--------CCCcHHhHHHH
Q 006997          437 YTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--------VEVQAQVWAPL  508 (622)
Q Consensus       437 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~~~~~~~l  508 (622)
                      .+.++.+..-.|.+.-....+++..++ .-+.++.....|++.-.+.|+.+.|...|++..        ...........
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~-~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKY-YPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHh-CCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            445556666666777777777777654 334456666777777777777777777777442        12223334444


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCccCC
Q 006997          509 LSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEP  571 (622)
Q Consensus       509 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  571 (622)
                      ...+.-++|+..|...+.++++.+|.++...+.-+-++.-.|+..+|.+.++.|....+.+..
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~l  321 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHYL  321 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccch
Confidence            455667788999999999999999999988888888888899999999999999886654433

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.50  E-value=0.00033  Score=49.90  Aligned_cols=66  Identities=12%  Similarity=0.166  Sum_probs=53.2

Q ss_pred             HHHHHhcCChHHHHHHHHhCC-C-CCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHH
Q 006997          477 VDLLGRAGRFDLALKTIHEMP-V-EVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILM  542 (622)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  542 (622)
                      -..|.+.+++++|+++++++. . +.++..|...+..+...|++++|.+.++++++..|+++......
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~~~   69 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARALR   69 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHHHH
Confidence            356788889999999998886 3 44566788888889999999999999999999999776655443

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

Probab=97.44  E-value=0.0018  Score=48.52  Aligned_cols=79  Identities=15%  Similarity=0.188  Sum_probs=65.2

Q ss_pred             HHHHHHHHcCCChhHHHHHHHHHHHCCC-CCCHhHHHHHHHHHhccC--------ChHHHHHHHHHHHHhCCCCCchhHH
Q 006997          200 TTIIGGYVNVGNVNEAFGLCNQMRRMSV-TPDLVVFLNLILGCAQVG--------NLFLALSMHSLLLKSGYNNEDPLDN  270 (622)
Q Consensus       200 ~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~  270 (622)
                      -..|..+...+++.....+|+.++..|+ .|+..+|+.++.+.++..        ..-..+.+|+.|+..+++|+..+|+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            3455666667999999999999999999 899999999999887653        2445778899999999999999999


Q ss_pred             HHHHHHHh
Q 006997          271 LLVSMYTK  278 (622)
Q Consensus       271 ~l~~~~~~  278 (622)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            99887765

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

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

Probab=97.38  E-value=0.0032  Score=47.23  Aligned_cols=81  Identities=15%  Similarity=0.112  Sum_probs=66.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHhccC--------ChHHHHHHHHHHHHcCCCCchhH
Q 006997          299 LWTSMIGGYAQLGYPSEAVNLFKRLLKTSV-RPNEATLATTLSACAELG--------SLSKGKEIEEYIVLNGLESNRQV  369 (622)
Q Consensus       299 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~  369 (622)
                      +....|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        +......+++.+...+++|+..+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            344566677777999999999999999999 999999999999876543        24456778899999999999999


Q ss_pred             HHHHHHHHHh
Q 006997          370 QTSLIHMFSK  379 (622)
Q Consensus       370 ~~~l~~~~~~  379 (622)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9998887664

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 [, , ].

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

Probab=97.37  E-value=0.0023  Score=61.80  Aligned_cols=118  Identities=10%  Similarity=-0.033  Sum_probs=88.4

Q ss_pred             CCCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhc--CCCCchhHHHHHHHhhcCCChhHHHHHhccCCCC--CCCcch
Q 006997           25 GVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVG--FQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVR--LRSVVS  100 (622)
Q Consensus        25 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~  100 (622)
                      +.+.++.....+++.+....+++.+..++-..+...  ...-+.+..++|+.|.+.|..+.++.++..=..-  -||..+
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            445566677888888888888888888887777652  3334556678888888888888888888765443  688888


Q ss_pred             HHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhh
Q 006997          101 WNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSG  142 (622)
Q Consensus       101 ~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~  142 (622)
                      +|.||..+.+.|++..|.++...|...+...+..|+.-.+.+
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~  182 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYS  182 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHH
Confidence            888888888888888888888888877766666666444433

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 [].

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.36  E-value=0.0027  Score=59.26  Aligned_cols=96  Identities=11%  Similarity=0.069  Sum_probs=83.1

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHH
Q 006997          470 IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFT  547 (622)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (622)
                      ..++..+.-+|.+.+++.+|+...++..  .+++...+-.=+.++...|+++.|+..|+++++++|+|..+...++.+-.
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~  336 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQ  336 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            3567778899999999999999999887  56678888888899999999999999999999999999999999999888


Q ss_pred             hcCChHHH-HHHHHHhhhC
Q 006997          548 SAGMWKEA-ATARGLMDDR  565 (622)
Q Consensus       548 ~~g~~~~A-~~~~~~~~~~  565 (622)
                      +...+.+. .+.|..|-.+
T Consensus       337 k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  337 KIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHHhhc
Confidence            87665554 7889988753

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.36  E-value=0.0032  Score=57.31  Aligned_cols=99  Identities=14%  Similarity=0.137  Sum_probs=67.0

Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc----HHhHH
Q 006997          436 VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS----IEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ----AQVWA  506 (622)
Q Consensus       436 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~  506 (622)
                      .|........+.|++++|...|+.+...   .|+    +..+..+...|...|++++|...|+++. ..|+    ...+.
T Consensus       145 ~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        145 DYNAAIALVQDKSRQDDAIVAFQNFVKK---YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMF  221 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH---CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHH
Confidence            3444444445557777777777777755   343    2455567777777777777777777764 2222    45566


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHccCCCCCc
Q 006997          507 PLLSACMKHHNVELGEYAAKNLLTLNPGSTG  537 (622)
Q Consensus       507 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  537 (622)
                      .++..+...|+.+.|...|+++++..|++..
T Consensus       222 klg~~~~~~g~~~~A~~~~~~vi~~yP~s~~  252 (263)
T PRK10803        222 KVGVIMQDKGDTAKAKAVYQQVIKKYPGTDG  252 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCcCCHH
Confidence            6677777889999999999999998886543

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.33  E-value=0.11  Score=46.93  Aligned_cols=67  Identities=9%  Similarity=-0.108  Sum_probs=40.9

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH--HHHHHHHHHhccCChHHHHHHHHHHHHcC
Q 006997          296 SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEA--TLATTLSACAELGSLSKGKEIEEYIVLNG  362 (622)
Q Consensus       296 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  362 (622)
                      +...+-.....+...|++++|.+.|+++...-..+...  ....+..++.+.++++.|...++...+..
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~   99 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN   99 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            33333344555566788888888888877753222111  11345566677788888888887777664

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

Probab=97.32  E-value=0.16  Score=48.33  Aligned_cols=134  Identities=14%  Similarity=0.104  Sum_probs=106.3

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcC-CCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHH-H
Q 006997          397 DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEG-LKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHY-L  474 (622)
Q Consensus       397 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-~  474 (622)
                      =...|...+..-.+..-.+.|..+|-+..+ .+ +.++...++.++.-++. |+..-|..+|+.-...   .||...| .
T Consensus       396 ~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk-~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~---f~d~~~y~~  470 (660)
T COG5107         396 LTFVFCVHLNYVLRKRGLEAARKLFIKLRK-EGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK---FPDSTLYKE  470 (660)
T ss_pred             hhhHHHHHHHHHHHHhhHHHHHHHHHHHhc-cCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh---CCCchHHHH
Confidence            345677788888888888999999999998 77 66778888888887664 7888999999887644   4565555 3


Q ss_pred             HHHHHHHhcCChHHHHHHHHhCC--CCCc--HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC
Q 006997          475 CLVDLLGRAGRFDLALKTIHEMP--VEVQ--AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS  535 (622)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~~--~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  535 (622)
                      ..+.-+.+-++-+.|..+|+...  ...+  ...|..++..-...|+...+..+-++..++.|..
T Consensus       471 kyl~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQe  535 (660)
T COG5107         471 KYLLFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQE  535 (660)
T ss_pred             HHHHHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcH
Confidence            56777888999999999999664  2223  5678888888889999999999999999998864

>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=97.29  E-value=0.00033  Score=50.68  Aligned_cols=63  Identities=11%  Similarity=0.054  Sum_probs=49.7

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHcc----CCC---CCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          502 AQVWAPLLSACMKHHNVELGEYAAKNLLTL----NPG---STGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       502 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~p~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ..+++.+...+...|++++|+..+++++++    .++   -..++..++.+|...|++++|++.+++..+
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            346778888888999999999999988763    222   245788999999999999999999998754

...

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

Probab=97.27  E-value=0.0035  Score=60.60  Aligned_cols=74  Identities=15%  Similarity=0.233  Sum_probs=45.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHH
Q 006997          299 LWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTS  372 (622)
Q Consensus       299 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  372 (622)
                      +..++++.|...|..+.++.+++.=...|+-||..+++.||..+.+.|++..|.++...|...+...++.++..
T Consensus       105 t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L  178 (429)
T PF10037_consen  105 THHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQAL  178 (429)
T ss_pred             cHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHH
Confidence            33466666666666666666666666666666666666666666666666666666666655544444444333

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 [].

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.19  E-value=0.011  Score=46.14  Aligned_cols=103  Identities=19%  Similarity=0.201  Sum_probs=61.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCC--CchhHHHHHHHHHH
Q 006997          303 MIGGYAQLGYPSEAVNLFKRLLKTSVRPN--EATLATTLSACAELGSLSKGKEIEEYIVLNGLE--SNRQVQTSLIHMFS  378 (622)
Q Consensus       303 l~~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~  378 (622)
                      +..++-..|+.++|+.+|++....|....  ...+..+...+...|++++|..+++........  .+......+..++.
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            45566777888888888888888776544  234556666777788888888888777654211  12222222334555


Q ss_pred             hcCChHHHHHHhccCCCCChhHHHHHH
Q 006997          379 KCGRINKAKEVFERVPDKDLAVWSAMI  405 (622)
Q Consensus       379 ~~~~~~~A~~~~~~~~~~~~~~~~~l~  405 (622)
                      ..|+.++|.+.+-....++...|.--|
T Consensus        87 ~~gr~~eAl~~~l~~la~~~~~y~ra~  113 (120)
T PF12688_consen   87 NLGRPKEALEWLLEALAETLPRYRRAI  113 (120)
T ss_pred             HCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666666666666544333333333333

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.15  E-value=0.039  Score=48.33  Aligned_cols=136  Identities=10%  Similarity=0.039  Sum_probs=96.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCC-----chhHHHHH
Q 006997          299 LWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLES-----NRQVQTSL  373 (622)
Q Consensus       299 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-----~~~~~~~l  373 (622)
                      ..+.++..+...|.+.-....+++.++...+.++.....+.+.-.+.|+.+.|..+|+...+..-..     ...+....
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~  258 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            3455666777778888888889998887766778888888888889999999999998776543233     33333334


Q ss_pred             HHHHHhcCChHHHHHHhccCCCC---ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHH
Q 006997          374 IHMFSKCGRINKAKEVFERVPDK---DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVY  437 (622)
Q Consensus       374 ~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~  437 (622)
                      ...|.-.+++..|...|.++...   |+...|.-.-+....|+..+|++..+.|.+   ..|...+-
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~---~~P~~~l~  322 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQ---QDPRHYLH  322 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhc---cCCccchh
Confidence            44566677888888888777743   444555555555667888888888888887   56655443

>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=97.08  E-value=0.0053  Score=52.35  Aligned_cols=98  Identities=12%  Similarity=0.234  Sum_probs=77.2

Q ss_pred             HHHHHhhc--CCCCcchHHHHHHHHHcC-----CChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccC-----------
Q 006997          184 ARSIFDEI--GETSIVSWTTIIGGYVNV-----GNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVG-----------  245 (622)
Q Consensus       184 A~~~~~~~--~~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-----------  245 (622)
                      -...|+..  ..++-.+|..++..|.+.     |..+-....+..|.+-|+.-|..+|+.||+.+=+..           
T Consensus        33 ~~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F  112 (228)
T PF06239_consen   33 HEELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEF  112 (228)
T ss_pred             hHHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHh
Confidence            34556665  446778888888887754     677778888999999999999999999999876521           


Q ss_pred             -----ChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCC
Q 006997          246 -----NLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGD  281 (622)
Q Consensus       246 -----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  281 (622)
                           +-+-|.+++++|...|+-||..++..|++.+++.+.
T Consensus       113 ~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  113 MHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             ccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence                 346688899999999999999999988888876654

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

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=97.07  E-value=0.0043  Score=47.62  Aligned_cols=92  Identities=16%  Similarity=0.044  Sum_probs=74.9

Q ss_pred             HHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCC----chHHHHHHHHHhcCC
Q 006997          478 DLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGST----GNYILMANLFTSAGM  551 (622)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~----~~~~~l~~~~~~~g~  551 (622)
                      -++...|+.+.|++.|.+..  .+.....||.-..+++-+|+.++|..-+++++++.-+..    ..|...+.+|...|+
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            35677889999999998876  445677899999999999999999999999999754322    357788899999999


Q ss_pred             hHHHHHHHHHhhhCCCcc
Q 006997          552 WKEAATARGLMDDRRLTK  569 (622)
Q Consensus       552 ~~~A~~~~~~~~~~~~~~  569 (622)
                      .++|..-|+..-+-|.++
T Consensus       131 dd~AR~DFe~AA~LGS~F  148 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGSKF  148 (175)
T ss_pred             hHHHHHhHHHHHHhCCHH
Confidence            999999999887766543

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.06  E-value=0.033  Score=49.03  Aligned_cols=50  Identities=12%  Similarity=0.138  Sum_probs=38.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHccCCCCCc---hHHHHHHHHHhcCChHHHHH
Q 006997          508 LLSACMKHHNVELGEYAAKNLLTLNPGSTG---NYILMANLFTSAGMWKEAAT  557 (622)
Q Consensus       508 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~A~~  557 (622)
                      ++..|.+.|.+..|..-++.+++..|+.+.   +...++..|.+.|..+.|..
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~~  199 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAADT  199 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHHH
Confidence            455678899999999999999999997553   56778889999999885543

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=97.05  E-value=0.0085  Score=49.64  Aligned_cols=62  Identities=18%  Similarity=0.168  Sum_probs=53.9

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          503 QVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      .....++..+...|+++.|...+++++..+|-+...|..++.+|...|+..+|.++|+++.+
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~  124 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRR  124 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            35566777888999999999999999999999999999999999999999999999998865

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.03  E-value=0.034  Score=51.96  Aligned_cols=154  Identities=13%  Similarity=0.039  Sum_probs=89.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHh----HHhcCCCC-CHHHHHHHHHHHhccCchHHHHHHHHHhHHh---cC-CCCCh
Q 006997          400 VWSAMINGYAIHGMGDQALNLFYKM----QHVEGLKP-DAVVYTSILSACSHSGMVDDGLSFFKSMQSN---FG-IEPSI  470 (622)
Q Consensus       400 ~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~---~~-~~p~~  470 (622)
                      .|..+...|.-.|+++.|+..-+.-    ++ .|-+. ....+..+.+++.-.|+++.|.+.|+....-   .| -....
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~e-fGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQE-FGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHH-hhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            3444444555566676666544332    12 22222 1345667777777788888888877764321   01 11223


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCC--------CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHcc-----CCC-CC
Q 006997          471 EHYLCLVDLLGRAGRFDLALKTIHEMP--------VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTL-----NPG-ST  536 (622)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~p~-~~  536 (622)
                      .+..+|.+.|.-...+++|+.++.+-.        .-.....+-+|..++...|..++|+...++.+++     +|. ..
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~s~ev~D~sgel  355 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRSSLEVNDTSGEL  355 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhCCcchhh
Confidence            444567777777777888888776542        1223445567888888888888888887776652     221 23


Q ss_pred             chHHHHHHHHHhcCChHH
Q 006997          537 GNYILMANLFTSAGMWKE  554 (622)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~  554 (622)
                      +....+.+.-...|..+.
T Consensus       356 Tar~Nlsdl~~~lG~~ds  373 (639)
T KOG1130|consen  356 TARDNLSDLILELGQEDS  373 (639)
T ss_pred             hhhhhhHHHHHHhCCCcc
Confidence            345566666666665443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.01  E-value=0.14  Score=48.77  Aligned_cols=35  Identities=26%  Similarity=0.186  Sum_probs=28.7

Q ss_pred             cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC
Q 006997          501 QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS  535 (622)
Q Consensus       501 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  535 (622)
                      +--.+.+++.++.-.||.++|.+.+++++.+.|..
T Consensus       304 dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~  338 (374)
T PF13281_consen  304 DYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPA  338 (374)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcc
Confidence            33345678889999999999999999999998743

>PRK11906 transcriptional regulator; Provisional

Probab=96.99  E-value=0.012  Score=56.70  Aligned_cols=144  Identities=10%  Similarity=0.103  Sum_probs=80.8

Q ss_pred             CHHHHHHHHHHhHHhcCCCCCH-HHHHHHHHHHhcc---------CchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHH
Q 006997          413 MGDQALNLFYKMQHVEGLKPDA-VVYTSILSACSHS---------GMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLG  481 (622)
Q Consensus       413 ~~~~a~~~~~~~~~~~~~~p~~-~~~~~ll~~~~~~---------g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~  481 (622)
                      ..+.|+.+|.+......+.|+. ..|..+..++...         .+..+|.+.-++..+   +.| |+.....+..++.
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAve---ld~~Da~a~~~~g~~~~  349 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSD---ITTVDGKILAIMGLITG  349 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh---cCCCCHHHHHHHHHHHH
Confidence            3467788888887323377763 4555555554321         223345555555552   333 4555555556666


Q ss_pred             hcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHH--HHHHHHHhcCChHHHHH
Q 006997          482 RAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYI--LMANLFTSAGMWKEAAT  557 (622)
Q Consensus       482 ~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~--~l~~~~~~~g~~~~A~~  557 (622)
                      -.|+++.|..+|++.. ..|+ ..+|......+.-.|+.++|.+.++++++++|....+-.  ..+++|+.. ..++|..
T Consensus       350 ~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~-~~~~~~~  428 (458)
T PRK11906        350 LSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPN-PLKNNIK  428 (458)
T ss_pred             hhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCC-chhhhHH
Confidence            6666777777777665 3444 455666666666677777777777777777775433322  223334433 3455555


Q ss_pred             HHH
Q 006997          558 ARG  560 (622)
Q Consensus       558 ~~~  560 (622)
                      +|-
T Consensus       429 ~~~  431 (458)
T PRK11906        429 LYY  431 (458)
T ss_pred             HHh
Confidence            554

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.97  E-value=0.019  Score=45.80  Aligned_cols=91  Identities=15%  Similarity=0.130  Sum_probs=63.8

Q ss_pred             HHHHHhcCChHHHHHHHHhCC----CCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCc---hHHHHHHHHHh
Q 006997          477 VDLLGRAGRFDLALKTIHEMP----VEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTG---NYILMANLFTS  548 (622)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~~----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~  548 (622)
                      .....+.|++++|.+.|+.+.    ..| ....-..|+.++.+.+++++|...+++.+++.|.++.   ++...|-++.+
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~   96 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYE   96 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHH
Confidence            344456677777777777764    111 2344556788888999999999999999999988765   45566666666


Q ss_pred             cCC---------------hHHHHHHHHHhhhCCC
Q 006997          549 AGM---------------WKEAATARGLMDDRRL  567 (622)
Q Consensus       549 ~g~---------------~~~A~~~~~~~~~~~~  567 (622)
                      +..               ..+|...|++++++-+
T Consensus        97 ~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~~yP  130 (142)
T PF13512_consen   97 QDEGSLQSFFRSDRDPTPARQAFRDFEQLVRRYP  130 (142)
T ss_pred             HhhhHHhhhcccccCcHHHHHHHHHHHHHHHHCc
Confidence            655               6778888887776433

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.95  E-value=0.073  Score=52.82  Aligned_cols=217  Identities=16%  Similarity=0.149  Sum_probs=111.9

Q ss_pred             HHHHHHHhcCC--hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh
Q 006997          302 SMIGGYAQLGY--PSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSK  379 (622)
Q Consensus       302 ~l~~~~~~~~~--~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  379 (622)
                      ..-.+|.+..+  +-+.+.-++++++.|-.|+....   ...|+-.|++.+|.++|.+-   |.+      +..+.+|..
T Consensus       603 ~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~iLl---A~~~Ay~gKF~EAAklFk~~---G~e------nRAlEmyTD  670 (1081)
T KOG1538|consen  603 TARKAYIRVRDLRYLELISELEERKKRGETPNDLLL---ADVFAYQGKFHEAAKLFKRS---GHE------NRALEMYTD  670 (1081)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHHHH---HHHHHhhhhHHHHHHHHHHc---Cch------hhHHHHHHH
Confidence            33345554443  34556667788888877887643   44566678888888887643   322      344556666


Q ss_pred             cCChHHHHHHhccCCCC--------------ChhHHHHHHHHHHHcCCHHHHHHHHHH------hHHhcCCC---CCHHH
Q 006997          380 CGRINKAKEVFERVPDK--------------DLAVWSAMINGYAIHGMGDQALNLFYK------MQHVEGLK---PDAVV  436 (622)
Q Consensus       380 ~~~~~~A~~~~~~~~~~--------------~~~~~~~l~~~~~~~~~~~~a~~~~~~------~~~~~~~~---p~~~~  436 (622)
                      ...++.|.+++......              ++.--.+....+...|+.++|..+.-+      +.+ -+-+   .+..+
T Consensus       671 lRMFD~aQE~~~~g~~~eKKmL~RKRA~WAr~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lid-I~rkld~~ere~  749 (1081)
T KOG1538|consen  671 LRMFDYAQEFLGSGDPKEKKMLIRKRADWARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLID-IARKLDKAEREP  749 (1081)
T ss_pred             HHHHHHHHHHhhcCChHHHHHHHHHHHHHhhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHH-HHhhcchhhhhH
Confidence            66666666666543210              111111222333444554444433211      011 1111   12233


Q ss_pred             HHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCcHHhHHHHHHHHHhc
Q 006997          437 YTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQAQVWAPLLSACMKH  515 (622)
Q Consensus       437 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~  515 (622)
                      ...+..-+-+...+..|.++|.+|-.          ...+++.....++|++|..+-++.+ ..|+  .|....+-....
T Consensus       750 l~~~a~ylk~l~~~gLAaeIF~k~gD----------~ksiVqlHve~~~W~eAFalAe~hPe~~~d--Vy~pyaqwLAE~  817 (1081)
T KOG1538|consen  750 LLLCATYLKKLDSPGLAAEIFLKMGD----------LKSLVQLHVETQRWDEAFALAEKHPEFKDD--VYMPYAQWLAEN  817 (1081)
T ss_pred             HHHHHHHHhhccccchHHHHHHHhcc----------HHHHhhheeecccchHhHhhhhhCcccccc--ccchHHHHhhhh
Confidence            33333334444455555555554431          1235556666667777766666665 2232  233344444455


Q ss_pred             CCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          516 HNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       516 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      .++++|.+                     +|-+.|+..||..+++++..
T Consensus       818 DrFeEAqk---------------------AfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  818 DRFEEAQK---------------------AFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             hhHHHHHH---------------------HHHHhcchHHHHHHHHHhhh
Confidence            55555544                     44566777778777777754

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.89  E-value=0.056  Score=48.85  Aligned_cols=104  Identities=17%  Similarity=0.092  Sum_probs=79.2

Q ss_pred             CCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcC---ChHHHHHHHHhCC-CCC-cHHhHH
Q 006997          432 PDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAG---RFDLALKTIHEMP-VEV-QAQVWA  506 (622)
Q Consensus       432 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~-~~~-~~~~~~  506 (622)
                      -|...|..|..+|...|+.+.|...|....+-  -.+++..+..+..++..+.   ...++.++|+++. .+| ++.+..
T Consensus       154 ~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL--~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~  231 (287)
T COG4235         154 GDAEGWDLLGRAYMALGRASDALLAYRNALRL--AGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALS  231 (287)
T ss_pred             CCchhHHHHHHHHHHhcchhHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHH
Confidence            35678888999999999999999999888743  1335667777777665432   4678888998887 344 466677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHccCCCCCc
Q 006997          507 PLLSACMKHHNVELGEYAAKNLLTLNPGSTG  537 (622)
Q Consensus       507 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  537 (622)
                      -|...+...|++.+|...++.++...|.+..
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCCCCCc
Confidence            7778888999999999999999998875443

>PRK11906 transcriptional regulator; Provisional

Probab=96.84  E-value=0.063  Score=51.84  Aligned_cols=81  Identities=10%  Similarity=-0.035  Sum_probs=54.5

Q ss_pred             hHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 006997          486 FDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMD  563 (622)
Q Consensus       486 ~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (622)
                      ..+|.++.++..  .+.|+.....++.+....++++.|...|++++.++|+.+.+|...+++..-.|+.++|.+.+++..
T Consensus       320 ~~~a~~~A~rAveld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~al  399 (458)
T PRK11906        320 AQKALELLDYVSDITTVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSL  399 (458)
T ss_pred             HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            445555655554  344555566666666666667777777777777777777777777777777777777777777755


Q ss_pred             hCC
Q 006997          564 DRR  566 (622)
Q Consensus       564 ~~~  566 (622)
                      +..
T Consensus       400 rLs  402 (458)
T PRK11906        400 QLE  402 (458)
T ss_pred             ccC
Confidence            433

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.83  E-value=0.23  Score=43.29  Aligned_cols=87  Identities=11%  Similarity=0.089  Sum_probs=47.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC-------CCCcH-HhHHHHHHHHHhcCCHHHHHHHHHHHHc----cCCCCCchH
Q 006997          472 HYLCLVDLLGRAGRFDLALKTIHEMP-------VEVQA-QVWAPLLSACMKHHNVELGEYAAKNLLT----LNPGSTGNY  539 (622)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~p~~~~~~  539 (622)
                      .+....+.|.+..++++|-..+.+-.       .-++. ..+.+.+-.+....|+..|+..++.-.+    ..|++..+.
T Consensus       152 l~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~l  231 (308)
T KOG1585|consen  152 LYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSL  231 (308)
T ss_pred             HHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHH
Confidence            34444555666666666655554432       11221 2234444455556677777777777544    345555566


Q ss_pred             HHHHHHHHhcCChHHHHHHH
Q 006997          540 ILMANLFTSAGMWKEAATAR  559 (622)
Q Consensus       540 ~~l~~~~~~~g~~~~A~~~~  559 (622)
                      ..|...| ..|+.+++.++.
T Consensus       232 enLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  232 ENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHh-ccCCHHHHHHHH
Confidence            6665554 456666666554

>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=96.79  E-value=0.02  Score=48.91  Aligned_cols=97  Identities=12%  Similarity=0.174  Sum_probs=73.5

Q ss_pred             HHHHhhc--CCCCHHHHHHHHHHHHh-----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc-------------
Q 006997          286 RRVFDAV--LEKSVFLWTSMIGGYAQ-----LGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAEL-------------  345 (622)
Q Consensus       286 ~~~~~~~--~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~-------------  345 (622)
                      ...|+..  ..++-.+|..++..|.+     .|..+=....++.|.+-|+.-|..+|+.|+..+-+.             
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            3445554  45566777777777764     467777888888899999999999999999887542             


Q ss_pred             ---CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCC
Q 006997          346 ---GSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGR  382 (622)
Q Consensus       346 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  382 (622)
                         .+-+.|.+++++|...|+-||..++..+++.+++.+.
T Consensus       114 hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence               2356788889999999999999998888888876554

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

>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=96.77  E-value=0.0045  Score=44.64  Aligned_cols=60  Identities=18%  Similarity=0.164  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC-----C---CCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHcc
Q 006997          472 HYLCLVDLLGRAGRFDLALKTIHEMP-----V---EVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTL  531 (622)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~-----~---~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  531 (622)
                      +++.+...|...|++++|++.+++..     .   .|+ ..++..++.++...|++++|++.+++++++
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            34444555555555555555554432     1   122 445667777777788888888888777653

...

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.75  E-value=0.89  Score=47.16  Aligned_cols=52  Identities=15%  Similarity=0.332  Sum_probs=36.0

Q ss_pred             HHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHH
Q 006997          372 SLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYK  423 (622)
Q Consensus       372 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  423 (622)
                      -++..+.+..+++.+..+.+...+.++..|..++..+++.+..+.-.+...+
T Consensus       710 dl~~~~~q~~d~E~~it~~~~~g~~~p~l~~~~L~yF~~~~~i~~~~~~v~~  761 (933)
T KOG2114|consen  710 DLMLYFQQISDPETVITLCERLGKEDPSLWLHALKYFVSEESIEDCYEIVYK  761 (933)
T ss_pred             HHHHHHHHhhChHHHHHHHHHhCccChHHHHHHHHHHhhhcchhhHHHHHHH
Confidence            4566667777777887777777777788888888888877755544443333

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.72  E-value=0.01  Score=52.76  Aligned_cols=84  Identities=15%  Similarity=0.162  Sum_probs=55.0

Q ss_pred             hcCChHHHHHHHHhCC-------CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC---CchHHHHHHHHHhcCC
Q 006997          482 RAGRFDLALKTIHEMP-------VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS---TGNYILMANLFTSAGM  551 (622)
Q Consensus       482 ~~g~~~~A~~~~~~~~-------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~  551 (622)
                      +.|++.+|.+-|....       ..|+..-|  |+.++...|++++|...|..+.+-.|++   |+.+.-|+.+..+.|+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yW--LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~  230 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYW--LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGN  230 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHH--HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcC
Confidence            4444555555555442       23344444  6667777777777777777777765543   4567777778888888


Q ss_pred             hHHHHHHHHHhhhCCC
Q 006997          552 WKEAATARGLMDDRRL  567 (622)
Q Consensus       552 ~~~A~~~~~~~~~~~~  567 (622)
                      .++|..+|+++.++-+
T Consensus       231 ~d~A~atl~qv~k~YP  246 (262)
T COG1729         231 TDEACATLQQVIKRYP  246 (262)
T ss_pred             HHHHHHHHHHHHHHCC
Confidence            8888888887776543

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.71  E-value=0.38  Score=42.37  Aligned_cols=59  Identities=17%  Similarity=0.069  Sum_probs=33.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHhccCChHHHHHHHHHHHHc
Q 006997          303 MIGGYAQLGYPSEAVNLFKRLLKTSVR--PNEATLATTLSACAELGSLSKGKEIEEYIVLN  361 (622)
Q Consensus       303 l~~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  361 (622)
                      ....+...|++.+|...|+++......  --......++.++.+.|+++.|...++...+.
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            344556667777777777777654211  11233445556666677777777777666654

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.66  E-value=0.66  Score=44.51  Aligned_cols=190  Identities=15%  Similarity=0.087  Sum_probs=105.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHhccCC--CCChhH-------HHHHHHHHH----HcCCHHHHHHHHHHhHHhcCCCCCH
Q 006997          368 QVQTSLIHMFSKCGRINKAKEVFERVP--DKDLAV-------WSAMINGYA----IHGMGDQALNLFYKMQHVEGLKPDA  434 (622)
Q Consensus       368 ~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~-------~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~p~~  434 (622)
                      ..+..++....+.++...|.+.+.-+.  +|+...       -..+-+..+    ..-+..+=+.+|+....   ...|.
T Consensus       299 ~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs---~DiDr  375 (549)
T PF07079_consen  299 DRFGNLLSFKVKQVQTEEAKQYLALLKILDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQS---YDIDR  375 (549)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHh---hcccH
Confidence            345555556666666666666665443  232210       111111122    11223344556666655   33443


Q ss_pred             H-HHHHHH---HHHhccCc-hHHHHHHHHHhHHhcCCCC-ChhHHHHHH----HHHHhc---CChHH---HHHHHHhCCC
Q 006997          435 V-VYTSIL---SACSHSGM-VDDGLSFFKSMQSNFGIEP-SIEHYLCLV----DLLGRA---GRFDL---ALKTIHEMPV  498 (622)
Q Consensus       435 ~-~~~~ll---~~~~~~g~-~~~a~~~~~~~~~~~~~~p-~~~~~~~l~----~~~~~~---g~~~~---A~~~~~~~~~  498 (622)
                      . ....++   .-+-+.|. -++|+++++.+..   +.| |..+-+...    ..|...   ..+.+   -...+++...
T Consensus       376 qQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~---ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl  452 (549)
T PF07079_consen  376 QQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQ---FTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGL  452 (549)
T ss_pred             HHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH---hccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCC
Confidence            2 112222   23444554 7788888888773   344 443333222    222221   11222   2222333332


Q ss_pred             CC----cHHhHHHHHHH--HHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          499 EV----QAQVWAPLLSA--CMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       499 ~~----~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      +|    +...-|.|..+  ...+|++.++.-.-.=+.+..| ++.+|..+|-++....++++|..++..++-
T Consensus       453 ~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~LP~  523 (549)
T PF07079_consen  453 TPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKLPP  523 (549)
T ss_pred             CcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhCCC
Confidence            22    23344555554  4578999999887777888999 999999999999999999999999997753

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK11619 lytic murein transglycosylase; Provisional

Probab=96.63  E-value=1.2  Score=46.89  Aligned_cols=72  Identities=17%  Similarity=-0.007  Sum_probs=35.9

Q ss_pred             HHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC
Q 006997          273 VSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELG  346 (622)
Q Consensus       273 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~  346 (622)
                      +..+.+.+++.....++.. ...+.........+....|+.++|....+.+-..| ...+.....++..+.+.|
T Consensus       106 l~~La~~~~w~~~~~~~~~-~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g-~~~p~~cd~l~~~~~~~g  177 (644)
T PRK11619        106 VNELARREDWRGLLAFSPE-KPKPVEARCNYYYAKWATGQQQEAWQGAKELWLTG-KSLPNACDKLFSVWQQSG  177 (644)
T ss_pred             HHHHHHccCHHHHHHhcCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-CCCChHHHHHHHHHHHcC
Confidence            3344455666666663322 22344444555556666666666665555554444 223444444444444333

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.57  E-value=0.033  Score=51.14  Aligned_cols=47  Identities=15%  Similarity=0.225  Sum_probs=26.1

Q ss_pred             HHhcCChHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHhccCChHHHHH
Q 006997          307 YAQLGYPSEAVNLFKRLLKT--SVRPNEATLATTLSACAELGSLSKGKE  353 (622)
Q Consensus       307 ~~~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~  353 (622)
                      +....+.++|+..+.+-...  .......+|..+..+.+..|.++++..
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~   64 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLK   64 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHH
Confidence            34556677777777665542  111223455556666666666665544

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.53  E-value=0.0069  Score=50.47  Aligned_cols=90  Identities=14%  Similarity=0.131  Sum_probs=67.5

Q ss_pred             HHhcCChHHHHHHHHhCC--CCC-----cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCCh
Q 006997          480 LGRAGRFDLALKTIHEMP--VEV-----QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMW  552 (622)
Q Consensus       480 ~~~~g~~~~A~~~~~~~~--~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  552 (622)
                      +...|++++|..-|.++.  .++     ....|..-..+..+.+.++.|+.-..++++++|....+....+.+|.+...+
T Consensus       105 ~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek~  184 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEKY  184 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhhH
Confidence            445666666666665543  111     2334445555777889999999999999999998888888889999999999


Q ss_pred             HHHHHHHHHhhhCCCcc
Q 006997          553 KEAATARGLMDDRRLTK  569 (622)
Q Consensus       553 ~~A~~~~~~~~~~~~~~  569 (622)
                      ++|++-|+++.+.++..
T Consensus       185 eealeDyKki~E~dPs~  201 (271)
T KOG4234|consen  185 EEALEDYKKILESDPSR  201 (271)
T ss_pred             HHHHHHHHHHHHhCcch
Confidence            99999999998866543

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.53  E-value=0.59  Score=42.28  Aligned_cols=195  Identities=21%  Similarity=0.201  Sum_probs=120.4

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHhccCC-----CCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH-HHHHHH
Q 006997          367 RQVQTSLIHMFSKCGRINKAKEVFERVP-----DKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDA-VVYTSI  440 (622)
Q Consensus       367 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~l  440 (622)
                      ..........+...+.+..+...+....     ......+......+...+++..+.+.+.....   ..++. ......
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~  135 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALA---LDPDPDLAEALL  135 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHc---CCCCcchHHHHH
Confidence            3444555555666666666666555443     12334444555556666667777777777665   32322 222222


Q ss_pred             HH-HHhccCchHHHHHHHHHhHHhcCCCC----ChhHHHHHHHHHHhcCChHHHHHHHHhCC-C-CC-cHHhHHHHHHHH
Q 006997          441 LS-ACSHSGMVDDGLSFFKSMQSNFGIEP----SIEHYLCLVDLLGRAGRFDLALKTIHEMP-V-EV-QAQVWAPLLSAC  512 (622)
Q Consensus       441 l~-~~~~~g~~~~a~~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~~-~~~~~~~l~~~~  512 (622)
                      .. ++...|+++.+...+.+...   ..|    ....+......+...++.+++...+.+.. . .. ....+..+...+
T Consensus       136 ~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  212 (291)
T COG0457         136 ALGALYELGDYEEALELYEKALE---LDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLY  212 (291)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh---cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHH
Confidence            22 56777777777777777743   222    23333344444666777888887777765 2 22 355667777777


Q ss_pred             HhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          513 MKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       513 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ...++++.|...+..++...|.....+..++..+...|+++++...+++......
T Consensus       213 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  267 (291)
T COG0457         213 LKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDP  267 (291)
T ss_pred             HHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCc
Confidence            7777888888888888888876566667777777766778888888777765433

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.49  E-value=0.12  Score=52.09  Aligned_cols=159  Identities=15%  Similarity=0.141  Sum_probs=101.1

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH-----HHHHHHHHHHh----ccCchHHHHHHHHHhHHhcCCCCChhHH
Q 006997          403 AMINGYAIHGMGDQALNLFYKMQHVEGLKPDA-----VVYTSILSACS----HSGMVDDGLSFFKSMQSNFGIEPSIEHY  473 (622)
Q Consensus       403 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-----~~~~~ll~~~~----~~g~~~~a~~~~~~~~~~~~~~p~~~~~  473 (622)
                      .++....-.|+-+.+++.+.+..+..++.-..     -.|..++..+.    ...+.+.|.++++.+..+   -|+...|
T Consensus       193 kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s~lf  269 (468)
T PF10300_consen  193 KLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNSALF  269 (468)
T ss_pred             HHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCcHHH
Confidence            34444445566666666666655422222111     12333333222    245677888888888855   6776666


Q ss_pred             HH-HHHHHHhcCChHHHHHHHHhCCC------CCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCch-HHHHHHH
Q 006997          474 LC-LVDLLGRAGRFDLALKTIHEMPV------EVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGN-YILMANL  545 (622)
Q Consensus       474 ~~-l~~~~~~~g~~~~A~~~~~~~~~------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~-~~~l~~~  545 (622)
                      .. -.+.+...|+.++|++.|++...      +.....+--++..+....++++|...+.++.+.+.-+... .+..+-+
T Consensus       270 l~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~a~c  349 (468)
T PF10300_consen  270 LFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence            53 34566778888888888887541      1223345556777888899999999999998866533333 4455677


Q ss_pred             HHhcCCh-------HHHHHHHHHhhh
Q 006997          546 FTSAGMW-------KEAATARGLMDD  564 (622)
Q Consensus       546 ~~~~g~~-------~~A~~~~~~~~~  564 (622)
                      +...|+.       ++|.++|++++.
T Consensus       350 ~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  350 LLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHhhccchhhhhhHHHHHHHHHHHHH
Confidence            8888988       888889888865

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.

>PRK15331 chaperone protein SicA; Provisional

Probab=96.42  E-value=0.036  Score=45.35  Aligned_cols=86  Identities=8%  Similarity=-0.025  Sum_probs=58.2

Q ss_pred             HHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCH
Q 006997          442 SACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNV  518 (622)
Q Consensus       442 ~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~  518 (622)
                      .-+...|++++|..+|.-+..-   .| +..-|..|..++-..+++++|+..+....  ...|+...-..+.++...|+.
T Consensus        45 y~~y~~Gk~~eA~~~F~~L~~~---d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         45 YEFYNQGRLDEAETFFRFLCIY---DFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh---CcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCH
Confidence            3345667888888888776632   33 45555667777777788888888776553  233444455567777788888


Q ss_pred             HHHHHHHHHHHc
Q 006997          519 ELGEYAAKNLLT  530 (622)
Q Consensus       519 ~~a~~~~~~~~~  530 (622)
                      +.|+..|+.+++
T Consensus       122 ~~A~~~f~~a~~  133 (165)
T PRK15331        122 AKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            888888887777

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.38  E-value=1.5  Score=45.27  Aligned_cols=106  Identities=11%  Similarity=0.034  Sum_probs=72.3

Q ss_pred             HHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHH
Q 006997          104 IISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNE  183 (622)
Q Consensus       104 li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  183 (622)
                      =|..+.+.+.+++|++..+....  ..|...                             -..++...+..+...|++++
T Consensus       362 hi~Wll~~k~yeeAl~~~k~~~~--~~~~~~-----------------------------i~kv~~~yI~HLl~~~~y~~  410 (846)
T KOG2066|consen  362 HIDWLLEKKKYEEALDAAKASIG--NEERFV-----------------------------IKKVGKTYIDHLLFEGKYDE  410 (846)
T ss_pred             hHHHHHHhhHHHHHHHHHHhccC--Cccccc-----------------------------hHHHHHHHHHHHHhcchHHH
Confidence            35567778888898888766532  222110                             23345677888888999999


Q ss_pred             HHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhc
Q 006997          184 ARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQ  243 (622)
Q Consensus       184 A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  243 (622)
                      |-...-.|...+..-|.-.+..+...++......++-   ......+...|..++..+..
T Consensus       411 Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~~Ia~~lP---t~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  411 AASLCPKMLGNNAAEWELWVFKFAELDQLTDIAPYLP---TGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             HHhhhHHHhcchHHHHHHHHHHhccccccchhhccCC---CCCcccCchHHHHHHHHHHH
Confidence            9999999988888888888888888877765544432   22122456677777777765

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.36  E-value=1.5  Score=45.02  Aligned_cols=113  Identities=14%  Similarity=0.168  Sum_probs=84.7

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHh
Q 006997          366 NRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACS  445 (622)
Q Consensus       366 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~  445 (622)
                      ..-+.+--+.-+...|+..+|.++-.+..-||-..|-.-+.+++..+++++-+++-+.+..       +.-|..+..+|.
T Consensus       683 ~dlSl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskks-------PIGy~PFVe~c~  755 (829)
T KOG2280|consen  683 VDLSLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKKS-------PIGYLPFVEACL  755 (829)
T ss_pred             ccCcHHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccCC-------CCCchhHHHHHH
Confidence            3344455566677788899999999988888888888888889999998887776554432       455777888999


Q ss_pred             ccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHh
Q 006997          446 HSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHE  495 (622)
Q Consensus       446 ~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  495 (622)
                      +.|+.++|.+++-+.-   |..       -.+.+|.+.|++.+|.++--+
T Consensus       756 ~~~n~~EA~KYiprv~---~l~-------ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  756 KQGNKDEAKKYIPRVG---GLQ-------EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             hcccHHHHhhhhhccC---ChH-------HHHHHHHHhccHHHHHHHHHH
Confidence            9999999998886543   221       467888888888888776544

>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=96.34  E-value=0.056  Score=42.78  Aligned_cols=97  Identities=14%  Similarity=0.212  Sum_probs=62.6

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhc
Q 006997          367 RQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSH  446 (622)
Q Consensus       367 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~  446 (622)
                      ..++..++.++++.|+++....+++..-..|+..       -...+.          ........|+..+..+++.+|+.
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~-------~~~~~~----------~~~~spl~Pt~~lL~AIv~sf~~   64 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNG-------KKKEGD----------YPPSSPLYPTSRLLIAIVHSFGY   64 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCC-------ccccCc----------cCCCCCCCCCHHHHHHHHHHHHh
Confidence            3455666666666666666666665443211110       000000          11114567888888888888888


Q ss_pred             cCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHH
Q 006997          447 SGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLL  480 (622)
Q Consensus       447 ~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  480 (622)
                      .|++..|.++.+...+.++++.+...|..|+.-.
T Consensus        65 n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   65 NGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             cccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            8999999999998888888877888888777543

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

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.34  E-value=0.29  Score=44.19  Aligned_cols=122  Identities=14%  Similarity=0.108  Sum_probs=85.8

Q ss_pred             HHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHH---HHHHHHhcCC
Q 006997          442 SACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAP---LLSACMKHHN  517 (622)
Q Consensus       442 ~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~---l~~~~~~~~~  517 (622)
                      ......|++.+|...|+.....   .| +...--.++.+|...|+.+.|..++..++.......+..   -+....+..+
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~---~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~  218 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQA---APENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAA  218 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHh---CcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhc
Confidence            3456778889999988888754   33 456666788999999999999999999884333333333   2223333333


Q ss_pred             HHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          518 VELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       518 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ..+. ..+++-+..+|+|...-..++..|...|+.++|.+.+=.+.+++.
T Consensus       219 ~~~~-~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~  267 (304)
T COG3118         219 TPEI-QDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDR  267 (304)
T ss_pred             CCCH-HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcc
Confidence            3322 234445567899999999999999999999999998887776543

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=96.31  E-value=3.3  Score=48.63  Aligned_cols=312  Identities=13%  Similarity=0.075  Sum_probs=158.7

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhCC--CCCchhHHHHHHHHHhcCCHHHHHHHHhh-cCCCCHHHHHHHHHHHHhcCCh
Q 006997          237 LILGCAQVGNLFLALSMHSLLLKSGY--NNEDPLDNLLVSMYTKCGDLELARRVFDA-VLEKSVFLWTSMIGGYAQLGYP  313 (622)
Q Consensus       237 ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~l~~~~~~~~~~  313 (622)
                      +..+-.+.+.+..|...++.-.....  ......+..+...|..-+++|....+... ...++   ...-|......|++
T Consensus      1389 La~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~s---l~~qil~~e~~g~~ 1465 (2382)
T KOG0890|consen 1389 LARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADPS---LYQQILEHEASGNW 1465 (2382)
T ss_pred             HHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCcc---HHHHHHHHHhhccH
Confidence            33444455666666666665210000  11122334444467777777766666552 22222   22234445567888


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchh-HHHHHHHHHHhcCChHHHHHHhcc
Q 006997          314 SEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQ-VQTSLIHMFSKCGRINKAKEVFER  392 (622)
Q Consensus       314 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~A~~~~~~  392 (622)
                      ..|...|+.+.+.+ ++...+++.++......|.+.......+-..... ++... .++.=+.+--+.++++....... 
T Consensus      1466 ~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~-se~~~~~~s~~~eaaW~l~qwD~~e~~l~- 1542 (2382)
T KOG0890|consen 1466 ADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEEVDELNSLGVEAAWRLSQWDLLESYLS- 1542 (2382)
T ss_pred             HHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhhcc-CHHHHHHHHHHHHHHhhhcchhhhhhhhh-
Confidence            88888888887764 2335566666666666666666655444433322 22222 22222334456666666666655 


Q ss_pred             CCCCChhHHHHH--HHHHHHcC--CHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHH---------
Q 006997          393 VPDKDLAVWSAM--INGYAIHG--MGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKS---------  459 (622)
Q Consensus       393 ~~~~~~~~~~~l--~~~~~~~~--~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~---------  459 (622)
                        ..+..+|...  .....+..  +.-.-.+..+.+.+ .-+.|        +.+|+..|.+..+.++.-+         
T Consensus      1543 --~~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~-~~i~~--------lsa~s~~~Sy~~~Y~~~~kLH~l~el~~ 1611 (2382)
T KOG0890|consen 1543 --DRNIEYWSVESIGKLLLRNKKKDEIATLDLIENSRE-LVIEN--------LSACSIEGSYVRSYEILMKLHLLLELEN 1611 (2382)
T ss_pred             --cccccchhHHHHHHHHHhhcccchhhHHHHHHHHHH-Hhhhh--------HHHhhccchHHHHHHHHHHHHHHHHHHH
Confidence              3344445443  22222221  21112223333333 11111        1122222221122111111         


Q ss_pred             -hHHhcCCCCCh------hHHHHHHHHHHhcCChHHHHHHHHhCC---------CCCcHHhHHHHHHHHHhcCCHHHHHH
Q 006997          460 -MQSNFGIEPSI------EHYLCLVDLLGRAGRFDLALKTIHEMP---------VEVQAQVWAPLLSACMKHHNVELGEY  523 (622)
Q Consensus       460 -~~~~~~~~p~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~  523 (622)
                       .....+..++.      ..|..-+..-....+..+-+--+++..         ...-..+|......++..|.++.|..
T Consensus      1612 ~~~~l~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~n 1691 (2382)
T KOG0890|consen 1612 SIEELKKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQN 1691 (2382)
T ss_pred             HHHHhhccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHH
Confidence             11111333332      122222211111112222222222211         12236689999999999999999999


Q ss_pred             HHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          524 AAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       524 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ..-.+.+..+  +.++.-.+..+...|+...|..++++..+...
T Consensus      1692 all~A~e~r~--~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~ 1733 (2382)
T KOG0890|consen 1692 ALLNAKESRL--PEIVLERAKLLWQTGDELNALSVLQEILSKNF 1733 (2382)
T ss_pred             HHHhhhhccc--chHHHHHHHHHHhhccHHHHHHHHHHHHHhhc
Confidence            9888888664  78899999999999999999999999886443

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.25  E-value=0.33  Score=37.80  Aligned_cols=141  Identities=12%  Similarity=0.110  Sum_probs=83.7

Q ss_pred             HHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChH
Q 006997          408 YAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFD  487 (622)
Q Consensus       408 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  487 (622)
                      +.-.|..++..++..+....    .+..-++.++--....-+-+-..+.++.+-+-|.+.|- .....++.+|.+.|.. 
T Consensus        12 ~ildG~V~qGveii~k~v~S----sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C-~NlKrVi~C~~~~n~~-   85 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNS----SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKC-GNLKRVIECYAKRNKL-   85 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHH----S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG--S-THHHHHHHHHTT---
T ss_pred             HHHhchHHHHHHHHHHHcCc----CCccccceeeeecchhhchhHHHHHHHHHhhhcCchhh-cchHHHHHHHHHhcch-
Confidence            34567788888888887761    12333444444444444556666677666544443331 1122345555554432 


Q ss_pred             HHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          488 LALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       488 ~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                                    .......+.....+|.-+.-.+++..+...+..+|+...-++.+|.+.|+..++.+++.++.++|+
T Consensus        86 --------------se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   86 --------------SEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             ---------------HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             --------------HHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence                          233444566777889989888999988865555889999999999999999999999999999887


Q ss_pred             c
Q 006997          568 T  568 (622)
Q Consensus       568 ~  568 (622)
                      +
T Consensus       152 k  152 (161)
T PF09205_consen  152 K  152 (161)
T ss_dssp             H
T ss_pred             H
Confidence            4

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.23  E-value=0.75  Score=43.96  Aligned_cols=75  Identities=12%  Similarity=0.099  Sum_probs=51.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhcCCC-------CHHHHHHHHHHHHh---cCChHHHHHHHHHHHhCCCCCCHHHHHH
Q 006997          268 LDNLLVSMYTKCGDLELARRVFDAVLEK-------SVFLWTSMIGGYAQ---LGYPSEAVNLFKRLLKTSVRPNEATLAT  337 (622)
Q Consensus       268 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~l~~~~~~---~~~~~~a~~~~~~m~~~~~~~~~~~~~~  337 (622)
                      +...++-.|....+++...++++.+...       ....--....++.+   .|+.++|++++..+....-.+++.+|..
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            3334555677888888888888877543       12222234455666   7888999999888666666778888877


Q ss_pred             HHHHH
Q 006997          338 TLSAC  342 (622)
Q Consensus       338 ll~~~  342 (622)
                      +.+.|
T Consensus       223 ~GRIy  227 (374)
T PF13281_consen  223 LGRIY  227 (374)
T ss_pred             HHHHH
Confidence            77665

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=96.23  E-value=0.012  Score=34.07  Aligned_cols=32  Identities=25%  Similarity=0.237  Sum_probs=22.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC
Q 006997          504 VWAPLLSACMKHHNVELGEYAAKNLLTLNPGS  535 (622)
Q Consensus       504 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  535 (622)
                      .|..++..+...|++++|++.++++++++|++
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            46667777777777777777777777777754

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 ....

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=96.20  E-value=0.0086  Score=34.67  Aligned_cols=32  Identities=19%  Similarity=0.168  Sum_probs=24.1

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC
Q 006997          503 QVWAPLLSACMKHHNVELGEYAAKNLLTLNPG  534 (622)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  534 (622)
                      .+|..++.++...|++++|+..++++++++|+
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            45677777888888888888888888888775

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 ....

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.16  E-value=1.1  Score=41.74  Aligned_cols=194  Identities=14%  Similarity=0.071  Sum_probs=110.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHH-------hhcCCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCC---CHHH
Q 006997          268 LDNLLVSMYTKCGDLELARRVF-------DAVLEK--SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKT-SVRP---NEAT  334 (622)
Q Consensus       268 ~~~~l~~~~~~~~~~~~a~~~~-------~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~~~~---~~~~  334 (622)
                      ++..+..+.++.|.+++++..-       ....+.  -..+|..+.+++-+.-++.+++.+-+.-... |..|   ....
T Consensus        45 ~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~  124 (518)
T KOG1941|consen   45 VLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQV  124 (518)
T ss_pred             HhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchh
Confidence            3444555555556555554321       111111  1245666677776666777777666554431 2222   1123


Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHcC-----CCCchhHHHHHHHHHHhcCChHHHHHHhccCC-------CCChh-HH
Q 006997          335 LATTLSACAELGSLSKGKEIEEYIVLNG-----LESNRQVQTSLIHMFSKCGRINKAKEVFERVP-------DKDLA-VW  401 (622)
Q Consensus       335 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-------~~~~~-~~  401 (622)
                      ..++..++...+.++++.+.|+.+.+..     ......++..|...|.+..++++|.-+..+..       -.|.. -|
T Consensus       125 ~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~ky  204 (518)
T KOG1941|consen  125 SLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKY  204 (518)
T ss_pred             hhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHH
Confidence            3346667777788888888888776532     12234677888888888888888765554332       12321 12


Q ss_pred             -----HHHHHHHHHcCCHHHHHHHHHHhHHh---cCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhH
Q 006997          402 -----SAMINGYAIHGMGDQALNLFYKMQHV---EGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQ  461 (622)
Q Consensus       402 -----~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~  461 (622)
                           -.|.-++...|+..+|.+..++..+.   .|-.|- ......+.+.|...|+.+.|+.-|+.+.
T Consensus       205 r~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  205 RAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence                 22344566777777777777766541   222221 2334556667778888888777777654

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.15  E-value=0.028  Score=54.12  Aligned_cols=62  Identities=13%  Similarity=-0.005  Sum_probs=37.0

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCcH----HhHHHHHHHHHhcCCHHHHHHHHHHHHcc
Q 006997          470 IEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQA----QVWAPLLSACMKHHNVELGEYAAKNLLTL  531 (622)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  531 (622)
                      ...++.+..+|.+.|++++|+..|++.. ..|+.    .+|..+..+|...|+.++|++.+++++++
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4555556666666666666666666544 44442    23666666666666666666666666665

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=96.13  E-value=2.7  Score=45.75  Aligned_cols=78  Identities=17%  Similarity=0.137  Sum_probs=41.8

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHH--HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChH
Q 006997          307 YAQLGYPSEAVNLFKRLLKTSVRPNEA--TLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRIN  384 (622)
Q Consensus       307 ~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  384 (622)
                      |...|+|.+|+.+-.++...   -+..  +-..|..-+...++.-+|-++..+....        ....+..|++...++
T Consensus       975 ~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd--------~~~av~ll~ka~~~~ 1043 (1265)
T KOG1920|consen  975 YKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHYEAAKILLEYLSD--------PEEAVALLCKAKEWE 1043 (1265)
T ss_pred             HHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC--------HHHHHHHHhhHhHHH
Confidence            44567777777776665321   1111  1134555566666666666555544321        123445566666777


Q ss_pred             HHHHHhccCCC
Q 006997          385 KAKEVFERVPD  395 (622)
Q Consensus       385 ~A~~~~~~~~~  395 (622)
                      +|..+-....+
T Consensus      1044 eAlrva~~~~~ 1054 (1265)
T KOG1920|consen 1044 EALRVASKAKR 1054 (1265)
T ss_pred             HHHHHHHhccc
Confidence            77776655543

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.12  E-value=0.92  Score=40.33  Aligned_cols=58  Identities=10%  Similarity=0.149  Sum_probs=47.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHccCCCCCc---hHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          507 PLLSACMKHHNVELGEYAAKNLLTLNPGSTG---NYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       507 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ....-|.+.|.+..|..-++.+++.-|+.+.   .+..+..+|.+.|..++|.+.-+-+..
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            3556788999999999999999998776554   455667789999999999998877654

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.11  E-value=1  Score=40.70  Aligned_cols=196  Identities=20%  Similarity=0.175  Sum_probs=123.7

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHc-CCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC--CCh-hHHHHHHH-H
Q 006997          333 ATLATTLSACAELGSLSKGKEIEEYIVLN-GLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD--KDL-AVWSAMIN-G  407 (622)
Q Consensus       333 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~-~~~~~l~~-~  407 (622)
                      ..+......+...+.+..+...+...... ........+......+...+.+..+.+.+.....  ++. ........ .
T Consensus        60 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  139 (291)
T COG0457          60 GLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGA  139 (291)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHH
Confidence            34444444455555555555555444432 2233334444455555555556666666655543  111 12222223 6


Q ss_pred             HHHcCCHHHHHHHHHHhHHhcCCCC----CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC--hhHHHHHHHHHH
Q 006997          408 YAIHGMGDQALNLFYKMQHVEGLKP----DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS--IEHYLCLVDLLG  481 (622)
Q Consensus       408 ~~~~~~~~~a~~~~~~~~~~~~~~p----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~  481 (622)
                      +...|+++.|...+.+...   ..|    ....+......+...++.+.+...+......   .++  ...+..+...+.
T Consensus       140 ~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~~~~~~  213 (291)
T COG0457         140 LYELGDYEEALELYEKALE---LDPELNELAEALLALGALLEALGRYEEALELLEKALKL---NPDDDAEALLNLGLLYL  213 (291)
T ss_pred             HHHcCCHHHHHHHHHHHHh---cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh---CcccchHHHHHhhHHHH
Confidence            7788888888888888854   444    2334444444567788899999999888743   333  667777888888


Q ss_pred             hcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC
Q 006997          482 RAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG  534 (622)
Q Consensus       482 ~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  534 (622)
                      ..++++.|...+.... ..|+ ...+..+...+...+..+.+...+++.+...|.
T Consensus       214 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         214 KLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             HcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            8889999999998876 3443 445555666666677899999999999999886

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.07  E-value=2  Score=43.71  Aligned_cols=63  Identities=8%  Similarity=-0.168  Sum_probs=31.8

Q ss_pred             CCCchhHHHHHHHhhcCCChhHHHHHhccCCCCCCCcch------------HHHHHHHHHhCCCchHHHHHHHHHHHc
Q 006997           62 QQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVS------------WNSIISAHSRACLNDEAILVLKEMWVL  127 (622)
Q Consensus        62 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~------------~~~li~~~~~~~~~~~A~~~~~~m~~~  127 (622)
                      .|.+..|..+...-...-.++.|+..|-+... .+.+..            -.+=+.  +--|++++|.++|-+|-++
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~d-Y~Gik~vkrl~~i~s~~~q~aei~--~~~g~feeaek~yld~drr  763 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGD-YAGIKLVKRLRTIHSKEQQRAEIS--AFYGEFEEAEKLYLDADRR  763 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhcc-ccchhHHHHhhhhhhHHHHhHhHh--hhhcchhHhhhhhhccchh
Confidence            46666666666555555555555555544331 111100            011112  2247788888888777553

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.02  E-value=0.66  Score=42.01  Aligned_cols=148  Identities=10%  Similarity=0.021  Sum_probs=105.2

Q ss_pred             HHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcC
Q 006997          406 NGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAG  484 (622)
Q Consensus       406 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  484 (622)
                      ......|++.+|..+|+....   ..|+ ......+..+|...|+.+.|..++..+-.. --.........-+..+.+..
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~---~~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~-~~~~~~~~l~a~i~ll~qaa  217 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQ---AAPENSEAKLLLAECLLAAGDVEAAQAILAALPLQ-AQDKAAHGLQAQIELLEQAA  217 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHH---hCcccchHHHHHHHHHHHcCChHHHHHHHHhCccc-chhhHHHHHHHHHHHHHHHh
Confidence            345678899999999998887   4443 456677888999999999999999876532 00111222234456677777


Q ss_pred             ChHHHHHHHHhCCCCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccC--CCCCchHHHHHHHHHhcCChHHHHH
Q 006997          485 RFDLALKTIHEMPVEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTLN--PGSTGNYILMANLFTSAGMWKEAAT  557 (622)
Q Consensus       485 ~~~~A~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~A~~  557 (622)
                      ...+..++-++.-..| |...-..+...+...|+.+.|.+.+-.++..+  -++..+...+..++.-.|.-+.+..
T Consensus       218 ~~~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~~~  293 (304)
T COG3118         218 ATPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPLVL  293 (304)
T ss_pred             cCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHHHH
Confidence            7776666666665455 56677778888899999999999888888753  4577888888888888885544433

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.01  E-value=2  Score=43.11  Aligned_cols=122  Identities=11%  Similarity=0.032  Sum_probs=85.4

Q ss_pred             HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHH
Q 006997          434 AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSA  511 (622)
Q Consensus       434 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  511 (622)
                      ..+|...+.--...|+.+...-+|++..--  ...=...|-..+.-....|+.+-|..++....  ..|+......+-..
T Consensus       297 l~nw~~yLdf~i~~g~~~~~~~l~ercli~--cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~  374 (577)
T KOG1258|consen  297 LKNWRYYLDFEITLGDFSRVFILFERCLIP--CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEAR  374 (577)
T ss_pred             HHHHHHHhhhhhhcccHHHHHHHHHHHHhH--HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHH
Confidence            356777888888889999988888876521  11123455556666666688888887777654  33333333333333


Q ss_pred             -HHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHH
Q 006997          512 -CMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAAT  557 (622)
Q Consensus       512 -~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  557 (622)
                       +-..|++..|..+++.+.+--|+...+-..-+.+..+.|+.+.+..
T Consensus       375 f~e~~~n~~~A~~~lq~i~~e~pg~v~~~l~~~~~e~r~~~~~~~~~  421 (577)
T KOG1258|consen  375 FEESNGNFDDAKVILQRIESEYPGLVEVVLRKINWERRKGNLEDANY  421 (577)
T ss_pred             HHHhhccHHHHHHHHHHHHhhCCchhhhHHHHHhHHHHhcchhhhhH
Confidence             3456899999999999988668877777788888889999998883

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.93  E-value=0.021  Score=44.00  Aligned_cols=55  Identities=16%  Similarity=0.027  Sum_probs=51.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          510 SACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       510 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      -+....|+.+.|++.|.+++.+.|..+++|+..+.++.-+|+.++|++-+.+..+
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~Ale  105 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALE  105 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHH
Confidence            3567889999999999999999999999999999999999999999999998876

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.87  E-value=0.23  Score=39.79  Aligned_cols=116  Identities=9%  Similarity=0.052  Sum_probs=61.4

Q ss_pred             HHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhc
Q 006997          405 INGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRA  483 (622)
Q Consensus       405 ~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  483 (622)
                      .....+.|++++|.+.|+.+....-..| ....-..++.+|.+.++++.|...+++.++.+.-.|+ .-|...+.++..-
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~-vdYa~Y~~gL~~~   95 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN-VDYAYYMRGLSYY   95 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC-ccHHHHHHHHHHH
Confidence            3444566777777777777765211111 1344566667777777777777777777754332332 2233333333322


Q ss_pred             CChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCC
Q 006997          484 GRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGST  536 (622)
Q Consensus       484 g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  536 (622)
                      ...+   ..+..+.            ..-+..+....|...|++++..-|++.
T Consensus        96 ~~~~---~~~~~~~------------~~drD~~~~~~A~~~f~~lv~~yP~S~  133 (142)
T PF13512_consen   96 EQDE---GSLQSFF------------RSDRDPTPARQAFRDFEQLVRRYPNSE  133 (142)
T ss_pred             HHhh---hHHhhhc------------ccccCcHHHHHHHHHHHHHHHHCcCCh
Confidence            2111   1111111            111112335678888999999999754

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.85  E-value=0.082  Score=47.17  Aligned_cols=62  Identities=13%  Similarity=0.093  Sum_probs=30.4

Q ss_pred             HHHHHHhcCChHHHHHHHHhCC----CCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCc
Q 006997          476 LVDLLGRAGRFDLALKTIHEMP----VEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTG  537 (622)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~  537 (622)
                      |..++...|++++|..+|..+.    ..| -+..+..|.....+.|+.++|...++++++..|+.+.
T Consensus       184 LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k~YP~t~a  250 (262)
T COG1729         184 LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIKRYPGTDA  250 (262)
T ss_pred             HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCCHH
Confidence            4444444444444444444332    111 1334444555555556666666666666666665443

>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=95.85  E-value=0.61  Score=46.30  Aligned_cols=160  Identities=12%  Similarity=0.078  Sum_probs=103.1

Q ss_pred             HHHHhcCChHHHHHHHHH-HHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCh
Q 006997          305 GGYAQLGYPSEAVNLFKR-LLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRI  383 (622)
Q Consensus       305 ~~~~~~~~~~~a~~~~~~-m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  383 (622)
                      ....-.++++.+.++.+. -.-..+  +......++.-+.+.|-.+.|.++...-            ..-.+...++|++
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~------------~~rFeLAl~lg~L  334 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNI--PKDQGQSIARFLEKKGYPELALQFVTDP------------DHRFELALQLGNL  334 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-H------------HHHHHHHHHCT-H
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccC--ChhHHHHHHHHHHHCCCHHHHHhhcCCh------------HHHhHHHHhcCCH
Confidence            344556777777666641 111111  2444667777778888888887764322            2234566788999


Q ss_pred             HHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHh
Q 006997          384 NKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSN  463 (622)
Q Consensus       384 ~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  463 (622)
                      +.|.++.++..  +...|..|.......|+++-|++.|++..+          +..++-.|...|+.+...++.+....+
T Consensus       335 ~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d----------~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  335 DIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD----------FSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             HHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT-----------HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC----------ccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            99999888775  566899999999999999999999998876          667777888888888777777666543


Q ss_pred             cCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC
Q 006997          464 FGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP  497 (622)
Q Consensus       464 ~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  497 (622)
                       |      -++....++.-.|+.++..+++.+..
T Consensus       403 -~------~~n~af~~~~~lgd~~~cv~lL~~~~  429 (443)
T PF04053_consen  403 -G------DINIAFQAALLLGDVEECVDLLIETG  429 (443)
T ss_dssp             -T-------HHHHHHHHHHHT-HHHHHHHHHHTT
T ss_pred             -c------CHHHHHHHHHHcCCHHHHHHHHHHcC
Confidence             2      24445556666788888888887765

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.

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.83  E-value=0.11  Score=47.28  Aligned_cols=159  Identities=13%  Similarity=-0.018  Sum_probs=113.3

Q ss_pred             HcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHH----HHHHHHHhcCC
Q 006997          410 IHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYL----CLVDLLGRAGR  485 (622)
Q Consensus       410 ~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~----~l~~~~~~~g~  485 (622)
                      .+|+..+|...++++.+  ..+.|...+...=.+|...|+...-...++++...  ..|+...|.    .+.-++..+|-
T Consensus       115 ~~g~~h~a~~~wdklL~--d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~GmyaFgL~E~g~  190 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLD--DYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGI  190 (491)
T ss_pred             ccccccHHHHHHHHHHH--hCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhcc
Confidence            57788888888888886  35556677777778899999999999999888854  355655444    34445678899


Q ss_pred             hHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCC----CCCchHHHHHHHHHhcCChHHHHHHH
Q 006997          486 FDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNP----GSTGNYILMANLFTSAGMWKEAATAR  559 (622)
Q Consensus       486 ~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p----~~~~~~~~l~~~~~~~g~~~~A~~~~  559 (622)
                      +++|.+.-++..  .+.|.-.-.+........|++.++.+..++--..=.    --...|-+.+-.+...+.++.|+++|
T Consensus       191 y~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  191 YDDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             chhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            999999998886  333444445666667778889988888876543211    12345667777888889999999999


Q ss_pred             HHhhhCCCccCCC
Q 006997          560 GLMDDRRLTKEPG  572 (622)
Q Consensus       560 ~~~~~~~~~~~~~  572 (622)
                      +.-.-+...++-+
T Consensus       271 D~ei~k~l~k~Da  283 (491)
T KOG2610|consen  271 DREIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHHhhccch
Confidence            8665554555444

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=95.68  E-value=2.3  Score=41.46  Aligned_cols=150  Identities=11%  Similarity=0.018  Sum_probs=86.0

Q ss_pred             CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC---CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC--h
Q 006997          396 KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP---DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS--I  470 (622)
Q Consensus       396 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~--~  470 (622)
                      ....+|..++..+.+.|+++.|...+.++.. .+..+   .+.....-+...-..|+..+|+..++..... .+..+  .
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~-~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~-~~~~~~~~  221 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQ-LNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC-RLSKNIDS  221 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhc-cCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH-Hhhhcccc
Confidence            3456788888889999999999999888876 33111   2334444556666778888999888887752 11111  1


Q ss_pred             hHHHHHHHHHHhcCChHHHHHH-HHhCCCCCcHHhHHHHHHHHHhc------CCHHHHHHHHHHHHccCCCCCchHHHHH
Q 006997          471 EHYLCLVDLLGRAGRFDLALKT-IHEMPVEVQAQVWAPLLSACMKH------HNVELGEYAAKNLLTLNPGSTGNYILMA  543 (622)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~-~~~~~~~~~~~~~~~l~~~~~~~------~~~~~a~~~~~~~~~~~p~~~~~~~~l~  543 (622)
                      .....+...+..  ..+..... ........-...+..++.-+...      ++.+.+...|+.+.++.|.....|..++
T Consensus       222 ~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a  299 (352)
T PF02259_consen  222 ISNAELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWA  299 (352)
T ss_pred             ccHHHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHH
Confidence            111111111000  00000000 00000000122333334434344      7889999999999999999888999888


Q ss_pred             HHHHhc
Q 006997          544 NLFTSA  549 (622)
Q Consensus       544 ~~~~~~  549 (622)
                      ..+.+.
T Consensus       300 ~~~~~~  305 (352)
T PF02259_consen  300 LFNDKL  305 (352)
T ss_pred             HHHHHH
Confidence            887654

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

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

Probab=95.55  E-value=2.4  Score=40.78  Aligned_cols=82  Identities=10%  Similarity=0.052  Sum_probs=55.6

Q ss_pred             CCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHHHHH
Q 006997           28 GNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISA  107 (622)
Q Consensus        28 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~  107 (622)
                      -|...|..|+.-+...+..++.++++++|..- ++--+.+|...+++=....++.....+|.+......+...|...+..
T Consensus        40 tnI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l~ldLW~lYl~Y  118 (660)
T COG5107          40 TNILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSLNLDLWMLYLEY  118 (660)
T ss_pred             hhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhccHhHHHHHHHH
Confidence            35557778888887777887777777777532 23445567666766666777777777777766555667777766664


Q ss_pred             HHh
Q 006997          108 HSR  110 (622)
Q Consensus       108 ~~~  110 (622)
                      ..+
T Consensus       119 IRr  121 (660)
T COG5107         119 IRR  121 (660)
T ss_pred             HHh
Confidence            443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.55  E-value=1.9  Score=42.20  Aligned_cols=17  Identities=18%  Similarity=0.139  Sum_probs=12.7

Q ss_pred             HHHHHHHHHHccCCCCC
Q 006997          520 LGEYAAKNLLTLNPGST  536 (622)
Q Consensus       520 ~a~~~~~~~~~~~p~~~  536 (622)
                      .|.+.+.++++.+|.-+
T Consensus       364 ~aveAi~RAvefNPHVp  380 (539)
T PF04184_consen  364 NAVEAIHRAVEFNPHVP  380 (539)
T ss_pred             HHHHHHHHHHHhCCCCc
Confidence            46788888988888543

The molecular function of this protein is uncertain.

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.49  E-value=3.2  Score=41.72  Aligned_cols=181  Identities=13%  Similarity=0.091  Sum_probs=120.7

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHhccCCCCC---hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHH
Q 006997          366 NRQVQTSLIHMFSKCGRINKAKEVFERVPDKD---LAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILS  442 (622)
Q Consensus       366 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~  442 (622)
                      ....|+..++...+.|+.+.+.-.|++..-|-   ...|-..+.-....|+.+-|..++....+ -..+-.+.+-..-..
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~-i~~k~~~~i~L~~a~  374 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACK-IHVKKTPIIHLLEAR  374 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhh-hcCCCCcHHHHHHHH
Confidence            34677777778888899999988888877542   23455555555555888888888877766 333333333333333


Q ss_pred             HHhccCchHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhcCChHHHH---HHHHhCC-CCCcHHhHHHHHH-----HH
Q 006997          443 ACSHSGMVDDGLSFFKSMQSNFGIEPS-IEHYLCLVDLLGRAGRFDLAL---KTIHEMP-VEVQAQVWAPLLS-----AC  512 (622)
Q Consensus       443 ~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~---~~~~~~~-~~~~~~~~~~l~~-----~~  512 (622)
                      .+-..|+++.|..+++.+.+.  . |+ ...-..-+....+.|..+.+.   .++.... ..-+......+.-     .+
T Consensus       375 f~e~~~n~~~A~~~lq~i~~e--~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~  451 (577)
T KOG1258|consen  375 FEESNGNFDDAKVILQRIESE--Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRY  451 (577)
T ss_pred             HHHhhccHHHHHHHHHHHHhh--C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHH
Confidence            455678999999999999875  3 54 333334456667888888887   4444433 2222222222222     23


Q ss_pred             HhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcC
Q 006997          513 MKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAG  550 (622)
Q Consensus       513 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  550 (622)
                      ...++.+.|..++.++.+..|.+...|..+.+.....+
T Consensus       452 ~i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  452 KIREDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            34689999999999999999999999999988877665

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.44  E-value=0.94  Score=37.02  Aligned_cols=84  Identities=15%  Similarity=0.100  Sum_probs=40.5

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHH
Q 006997          337 TTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQ  416 (622)
Q Consensus       337 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  416 (622)
                      .++..+...+.......+++.+.+.+ +.++..++.++..|++.+ .++..+.+..  ..+.......+..|.+.+-+++
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~--~~~~yd~~~~~~~c~~~~l~~~   87 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN--KSNHYDIEKVGKLCEKAKLYEE   87 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh--ccccCCHHHHHHHHHHcCcHHH
Confidence            34444455556666666666666555 345566666666666542 2333333331  1122222334444444444444


Q ss_pred             HHHHHHHh
Q 006997          417 ALNLFYKM  424 (622)
Q Consensus       417 a~~~~~~~  424 (622)
                      +..++.++
T Consensus        88 ~~~l~~k~   95 (140)
T smart00299       88 AVELYKKD   95 (140)
T ss_pred             HHHHHHhh
Confidence            44444443

>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=95.31  E-value=0.67  Score=46.03  Aligned_cols=155  Identities=14%  Similarity=0.119  Sum_probs=93.0

Q ss_pred             hhcCCChhHHHHHhc--cCCCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHH
Q 006997           75 YSKCSDFVSSRKVLD--EMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMH  152 (622)
Q Consensus        75 ~~~~~~~~~A~~~~~--~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~  152 (622)
                      ..-.++++++.+..+  ++.. .-...-.+.++..+-+.|.++.|+++-+.-.                           
T Consensus       271 av~~~d~~~v~~~i~~~~ll~-~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~~---------------------------  322 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLLP-NIPKDQGQSIARFLEKKGYPELALQFVTDPD---------------------------  322 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGG-G--HHHHHHHHHHHHHTT-HHHHHHHSS-HH---------------------------
T ss_pred             HHHcCChhhhhhhhhhhhhcc-cCChhHHHHHHHHHHHCCCHHHHHhhcCChH---------------------------
Confidence            344567777433332  1110 1113447778888888888888888754421                           


Q ss_pred             HHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHh
Q 006997          153 CCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLV  232 (622)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  232 (622)
                                       .-.....++|+++.|.++.++..  +...|..|.....++|+++-|.+.|.+..+        
T Consensus       323 -----------------~rFeLAl~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d--------  375 (443)
T PF04053_consen  323 -----------------HRFELALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD--------  375 (443)
T ss_dssp             -----------------HHHHHHHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT---------
T ss_pred             -----------------HHhHHHHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC--------
Confidence                             22345567888888888877765  556888888888888998888888887543        


Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhh
Q 006997          233 VFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDA  291 (622)
Q Consensus       233 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  291 (622)
                       |..|+-.|...|+.+.-.++.+.....|-      ++....++.-.|+.++..+++.+
T Consensus       376 -~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  376 -FSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             -HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             -ccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence             44566666677777777777766666552      34444555556666666666543

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.

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.29  E-value=1.2  Score=38.86  Aligned_cols=23  Identities=17%  Similarity=0.169  Sum_probs=12.0

Q ss_pred             CCHHHHHHHHHHHHccCCCCCch
Q 006997          516 HNVELGEYAAKNLLTLNPGSTGN  538 (622)
Q Consensus       516 ~~~~~a~~~~~~~~~~~p~~~~~  538 (622)
                      .|.-.+...+++-.+++|.-.++
T Consensus       209 ~D~v~a~~ALeky~~~dP~F~ds  231 (288)
T KOG1586|consen  209 ADEVNAQRALEKYQELDPAFTDS  231 (288)
T ss_pred             ccHHHHHHHHHHHHhcCCccccc
Confidence            44444555555555555554444

>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=95.26  E-value=0.22  Score=41.10  Aligned_cols=70  Identities=19%  Similarity=0.191  Sum_probs=42.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHH-----cCCCCchhH
Q 006997          299 LWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVL-----NGLESNRQV  369 (622)
Q Consensus       299 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~  369 (622)
                      +...++..+...|++++|...++.+.... +.+...+..+|.++...|+...|.+.|+.+.+     .|++|++.+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            34455566667777777777777777654 44666777777777777777777777766532     366666544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=95.20  E-value=2.1  Score=38.06  Aligned_cols=241  Identities=18%  Similarity=0.233  Sum_probs=132.0

Q ss_pred             CCHHHHHHHHhhcCCC-------CHHHHHHHHHHHHhcCChHHHHHHHHHHHhC---CC--CCCHHHHHHHHHHHhccCC
Q 006997          280 GDLELARRVFDAVLEK-------SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKT---SV--RPNEATLATTLSACAELGS  347 (622)
Q Consensus       280 ~~~~~a~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~---~~--~~~~~~~~~ll~~~~~~~~  347 (622)
                      ..+++|+.-|.++.+-       .-.+...++..+.+.+++++.+..|.++..-   .+  .-+..+.+.++...+...+
T Consensus        41 ~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~  120 (440)
T KOG1464|consen   41 DEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKN  120 (440)
T ss_pred             cCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhh
Confidence            3455555555554221       2234455666777777777777777666421   11  2244556666666665555


Q ss_pred             hHHHHHHHHHHHHc-----CCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCC--------C-------hhHHHHHHHH
Q 006997          348 LSKGKEIEEYIVLN-----GLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDK--------D-------LAVWSAMING  407 (622)
Q Consensus       348 ~~~a~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--------~-------~~~~~~l~~~  407 (622)
                      .+....+++.-.+.     +-..-..+-+.|...|...+++.+..+++.++...        |       ...|..-+..
T Consensus       121 m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQm  200 (440)
T KOG1464|consen  121 MDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQM  200 (440)
T ss_pred             hHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhh
Confidence            55555554432221     11112233455777777777777777777665421        1       1356666778


Q ss_pred             HHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHH-----hccCchHHHHHHHHHhHHhcCC--CCCh---hHHHHHH
Q 006997          408 YAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSAC-----SHSGMVDDGLSFFKSMQSNFGI--EPSI---EHYLCLV  477 (622)
Q Consensus       408 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~-----~~~g~~~~a~~~~~~~~~~~~~--~p~~---~~~~~l~  477 (622)
                      |...++..+-..++++......--|.+... .+++-|     .+.|.+++|-.-|-++.+.+.-  .|..   --|-.|.
T Consensus       201 YT~qKnNKkLK~lYeqalhiKSAIPHPlIm-GvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLA  279 (440)
T KOG1464|consen  201 YTEQKNNKKLKALYEQALHIKSAIPHPLIM-GVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLA  279 (440)
T ss_pred             hhhhcccHHHHHHHHHHHHhhccCCchHHH-hHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHH
Confidence            888888788888888776533334544433 344444     4567888776554444433222  2322   2255666


Q ss_pred             HHHHhcCC----hHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHH
Q 006997          478 DLLGRAGR----FDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAK  526 (622)
Q Consensus       478 ~~~~~~g~----~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  526 (622)
                      +++.++|-    ..+|    +-....|.......++.+|.. ++..+-++++.
T Consensus       280 NMLmkS~iNPFDsQEA----KPyKNdPEIlAMTnlv~aYQ~-NdI~eFE~Il~  327 (440)
T KOG1464|consen  280 NMLMKSGINPFDSQEA----KPYKNDPEILAMTNLVAAYQN-NDIIEFERILK  327 (440)
T ss_pred             HHHHHcCCCCCccccc----CCCCCCHHHHHHHHHHHHHhc-ccHHHHHHHHH
Confidence            77777762    1121    011146667778888888855 45444444443

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=95.17  E-value=3.6  Score=40.43  Aligned_cols=157  Identities=17%  Similarity=0.173  Sum_probs=82.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 006997          299 LWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFS  378 (622)
Q Consensus       299 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  378 (622)
                      ..-+++..+..+..+.-+..+..+|..-|  -+...|..++..|... ..+.-..+|+++.+..+. +...-..|+..|-
T Consensus        68 ~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~~yE  143 (711)
T COG1747          68 CLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELADKYE  143 (711)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHHHHH
Confidence            34445555555555555566666666543  2455555666665555 445555566666555432 3333344444444


Q ss_pred             hcCChHHHHHHhccCCCC------Ch---hHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCc
Q 006997          379 KCGRINKAKEVFERVPDK------DL---AVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGM  449 (622)
Q Consensus       379 ~~~~~~~A~~~~~~~~~~------~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~  449 (622)
                      + ++.+++...|.++...      +.   ..|..+...  -..+.+..+.+..++....|..--...+..+-.-|....+
T Consensus       144 k-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~eN  220 (711)
T COG1747         144 K-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSENEN  220 (711)
T ss_pred             H-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhccccC
Confidence            4 5555555555543310      00   123333221  1245566666666666544444445555556666777777


Q ss_pred             hHHHHHHHHHhHH
Q 006997          450 VDDGLSFFKSMQS  462 (622)
Q Consensus       450 ~~~a~~~~~~~~~  462 (622)
                      +++|++++..+.+
T Consensus       221 ~~eai~Ilk~il~  233 (711)
T COG1747         221 WTEAIRILKHILE  233 (711)
T ss_pred             HHHHHHHHHHHhh
Confidence            8888888777664

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.04  E-value=0.042  Score=32.24  Aligned_cols=26  Identities=8%  Similarity=0.075  Sum_probs=20.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhh
Q 006997          538 NYILMANLFTSAGMWKEAATARGLMD  563 (622)
Q Consensus       538 ~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (622)
                      ++..|+.+|.+.|++++|+++|++..
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            36788899999999999999998854

>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=95.02  E-value=0.3  Score=38.69  Aligned_cols=49  Identities=12%  Similarity=0.208  Sum_probs=29.7

Q ss_pred             CCCCHhHHHHHHHHHhccCChHHHHHHHHHHHH-hCCCCCchhHHHHHHH
Q 006997          227 VTPDLVVFLNLILGCAQVGNLFLALSMHSLLLK-SGYNNEDPLDNLLVSM  275 (622)
Q Consensus       227 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~  275 (622)
                      ..|+..+..+++.+++..+++..|.++.+.+.+ .+++.+..+|..|+.-
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W   97 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEW   97 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            456666666666666666666666666666654 3455555555555543

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

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

Probab=94.99  E-value=0.19  Score=44.69  Aligned_cols=98  Identities=13%  Similarity=0.178  Sum_probs=74.3

Q ss_pred             HHHHHhhcC--CCCcchHHHHHHHHHcC-----CChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccC-----------
Q 006997          184 ARSIFDEIG--ETSIVSWTTIIGGYVNV-----GNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVG-----------  245 (622)
Q Consensus       184 A~~~~~~~~--~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-----------  245 (622)
                      .+..|....  ++|-.+|-..+..+...     +..+-....++.|.+-|+.-|..+|+.|++.+-+..           
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            345566555  46777888888777544     567777888999999999999999999999876532           


Q ss_pred             -----ChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCC
Q 006997          246 -----NLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGD  281 (622)
Q Consensus       246 -----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  281 (622)
                           +-+-+.+++++|...|+.||..+-..|++++.+.+-
T Consensus       133 ~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                 223467888888888888888888888887776654

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.97  E-value=7  Score=42.78  Aligned_cols=120  Identities=17%  Similarity=0.152  Sum_probs=69.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccC
Q 006997          369 VQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSG  448 (622)
Q Consensus       369 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g  448 (622)
                      .+.-.++.--+.|-+.+|..++..-.+.--..|.+...-+.....+++|.-.|+..-+          ..-.+.+|...|
T Consensus       910 ~~~e~~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk----------lekAl~a~~~~~  979 (1265)
T KOG1920|consen  910 YFPECKNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK----------LEKALKAYKECG  979 (1265)
T ss_pred             ccHHHHHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc----------HHHHHHHHHHhc
Confidence            3344445555666666666666543333334455555555666777777766666443          223566777777


Q ss_pred             chHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCC
Q 006997          449 MVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEV  500 (622)
Q Consensus       449 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  500 (622)
                      +|.+|..+..++..  +..--..+-..|+..+...++.-+|-++..+....|
T Consensus       980 dWr~~l~~a~ql~~--~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd~ 1029 (1265)
T KOG1920|consen  980 DWREALSLAAQLSE--GKDELVILAEELVSRLVEQRKHYEAAKILLEYLSDP 1029 (1265)
T ss_pred             cHHHHHHHHHhhcC--CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcCH
Confidence            78777777765541  111112222456677777777777777777765333

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.95  E-value=0.86  Score=41.84  Aligned_cols=174  Identities=12%  Similarity=0.072  Sum_probs=116.0

Q ss_pred             HhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHH----HHHHHHhccCch
Q 006997          378 SKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYT----SILSACSHSGMV  450 (622)
Q Consensus       378 ~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~----~ll~~~~~~g~~  450 (622)
                      ...|+..+|...++++.+   .|...++-.-.+|..+|+.+.-...++++..  ...||...|.    .+.-++...|-+
T Consensus       114 ~~~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip--~wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIP--KWNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             hccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhcc--ccCCCCcHHHHHHHHHHhhHHHhccc
Confidence            346778888877887774   4777888888899999999999999999875  3356653332    233355688999


Q ss_pred             HHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCCC--CCc----HHhHHHHHHHHHhcCCHHHHHH
Q 006997          451 DDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMPV--EVQ----AQVWAPLLSACMKHHNVELGEY  523 (622)
Q Consensus       451 ~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~----~~~~~~l~~~~~~~~~~~~a~~  523 (622)
                      ++|.+.-++..   .+.| |.-.-.++...+...|+..++.++..+-..  ...    ...|-...-.+...+.++.|++
T Consensus       192 ~dAEk~A~ral---qiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~ale  268 (491)
T KOG2610|consen  192 DDAEKQADRAL---QINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALE  268 (491)
T ss_pred             hhHHHHHHhhc---cCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHH
Confidence            99999998887   3444 444556788889999999999999988651  111    1111122233455689999999


Q ss_pred             HHHHHH--ccCCCCCch---HHHHHHHHHhcCChHHHH
Q 006997          524 AAKNLL--TLNPGSTGN---YILMANLFTSAGMWKEAA  556 (622)
Q Consensus       524 ~~~~~~--~~~p~~~~~---~~~l~~~~~~~g~~~~A~  556 (622)
                      +|+.-+  +++.+++..   |..+-.+..+...+.+-.
T Consensus       269 IyD~ei~k~l~k~Da~a~~~~ld~dgv~~~~d~~~kld  306 (491)
T KOG2610|consen  269 IYDREIWKRLEKDDAVARDVYLDLDGVDLRSDLWRKLD  306 (491)
T ss_pred             HHHHHHHHHhhccchhhhhhhhhhhhHHhHHHHHHHHH
Confidence            998643  355556533   333344444444444443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.93  E-value=1.7  Score=35.47  Aligned_cols=126  Identities=6%  Similarity=0.042  Sum_probs=71.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHH
Q 006997          401 WSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLL  480 (622)
Q Consensus       401 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  480 (622)
                      ...++..+...+.+.....+++.+.. .+ ..+....+.++..|++.+ ..+....++.       .++.......++.+
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~-~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~-------~~~~yd~~~~~~~c   79 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALK-LN-SENPALQTKLIELYAKYD-PQKEIERLDN-------KSNHYDIEKVGKLC   79 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHc-cC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh-------ccccCCHHHHHHHH
Confidence            34456666666777777777777776 44 245556677777776543 3344444431       12223333466666


Q ss_pred             HhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhc-CCHHHHHHHHHHHHccCCCCCchHHHHHHHHH
Q 006997          481 GRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKH-HNVELGEYAAKNLLTLNPGSTGNYILMANLFT  547 (622)
Q Consensus       481 ~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (622)
                      .+.+.++++.-++.++..      +...+..+... ++++.|.+.+++     ++++..|..++..+.
T Consensus        80 ~~~~l~~~~~~l~~k~~~------~~~Al~~~l~~~~d~~~a~~~~~~-----~~~~~lw~~~~~~~l  136 (140)
T smart00299       80 EKAKLYEEAVELYKKDGN------FKDAIVTLIEHLGNYEKAIEYFVK-----QNNPELWAEVLKALL  136 (140)
T ss_pred             HHcCcHHHHHHHHHhhcC------HHHHHHHHHHcccCHHHHHHHHHh-----CCCHHHHHHHHHHHH
Confidence            777777777777777641      22222333333 677777777664     235556666665544

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.89  E-value=0.046  Score=33.89  Aligned_cols=32  Identities=13%  Similarity=0.047  Sum_probs=28.3

Q ss_pred             CchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          536 TGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       536 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      |.++..++.+|.+.|++++|+++|+++.+..+
T Consensus         1 p~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P   32 (44)
T PF13428_consen    1 PAAWLALARAYRRLGQPDEAERLLRRALALDP   32 (44)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            45789999999999999999999999988543

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=94.79  E-value=0.098  Score=47.75  Aligned_cols=94  Identities=10%  Similarity=0.067  Sum_probs=56.8

Q ss_pred             HHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHH
Q 006997          443 ACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVE  519 (622)
Q Consensus       443 ~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~  519 (622)
                      -|.+.|.+++|+..|....   .+.| ++.++..-..+|.+..++..|..-.+.+.  ...-...|..-+.+-...|+..
T Consensus       106 ~yFKQgKy~EAIDCYs~~i---a~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~~~  182 (536)
T KOG4648|consen  106 TYFKQGKYEEAIDCYSTAI---AVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGNNM  182 (536)
T ss_pred             hhhhccchhHHHHHhhhhh---ccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhhHH
Confidence            3556666666666666555   3344 55555555666666666665555555443  1112334444455555668888


Q ss_pred             HHHHHHHHHHccCCCCCchH
Q 006997          520 LGEYAAKNLLTLNPGSTGNY  539 (622)
Q Consensus       520 ~a~~~~~~~~~~~p~~~~~~  539 (622)
                      +|.+-++.++++.|++...-
T Consensus       183 EAKkD~E~vL~LEP~~~ELk  202 (536)
T KOG4648|consen  183 EAKKDCETVLALEPKNIELK  202 (536)
T ss_pred             HHHHhHHHHHhhCcccHHHH
Confidence            88888999999999755433

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=94.69  E-value=4.8  Score=39.58  Aligned_cols=190  Identities=12%  Similarity=0.102  Sum_probs=98.4

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHhccCCC--CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHH
Q 006997          366 NRQVQTSLIHMFSKCGRINKAKEVFERVPD--KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSA  443 (622)
Q Consensus       366 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~  443 (622)
                      |....-++++.++....++-.+.+..+|..  .+-..|..++.+|..+ ..++-..+|+++.+   ..-|...+..-+..
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~el~q~y~en-~n~~l~~lWer~ve---~dfnDvv~~ReLa~  140 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKEN-GNEQLYSLWERLVE---YDFNDVVIGRELAD  140 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CchhhHHHHHHHHH---hcchhHHHHHHHHH
Confidence            333444555555555555555555555542  3344555566666665 44566666666665   33444333333333


Q ss_pred             HhccCchHHHHHHHHHhHHhcCCCCC------hhHHHHHHHHHHhcCChHHHHHHHHhCC----CCCcHHhHHHHHHHHH
Q 006997          444 CSHSGMVDDGLSFFKSMQSNFGIEPS------IEHYLCLVDLLGRAGRFDLALKTIHEMP----VEVQAQVWAPLLSACM  513 (622)
Q Consensus       444 ~~~~g~~~~a~~~~~~~~~~~~~~p~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~~l~~~~~  513 (622)
                      +...++.+.+..+|.++.-+  +-|.      .+.|..|....  ..+.+..+.+..++.    ...-...+.-+..-|.
T Consensus       141 ~yEkik~sk~a~~f~Ka~yr--fI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys  216 (711)
T COG1747         141 KYEKIKKSKAAEFFGKALYR--FIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYS  216 (711)
T ss_pred             HHHHhchhhHHHHHHHHHHH--hcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhc
Confidence            33336666666666666543  2221      12333333211  234444444444443    1112233333445556


Q ss_pred             hcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHh--------------------cCChHHHHHHHHHhh
Q 006997          514 KHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTS--------------------AGMWKEAATARGLMD  563 (622)
Q Consensus       514 ~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~--------------------~g~~~~A~~~~~~~~  563 (622)
                      ...|+++|++++..+++.+..+..+...++.-+..                    -.++.++..-|++..
T Consensus       217 ~~eN~~eai~Ilk~il~~d~k~~~ar~~~i~~lRd~y~~~~~~e~yl~~s~i~~~~rnf~~~l~dFek~m  286 (711)
T COG1747         217 ENENWTEAIRILKHILEHDEKDVWARKEIIENLRDKYRGHSQLEEYLKISNISQSGRNFFEALNDFEKLM  286 (711)
T ss_pred             cccCHHHHHHHHHHHhhhcchhhhHHHHHHHHHHHHhccchhHHHHHHhcchhhccccHHHHHHHHHHHh
Confidence            66777777777777777766666666655555544                    456666776666654

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=94.67  E-value=0.059  Score=49.13  Aligned_cols=88  Identities=14%  Similarity=0.031  Sum_probs=75.8

Q ss_pred             HHHHHhcCChHHHHHHHHhCC-CCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHH
Q 006997          477 VDLLGRAGRFDLALKTIHEMP-VEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKE  554 (622)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  554 (622)
                      .+-|.++|++++|++.+.+.. ..| ++..+..-..+|.+...+..|+.-...++.++-.-..+|...+.+-...|+..+
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~~~E  183 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGNNME  183 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhhHHH
Confidence            456889999999999998876 556 788888888899999999999999999999988777788888888888999999


Q ss_pred             HHHHHHHhhh
Q 006997          555 AATARGLMDD  564 (622)
Q Consensus       555 A~~~~~~~~~  564 (622)
                      |.+-++..++
T Consensus       184 AKkD~E~vL~  193 (536)
T KOG4648|consen  184 AKKDCETVLA  193 (536)
T ss_pred             HHHhHHHHHh
Confidence            9887776654

>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=94.65  E-value=0.058  Score=31.05  Aligned_cols=31  Identities=19%  Similarity=0.091  Sum_probs=20.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHccCCC
Q 006997          504 VWAPLLSACMKHHNVELGEYAAKNLLTLNPG  534 (622)
Q Consensus       504 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  534 (622)
                      +|..++..+...|++++|...++++++++|+
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            4556666666777777777777777776663

...

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.47  E-value=1.7  Score=42.65  Aligned_cols=147  Identities=12%  Similarity=0.051  Sum_probs=85.2

Q ss_pred             HHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcC
Q 006997          405 INGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAG  484 (622)
Q Consensus       405 ~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  484 (622)
                      |.-.-+..+...-++.-+++.+   +.||..+...++ +-.......++.+++++..+. |    ...+..- ......|
T Consensus       175 Mq~AWRERnp~aRIkaA~eALe---i~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkA-g----E~~lg~s-~~~~~~g  244 (539)
T PF04184_consen  175 MQKAWRERNPQARIKAAKEALE---INPDCADAYILL-AEEEASTIVEAEELLRQAVKA-G----EASLGKS-QFLQHHG  244 (539)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHH---hhhhhhHHHhhc-ccccccCHHHHHHHHHHHHHH-H----HHhhchh-hhhhccc
Confidence            3333455667777777777777   777764432222 223345578888888877643 1    0000000 0000111


Q ss_pred             ChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC--CCchHHHHHHHHHhcCChHHHHHHHHHh
Q 006997          485 RFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG--STGNYILMANLFTSAGMWKEAATARGLM  562 (622)
Q Consensus       485 ~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (622)
                      ..-+   .+.+-...+-..+-..|..++.+.|..++|++.++.+++..|.  +-.++..|+.++...+.+.++..++.+-
T Consensus       245 ~~~e---~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kY  321 (539)
T PF04184_consen  245 HFWE---AWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKY  321 (539)
T ss_pred             chhh---hhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            1111   1111111233444456777778888888888888888877664  4567888888888888888888888876


Q ss_pred             hh
Q 006997          563 DD  564 (622)
Q Consensus       563 ~~  564 (622)
                      .+
T Consensus       322 dD  323 (539)
T PF04184_consen  322 DD  323 (539)
T ss_pred             cc
Confidence            44

The molecular function of this protein is uncertain.

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=94.35  E-value=2.6  Score=35.14  Aligned_cols=56  Identities=11%  Similarity=0.113  Sum_probs=32.2

Q ss_pred             hHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHH
Q 006997          169 NSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRR  224 (622)
Q Consensus       169 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  224 (622)
                      ..++..+...|++-+|.++.+....-+......++.+..+.+|...-..+++-..+
T Consensus        93 ~~iievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   93 EEIIEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44556666777777777777665444444445556666666555544444444433

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.34  E-value=0.069  Score=31.30  Aligned_cols=28  Identities=14%  Similarity=-0.015  Sum_probs=22.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHcc
Q 006997          504 VWAPLLSACMKHHNVELGEYAAKNLLTL  531 (622)
Q Consensus       504 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~  531 (622)
                      +|..|+..|.+.|++++|+++|++++.+
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l   28 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALAL   28 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4678888999999999999999996654

>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=94.06  E-value=2.1  Score=35.19  Aligned_cols=88  Identities=18%  Similarity=0.152  Sum_probs=47.7

Q ss_pred             HHhccCchHHHHHHHHHhHHhcCCCCChhHH-HHHHHHHHhcCChHHHHHHHHhCC-CCCcHHhHHHHHHHHHhcCCHHH
Q 006997          443 ACSHSGMVDDGLSFFKSMQSNFGIEPSIEHY-LCLVDLLGRAGRFDLALKTIHEMP-VEVQAQVWAPLLSACMKHHNVEL  520 (622)
Q Consensus       443 ~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~  520 (622)
                      .-...++.+++..++..+.   -+.|..... ..-...+.+.|++.+|+.+|+++. ..|....-..|+..|.....-..
T Consensus        19 ~al~~~~~~D~e~lL~ALr---vLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~~   95 (160)
T PF09613_consen   19 VALRLGDPDDAEALLDALR---VLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDPS   95 (160)
T ss_pred             HHHccCChHHHHHHHHHHH---HhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCChH
Confidence            3345667777777777766   345543322 233455667777778877777776 34444444555555544322222


Q ss_pred             HHHHHHHHHccCC
Q 006997          521 GEYAAKNLLTLNP  533 (622)
Q Consensus       521 a~~~~~~~~~~~p  533 (622)
                      =....+++++..+
T Consensus        96 Wr~~A~evle~~~  108 (160)
T PF09613_consen   96 WRRYADEVLESGA  108 (160)
T ss_pred             HHHHHHHHHhcCC
Confidence            2333444455444

>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=94.04  E-value=0.39  Score=39.34  Aligned_cols=53  Identities=17%  Similarity=0.208  Sum_probs=30.9

Q ss_pred             HhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          513 MKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       513 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      .+.++.+.++.++..+.-+.|+.+..-..-++++...|+|.+|..+|+.+.+.
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            34455566666666555566655555555566666666666666666655443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.93  E-value=0.077  Score=30.50  Aligned_cols=30  Identities=10%  Similarity=0.106  Sum_probs=25.7

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          537 GNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      .++..++.+|...|++++|++.+++..+..
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~   31 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence            468899999999999999999999987643

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 ....

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=93.84  E-value=0.41  Score=38.45  Aligned_cols=55  Identities=15%  Similarity=0.068  Sum_probs=43.8

Q ss_pred             HhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          513 MKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       513 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ...++.++++.++..+.-+.|+.+..-..-++++...|+|++|..+|+.+.+.+.
T Consensus        21 L~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~   75 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAG   75 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCC
Confidence            3477888888888888888888888888888888888888888888888876543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

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

Probab=93.64  E-value=0.55  Score=41.96  Aligned_cols=96  Identities=10%  Similarity=0.115  Sum_probs=67.0

Q ss_pred             HHHHhccCCCCCCCcchHHHHHHHHHhC-----CCchHHHHHHHHHHHcCCCCChhhHHHHHhhhh--------------
Q 006997           84 SRKVLDEMPVRLRSVVSWNSIISAHSRA-----CLNDEAILVLKEMWVLGLELSASTFVSVVSGCS--------------  144 (622)
Q Consensus        84 A~~~~~~~~~~~~~~~~~~~li~~~~~~-----~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~--------------  144 (622)
                      .+..|...+....+-.+|-+.+..+...     +.++=....++.|.+.|+.-|..+|..||..+-              
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            3455665554456667777777766543     556667777889999999999999999988764              


Q ss_pred             ------hhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCC
Q 006997          145 ------FRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGK  180 (622)
Q Consensus       145 ------~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  180 (622)
                            ...+..+++.|...|+.| |..+-..|++++.+.+.
T Consensus       133 ~HYP~QQ~C~I~vLeqME~hGVmP-dkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEWHGVMP-DKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hhCchhhhHHHHHHHHHHHcCCCC-chHHHHHHHHHhccccc
Confidence                  345666677777777766 66666666666666554

>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases

Probab=93.58  E-value=0.076  Score=41.36  Aligned_cols=38  Identities=47%  Similarity=0.726  Sum_probs=30.4

Q ss_pred             CceEEEECCeEEEEEecCCCCcchHHHHHHHHHHHHHHHHcCcccCCCCC
Q 006997          572 GWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLLEAGYIAEADIV  621 (622)
Q Consensus       572 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~g~~pd~~~~  621 (622)
                      |++|.++    +.|++++.+||+.        .+..+++..||.|+++.+
T Consensus         2 ~~~w~~~----h~F~sgd~shp~~--------~~~~~~~~~~~~~~~~~~   39 (116)
T PF14432_consen    2 GCSWIEV----HSFVSGDRSHPQS--------ELINKMKEEGYVPDTKEV   39 (116)
T ss_pred             CCCccce----EEEEeCCCcCccH--------HHHHHHHHcCCcchhhhh
Confidence            6788765    8999999999998        445667778888887654

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.52  E-value=0.1  Score=30.04  Aligned_cols=30  Identities=17%  Similarity=0.143  Sum_probs=26.0

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          537 GNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      .+|..+|.+|..+|++++|+..|++.++..
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            468899999999999999999999988744

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 ....

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.46  E-value=2.2  Score=36.19  Aligned_cols=87  Identities=10%  Similarity=0.022  Sum_probs=40.3

Q ss_pred             HHHHhcCChHHHHHHHHhCCCCCcHHhHHH-----HHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCCh
Q 006997          478 DLLGRAGRFDLALKTIHEMPVEVQAQVWAP-----LLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMW  552 (622)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-----l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  552 (622)
                      ..+..+|++++|...++.....|....+..     |.......|.+++|...++...+-.= .+......|+++...|+-
T Consensus        97 k~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w-~~~~~elrGDill~kg~k  175 (207)
T COG2976          97 KAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW-AAIVAELRGDILLAKGDK  175 (207)
T ss_pred             HHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH-HHHHHHHhhhHHHHcCch
Confidence            344555555555555554432222222222     23334445555555555443322110 112234456666666666


Q ss_pred             HHHHHHHHHhhhC
Q 006997          553 KEAATARGLMDDR  565 (622)
Q Consensus       553 ~~A~~~~~~~~~~  565 (622)
                      ++|+..|++..+.
T Consensus       176 ~~Ar~ay~kAl~~  188 (207)
T COG2976         176 QEARAAYEKALES  188 (207)
T ss_pred             HHHHHHHHHHHHc
Confidence            6666666655553

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=93.44  E-value=4.2  Score=35.09  Aligned_cols=158  Identities=15%  Similarity=0.079  Sum_probs=82.6

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH-HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHH
Q 006997          398 LAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDA-VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCL  476 (622)
Q Consensus       398 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  476 (622)
                      +..||-+.--+...|+++.|.+.|+...+   +.|.- .+...-.-++.-.|++.-|.+-+-..-+.   .|+. -|.+|
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~E---LDp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ~---D~~D-PfR~L  171 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLE---LDPTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQD---DPND-PFRSL  171 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhc---cCCcchHHHhccceeeeecCchHhhHHHHHHHHhc---CCCC-hHHHH
Confidence            34666666666777788888888777776   55542 22222222344567777777666555433   2321 12222


Q ss_pred             HHHH-HhcCChHHHHHHH-HhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC-------CchHHHHHHHHH
Q 006997          477 VDLL-GRAGRFDLALKTI-HEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS-------TGNYILMANLFT  547 (622)
Q Consensus       477 ~~~~-~~~g~~~~A~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~  547 (622)
                      .--+ .+.-++.+|..-+ ++.. ..+..-|...+-.+.- |... .+.+++++.+-..++       .++|.-|+.-|.
T Consensus       172 WLYl~E~k~dP~~A~tnL~qR~~-~~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l  248 (297)
T COG4785         172 WLYLNEQKLDPKQAKTNLKQRAE-KSDKEQWGWNIVEFYL-GKIS-EETLMERLKADATDNTSLAEHLTETYFYLGKYYL  248 (297)
T ss_pred             HHHHHHhhCCHHHHHHHHHHHHH-hccHhhhhHHHHHHHH-hhcc-HHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHh
Confidence            1111 1223455554443 3333 3333334332222211 1111 122333333322222       357888999999


Q ss_pred             hcCChHHHHHHHHHhhhC
Q 006997          548 SAGMWKEAATARGLMDDR  565 (622)
Q Consensus       548 ~~g~~~~A~~~~~~~~~~  565 (622)
                      ..|+.++|..+|+.....
T Consensus       249 ~~G~~~~A~~LfKLaian  266 (297)
T COG4785         249 SLGDLDEATALFKLAVAN  266 (297)
T ss_pred             ccccHHHHHHHHHHHHHH
Confidence            999999999999987764

>PRK10941 hypothetical protein; Provisional

Probab=93.40  E-value=0.52  Score=43.07  Aligned_cols=63  Identities=16%  Similarity=0.134  Sum_probs=57.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          505 WAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       505 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      .+.+-.++.+.++++.|..+.+.++.+.|+++.-+...|-+|.+.|.+..|..-++...+..+
T Consensus       184 l~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P  246 (269)
T PRK10941        184 LDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCP  246 (269)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCC
Confidence            456777889999999999999999999999999999999999999999999999998877543

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.38  E-value=4  Score=33.85  Aligned_cols=119  Identities=14%  Similarity=0.114  Sum_probs=79.4

Q ss_pred             HHHcCCHHHHHHHHHHhHHhcCCCCCHH-HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHH-----HHHH
Q 006997          408 YAIHGMGDQALNLFYKMQHVEGLKPDAV-VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLV-----DLLG  481 (622)
Q Consensus       408 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~-----~~~~  481 (622)
                      +.+.+..++|+.-|..+.+ .|...-+. ..........+.|+...|...|+++-..   .|.+....-+.     -.+.
T Consensus        68 lA~~~k~d~Alaaf~~lek-tg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~d---t~~P~~~rd~ARlraa~lLv  143 (221)
T COG4649          68 LAQENKTDDALAAFTDLEK-TGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAAD---TSIPQIGRDLARLRAAYLLV  143 (221)
T ss_pred             HHHcCCchHHHHHHHHHHh-cCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhcc---CCCcchhhHHHHHHHHHHHh
Confidence            3566778888888888887 55443222 2333444567788899999999888744   44433333222     2356


Q ss_pred             hcCChHHHHHHHHhCCCCCc---HHhHHHHHHHHHhcCCHHHHHHHHHHHHc
Q 006997          482 RAGRFDLALKTIHEMPVEVQ---AQVWAPLLSACMKHHNVELGEYAAKNLLT  530 (622)
Q Consensus       482 ~~g~~~~A~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  530 (622)
                      ..|.++....-++-+..+.+   ...-..|.-+-.+.|++..|...|+++..
T Consensus       144 D~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         144 DNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             ccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            78888888888777652222   33455677777888999999998888876

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.30  E-value=1.8  Score=38.03  Aligned_cols=20  Identities=10%  Similarity=0.026  Sum_probs=9.6

Q ss_pred             HHHHHcCCHHHHHHHHHHhH
Q 006997          406 NGYAIHGMGDQALNLFYKMQ  425 (622)
Q Consensus       406 ~~~~~~~~~~~a~~~~~~~~  425 (622)
                      .+|...+++++|...+.+..
T Consensus        39 vafRnAk~feKakdcLlkA~   58 (308)
T KOG1585|consen   39 VAFRNAKKFEKAKDCLLKAS   58 (308)
T ss_pred             HHHHhhccHHHHHHHHHHHH
Confidence            34444455555555444444

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=92.70  E-value=4  Score=32.09  Aligned_cols=139  Identities=14%  Similarity=0.163  Sum_probs=73.6

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHH
Q 006997          308 AQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAK  387 (622)
Q Consensus       308 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  387 (622)
                      .-.|..++..++..+....   .+..-++.++.-....-+-+...++++.+-+.   .|.          ..+|++....
T Consensus        13 ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGki---FDi----------s~C~NlKrVi   76 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKI---FDI----------SKCGNLKRVI   76 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGG---S-G----------GG-S-THHHH
T ss_pred             HHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------hhhcchHHHH
Confidence            4456777777777776653   24444555554444444444444444443322   111          1233333333


Q ss_pred             HHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCC
Q 006997          388 EVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGI  466 (622)
Q Consensus       388 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  466 (622)
                      ..+-.+- .+.......+......|+-+.-.+++..+.+  +-.|++.....+..+|.+.|+..++.+++.++.++ |+
T Consensus        77 ~C~~~~n-~~se~vD~ALd~lv~~~kkDqLdki~~~l~k--n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek-G~  151 (161)
T PF09205_consen   77 ECYAKRN-KLSEYVDLALDILVKQGKKDQLDKIYNELKK--NEEINPEFLVKIANAYKKLGNTREANELLKEACEK-GL  151 (161)
T ss_dssp             HHHHHTT----HHHHHHHHHHHHTT-HHHHHHHHHHH-------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT-T-
T ss_pred             HHHHHhc-chHHHHHHHHHHHHHhccHHHHHHHHHHHhh--ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh-ch
Confidence            3332222 1233445566777888888888888888763  34577777888888899999998888888888866 54

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=92.66  E-value=0.18  Score=26.83  Aligned_cols=24  Identities=17%  Similarity=0.070  Sum_probs=19.6

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHH
Q 006997          537 GNYILMANLFTSAGMWKEAATARG  560 (622)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~~  560 (622)
                      .....++.++...|++++|..+++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHh
Confidence            456788888899999999888775

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=92.56  E-value=1.1  Score=37.88  Aligned_cols=101  Identities=13%  Similarity=0.084  Sum_probs=65.9

Q ss_pred             HHhccCchHHHHHHHHHhHHhcCCCCC-----hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhc
Q 006997          443 ACSHSGMVDDGLSFFKSMQSNFGIEPS-----IEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKH  515 (622)
Q Consensus       443 ~~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~  515 (622)
                      -+...|++++|..-|..++..  .++.     ...|..-..++.+.+.++.|++-..+.. ..|. ...+..-..+|.+.
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~--cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~  181 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALES--CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKM  181 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHh--CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhh
Confidence            345667777777777776643  2222     2344455566777888888887777765 3332 33343445577778


Q ss_pred             CCHHHHHHHHHHHHccCCCCCchHHHHHHH
Q 006997          516 HNVELGEYAAKNLLTLNPGSTGNYILMANL  545 (622)
Q Consensus       516 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  545 (622)
                      ..++.|++-|+++++.+|....+....+.+
T Consensus       182 ek~eealeDyKki~E~dPs~~ear~~i~rl  211 (271)
T KOG4234|consen  182 EKYEEALEDYKKILESDPSRREAREAIARL  211 (271)
T ss_pred             hhHHHHHHHHHHHHHhCcchHHHHHHHHhc
Confidence            889999999999999999765555544443

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=92.51  E-value=0.23  Score=41.32  Aligned_cols=33  Identities=21%  Similarity=0.272  Sum_probs=19.7

Q ss_pred             HHHHHHHHHHHHccCCCCCchHHHHHHHHHhcC
Q 006997          518 VELGEYAAKNLLTLNPGSTGNYILMANLFTSAG  550 (622)
Q Consensus       518 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  550 (622)
                      +++|+.-|++++.++|+...++.++|.+|...|
T Consensus        51 iedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A   83 (186)
T PF06552_consen   51 IEDAISKFEEALKINPNKHDALWCLGNAYTSLA   83 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHH
Confidence            345556666666677776777777777765543

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>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=92.46  E-value=0.021  Score=47.03  Aligned_cols=86  Identities=14%  Similarity=0.134  Sum_probs=61.7

Q ss_pred             HHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHHHHHHHhCCCc
Q 006997           35 LVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLN  114 (622)
Q Consensus        35 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~  114 (622)
                      .++..+.+.+.+......++.+...+...+....+.++..|++.++.+...++++...  .   .-...++..|-+.|.+
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~--~---yd~~~~~~~c~~~~l~   86 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSN--N---YDLDKALRLCEKHGLY   86 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSS--S---S-CTHHHHHHHTTTSH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccccc--c---cCHHHHHHHHHhcchH
Confidence            4567777788888888888888877656678888999999999988888888888443  1   3335566666667777


Q ss_pred             hHHHHHHHHHH
Q 006997          115 DEAILVLKEMW  125 (622)
Q Consensus       115 ~~A~~~~~~m~  125 (622)
                      ++|.-++.++.
T Consensus        87 ~~a~~Ly~~~~   97 (143)
T PF00637_consen   87 EEAVYLYSKLG   97 (143)
T ss_dssp             HHHHHHHHCCT
T ss_pred             HHHHHHHHHcc
Confidence            77777666543

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.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=92.45  E-value=0.14  Score=29.05  Aligned_cols=29  Identities=17%  Similarity=0.117  Sum_probs=20.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          538 NYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       538 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      ++..++.++.+.|++++|.+.|+++.+..
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~~   30 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIKRY   30 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            45667777777777777777777776643

>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=92.37  E-value=0.018  Score=47.40  Aligned_cols=86  Identities=21%  Similarity=0.241  Sum_probs=57.0

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHH
Q 006997          338 TLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQA  417 (622)
Q Consensus       338 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  417 (622)
                      ++..+.+.+.+.....+++.+...+...+....+.++..|++.++.++..++++....   .-...++..|.+.|.++++
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            4555666677777777788887766566788888888889888887888888874333   2233455566666666666


Q ss_pred             HHHHHHhHH
Q 006997          418 LNLFYKMQH  426 (622)
Q Consensus       418 ~~~~~~~~~  426 (622)
                      .-++.++..
T Consensus        90 ~~Ly~~~~~   98 (143)
T PF00637_consen   90 VYLYSKLGN   98 (143)
T ss_dssp             HHHHHCCTT
T ss_pred             HHHHHHccc
Confidence            666665443

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=92.35  E-value=4.3  Score=33.67  Aligned_cols=128  Identities=15%  Similarity=0.112  Sum_probs=85.2

Q ss_pred             HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChh-HHHHHHHHHHhcCChHHHHHHHHhCC-CCCcHHhHH---HHH
Q 006997          435 VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIE-HYLCLVDLLGRAGRFDLALKTIHEMP-VEVQAQVWA---PLL  509 (622)
Q Consensus       435 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~---~l~  509 (622)
                      ..|...+. ..+.+..++|+.-|..+.+. |...=+. ..-.........|+..+|...|+++. ..|.+....   .|-
T Consensus        60 d~flaAL~-lA~~~k~d~Alaaf~~lekt-g~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlr  137 (221)
T COG4649          60 DAFLAALK-LAQENKTDDALAAFTDLEKT-GYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLR  137 (221)
T ss_pred             HHHHHHHH-HHHcCCchHHHHHHHHHHhc-CCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHH
Confidence            34444443 34567889999999988754 3322111 11123345678899999999999986 333333332   222


Q ss_pred             H--HHHhcCCHHHHHHHHHHHHc-cCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          510 S--ACMKHHNVELGEYAAKNLLT-LNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       510 ~--~~~~~~~~~~a~~~~~~~~~-~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      .  .+..+|.++......+.+.. -+|-.......|+-.-.+.|++.+|.+.|+.+.+
T Consensus       138 aa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         138 AAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            2  34567888887776665543 4555566778899999999999999999998876

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=92.30  E-value=0.39  Score=41.77  Aligned_cols=79  Identities=14%  Similarity=0.137  Sum_probs=47.8

Q ss_pred             CChHHHHHHHHhCC-CCCcHHh-HHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHH
Q 006997          484 GRFDLALKTIHEMP-VEVQAQV-WAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGL  561 (622)
Q Consensus       484 g~~~~A~~~~~~~~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  561 (622)
                      .+++.|+..+.+.. ..|...+ |..=+..+.+..+++.+..-..+++++.|+....++.++..+.....+++|+..+++
T Consensus        24 k~y~~ai~~y~raI~~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~eaI~~Lqr  103 (284)
T KOG4642|consen   24 KRYDDAIDCYSRAICINPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDEAIKVLQR  103 (284)
T ss_pred             hhhchHHHHHHHHHhcCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhccccHHHHHHHH
Confidence            34455555554443 4555433 334444555566666666666677777776666666777777777777777766666


Q ss_pred             h
Q 006997          562 M  562 (622)
Q Consensus       562 ~  562 (622)
                      .
T Consensus       104 a  104 (284)
T KOG4642|consen  104 A  104 (284)
T ss_pred             H
Confidence            5

>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=92.20  E-value=0.96  Score=29.22  Aligned_cols=51  Identities=10%  Similarity=0.008  Sum_probs=38.7

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhhCCCccCCCceEEEECCeEEEEEecCCCCcchHHHHHHHHHHHHHHHHcCc
Q 006997          538 NYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLLEAGY  614 (622)
Q Consensus       538 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~g~  614 (622)
                      ..+.++-.+.+.|++++|.+..+.+.+.                          .|...++......+.+.|+++|.
T Consensus         3 ~lY~lAig~ykl~~Y~~A~~~~~~lL~~--------------------------eP~N~Qa~~L~~~i~~~i~kdgl   53 (53)
T PF14853_consen    3 CLYYLAIGHYKLGEYEKARRYCDALLEI--------------------------EPDNRQAQSLKELIEDKIQKDGL   53 (53)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH--------------------------TTS-HHHHHHHHHHHHHHHHTTT
T ss_pred             hHHHHHHHHHHhhhHHHHHHHHHHHHhh--------------------------CCCcHHHHHHHHHHHHHHhccCC
Confidence            3567788899999999999999999873                          55666666666777888888874

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=92.20  E-value=15  Score=37.35  Aligned_cols=112  Identities=23%  Similarity=0.148  Sum_probs=67.5

Q ss_pred             CChHHHHHHHHHHHHhCCCCCchhHH-HHHHHHHhcCCHHHHHHHHhhcCCC-------CHHHHHHHHHHHHhcCChHHH
Q 006997          245 GNLFLALSMHSLLLKSGYNNEDPLDN-LLVSMYTKCGDLELARRVFDAVLEK-------SVFLWTSMIGGYAQLGYPSEA  316 (622)
Q Consensus       245 ~~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~a  316 (622)
                      .+.+.+.+++..+.++  -|+...|. .-...+...|++++|.+.|+.....       ....+--+...+.-.++|++|
T Consensus       247 ~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A  324 (468)
T PF10300_consen  247 VPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEA  324 (468)
T ss_pred             CCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHH
Confidence            4556667777766665  33433332 3345566677888888887765431       123344456667778889999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHH-hccCCh-------HHHHHHHHHHH
Q 006997          317 VNLFKRLLKTSVRPNEATLATTLSAC-AELGSL-------SKGKEIEEYIV  359 (622)
Q Consensus       317 ~~~~~~m~~~~~~~~~~~~~~ll~~~-~~~~~~-------~~a~~~~~~~~  359 (622)
                      ...|..+.+.. ..+..+|.-+..+| ...++.       ++|.+++.++.
T Consensus       325 ~~~f~~L~~~s-~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  325 AEYFLRLLKES-KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHHHHHHhcc-ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence            98888888753 33445555444433 445555       66666666553

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.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.10  E-value=18  Score=38.21  Aligned_cols=54  Identities=9%  Similarity=0.127  Sum_probs=37.4

Q ss_pred             HHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHc
Q 006997          476 LVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLT  530 (622)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  530 (622)
                      ++..+.+..+.+.+..+.+... +.++..|..++..+.+.+..+.-.+...++++
T Consensus       711 l~~~~~q~~d~E~~it~~~~~g-~~~p~l~~~~L~yF~~~~~i~~~~~~v~~vl~  764 (933)
T KOG2114|consen  711 LMLYFQQISDPETVITLCERLG-KEDPSLWLHALKYFVSEESIEDCYEIVYKVLE  764 (933)
T ss_pred             HHHHHHHhhChHHHHHHHHHhC-ccChHHHHHHHHHHhhhcchhhHHHHHHHHHH
Confidence            4556667777778888777776 33677788888888877766666655555543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=91.77  E-value=0.77  Score=41.86  Aligned_cols=62  Identities=15%  Similarity=0.164  Sum_probs=45.6

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          503 QVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      .++..++..+...|+++.+...++++++.+|-+-..|..+...|.+.|+...|+..|+++.+
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            34555666666777777777777777777777777777777777777777777777777655

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=91.64  E-value=19  Score=37.51  Aligned_cols=212  Identities=11%  Similarity=0.070  Sum_probs=105.1

Q ss_pred             ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh-cCChHHHHHHhccCCCC-ChhHHHHHHHHHH----HcCCHHHHHHH
Q 006997          347 SLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSK-CGRINKAKEVFERVPDK-DLAVWSAMINGYA----IHGMGDQALNL  420 (622)
Q Consensus       347 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~A~~~~~~~~~~-~~~~~~~l~~~~~----~~~~~~~a~~~  420 (622)
                      +.+.|..++....+.|. |+....-..+..... ..+...|.++|...-.. .+..+-.+...|.    ...+...|..+
T Consensus       308 d~~~A~~~~~~aA~~g~-~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A~~~  386 (552)
T KOG1550|consen  308 DYEKALKLYTKAAELGN-PDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELAFAY  386 (552)
T ss_pred             cHHHHHHHHHHHHhcCC-chHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHHHHH
Confidence            44556666666655552 222222211111111 23455666666655432 2222222222221    12356777777


Q ss_pred             HHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHH---Hh----cCChHHHHHHH
Q 006997          421 FYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLL---GR----AGRFDLALKTI  493 (622)
Q Consensus       421 ~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~---~~----~g~~~~A~~~~  493 (622)
                      +.+..+ .| .|-..--...+..+.. +.++.+.-.+..+... |.+-....-..+....   ..    ..+.+.+...+
T Consensus       387 ~k~aA~-~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~-g~~~~q~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~  462 (552)
T KOG1550|consen  387 YKKAAE-KG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAEL-GYEVAQSNAAYLLDQSEEDLFSRGVISTLERAFSLY  462 (552)
T ss_pred             HHHHHH-cc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHh-hhhHHhhHHHHHHHhccccccccccccchhHHHHHH
Confidence            777776 55 3332222223333333 5555555554444432 2221111111111111   11    12455566666


Q ss_pred             HhCCCCCcHHhHHHHHHHHHh----cCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhc-C--ChHHHHHHHHHhhhCC
Q 006997          494 HEMPVEVQAQVWAPLLSACMK----HHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSA-G--MWKEAATARGLMDDRR  566 (622)
Q Consensus       494 ~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g--~~~~A~~~~~~~~~~~  566 (622)
                      .+....-+......+...|..    ..+++.|...|.++.+..   +.....++.++..- |  .+..|.+++++..+.+
T Consensus       463 ~~a~~~g~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~---~~~~~nlg~~~e~g~g~~~~~~a~~~~~~~~~~~  539 (552)
T KOG1550|consen  463 SRAAAQGNADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG---AQALFNLGYMHEHGEGIKVLHLAKRYYDQASEED  539 (552)
T ss_pred             HHHHhccCHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh---hHHHhhhhhHHhcCcCcchhHHHHHHHHHHHhcC
Confidence            665545555555566655533    346888888888887766   67777888887652 2  2688888888876643

>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=91.58  E-value=0.34  Score=27.74  Aligned_cols=28  Identities=14%  Similarity=0.207  Sum_probs=25.6

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          537 GNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      .+|..++.+|...|++++|.+.|++..+
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4688999999999999999999998876

...

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=91.52  E-value=1  Score=33.22  Aligned_cols=46  Identities=22%  Similarity=0.165  Sum_probs=35.3

Q ss_pred             HHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          522 EYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       522 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ...+++.++.+|+|......++..+...|++++|.+.+-.+.+++.
T Consensus         8 ~~al~~~~a~~P~D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr   53 (90)
T PF14561_consen    8 IAALEAALAANPDDLDARYALADALLAAGDYEEALDQLLELVRRDR   53 (90)
T ss_dssp             HHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-T
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc
Confidence            4566777888888888888999999999999999888888876543

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=91.41  E-value=10  Score=36.89  Aligned_cols=67  Identities=24%  Similarity=0.231  Sum_probs=57.5

Q ss_pred             CCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCC----CCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          499 EVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNP----GSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       499 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      .....+|..++..+++.|.++.|...+.++...++    ..+.+....+..+...|+..+|...++...+.
T Consensus       143 ~~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~  213 (352)
T PF02259_consen  143 EELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC  213 (352)
T ss_pred             hHHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            34467899999999999999999999999988652    25678888899999999999999999988873

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=91.37  E-value=0.36  Score=27.29  Aligned_cols=31  Identities=16%  Similarity=0.057  Sum_probs=25.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHccCCCC
Q 006997          505 WAPLLSACMKHHNVELGEYAAKNLLTLNPGS  535 (622)
Q Consensus       505 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  535 (622)
                      +-.++.++.+.|+.++|.+.++++++..|++
T Consensus         3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~P~s   33 (33)
T PF13174_consen    3 LYRLARCYYKLGDYDEAIEYFQRLIKRYPDS   33 (33)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCcCC
Confidence            4456777888899999999999999988853

>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=91.35  E-value=12  Score=34.80  Aligned_cols=60  Identities=12%  Similarity=0.039  Sum_probs=25.3

Q ss_pred             HHHHHHHHHhccCChHHH---HHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCC
Q 006997          334 TLATTLSACAELGSLSKG---KEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVP  394 (622)
Q Consensus       334 ~~~~ll~~~~~~~~~~~a---~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  394 (622)
                      ++..++.++...+..+..   ..+++.+... .+..+.++..-+..+.+.++.+.+.+.+.+|.
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e-~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi  148 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESE-YGNKPEVFLLKLEILLKSFDEEEYEEILMRMI  148 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHhccCChhHHHHHHHHHH
Confidence            344455555555444333   2333333221 12223333333444444555555555555544

It is also involved in sporulation [].

>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=90.85  E-value=14  Score=34.48  Aligned_cols=21  Identities=19%  Similarity=-0.010  Sum_probs=14.8

Q ss_pred             HHHHHhcCChHHHHHHHHHhh
Q 006997          543 ANLFTSAGMWKEAATARGLMD  563 (622)
Q Consensus       543 ~~~~~~~g~~~~A~~~~~~~~  563 (622)
                      +....+.++|++|.+.|+...
T Consensus       253 ~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  253 GKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHhhcCHHHHHHHHHHHH
Confidence            455677788888888877543

It is also involved in sporulation [].

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=90.84  E-value=0.54  Score=28.42  Aligned_cols=27  Identities=15%  Similarity=-0.011  Sum_probs=12.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHc
Q 006997          504 VWAPLLSACMKHHNVELGEYAAKNLLT  530 (622)
Q Consensus       504 ~~~~l~~~~~~~~~~~~a~~~~~~~~~  530 (622)
                      +++.|...|...|++++|+.+++++++
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            344444444455555555555554443

>PRK09687 putative lyase; Provisional

Probab=90.73  E-value=14  Score=34.37  Aligned_cols=68  Identities=10%  Similarity=-0.152  Sum_probs=29.6

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHH
Q 006997          468 PSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYI  540 (622)
Q Consensus       468 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  540 (622)
                      ++..+-...+.++.+.|+. .|+..+-+....++  .....+.+....|+. +|...+.++++.+| |+.+..
T Consensus       204 ~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~~~-d~~v~~  271 (280)
T PRK09687        204 KNEEIRIEAIIGLALRKDK-RVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYKFD-DNEIIT  271 (280)
T ss_pred             CChHHHHHHHHHHHccCCh-hHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhhCC-ChhHHH
Confidence            3444444445555555542 33333332221222  122344455555553 45555555555555 333333

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=90.72  E-value=0.76  Score=39.40  Aligned_cols=91  Identities=16%  Similarity=0.123  Sum_probs=55.8

Q ss_pred             HHhccCchHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHH
Q 006997          443 ACSHSGMVDDGLSFFKSMQSNFGIEPS-IEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVE  519 (622)
Q Consensus       443 ~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~  519 (622)
                      .|-+.|-+.-|+--|.+..   .+.|+ +.+||-|.--+...|+++.|.+.|+... .+|. ..+...-+-++.--|+++
T Consensus        74 lYDSlGL~~LAR~DftQaL---ai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~  150 (297)
T COG4785          74 LYDSLGLRALARNDFSQAL---AIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYK  150 (297)
T ss_pred             hhhhhhHHHHHhhhhhhhh---hcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchH
Confidence            3566677777777777666   45665 5667777777777777777777777765 3333 112111111223346777


Q ss_pred             HHHHHHHHHHccCCCCC
Q 006997          520 LGEYAAKNLLTLNPGST  536 (622)
Q Consensus       520 ~a~~~~~~~~~~~p~~~  536 (622)
                      .|.+-+.+--+.+|++|
T Consensus       151 LAq~d~~~fYQ~D~~DP  167 (297)
T COG4785         151 LAQDDLLAFYQDDPNDP  167 (297)
T ss_pred             hhHHHHHHHHhcCCCCh
Confidence            77777777777777655

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=90.72  E-value=0.97  Score=41.25  Aligned_cols=71  Identities=13%  Similarity=0.079  Sum_probs=60.2

Q ss_pred             hhHHHHHHHhhcCCChhHHHHHhccCCCC-CCCcchHHHHHHHHHhCCCchHHHHHHHHHHH-----cCCCCChhhH
Q 006997           66 FVQTGLIDMYSKCSDFVSSRKVLDEMPVR-LRSVVSWNSIISAHSRACLNDEAILVLKEMWV-----LGLELSASTF  136 (622)
Q Consensus        66 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~-----~~~~p~~~t~  136 (622)
                      .++..++..+..+|+.+.+.+.++++... +-+...|..++.+|.++|+...|+..|+.+.+     .|+.|...+.
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~  230 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELR  230 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHH
Confidence            45667888889999999999999988766 67888999999999999999999999999875     4677765544

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=90.56  E-value=1.4  Score=32.29  Aligned_cols=45  Identities=13%  Similarity=0.183  Sum_probs=28.5

Q ss_pred             hHHHHHHHHHhCCCCCCcccHHHHHHHhhccCChhhHHHHHHHHH
Q 006997           13 ETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVL   57 (622)
Q Consensus        13 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~   57 (622)
                      +..+-++.+...++-|++....+.|++|.+.+|+..|.++++-+.
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK   69 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIK   69 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            344444455555666666667777777777777777777776655

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.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=90.41  E-value=10  Score=32.31  Aligned_cols=91  Identities=14%  Similarity=0.061  Sum_probs=65.9

Q ss_pred             HHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHH-----HHHHHHHhcCChHHHHHHHHhCCCCCcHHh--HHHHHHH
Q 006997          439 SILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYL-----CLVDLLGRAGRFDLALKTIHEMPVEVQAQV--WAPLLSA  511 (622)
Q Consensus       439 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~l~~~  511 (622)
                      .+...+...|++++|...++....    .|....+.     .|.+.....|++++|++.++... .++-..  ...-+..
T Consensus        94 ~lAk~~ve~~~~d~A~aqL~~~l~----~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~-~~~w~~~~~elrGDi  168 (207)
T COG2976          94 ELAKAEVEANNLDKAEAQLKQALA----QTKDENLKALAALRLARVQLQQKKADAALKTLDTIK-EESWAAIVAELRGDI  168 (207)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHc----cchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccc-cccHHHHHHHHhhhH
Confidence            344567788999999999887763    23323333     35567788999999999999876 333222  3334567


Q ss_pred             HHhcCCHHHHHHHHHHHHccCCC
Q 006997          512 CMKHHNVELGEYAAKNLLTLNPG  534 (622)
Q Consensus       512 ~~~~~~~~~a~~~~~~~~~~~p~  534 (622)
                      +...|+-++|+..|+++++.++.
T Consensus       169 ll~kg~k~~Ar~ay~kAl~~~~s  191 (207)
T COG2976         169 LLAKGDKQEARAAYEKALESDAS  191 (207)
T ss_pred             HHHcCchHHHHHHHHHHHHccCC
Confidence            88999999999999999998753

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.21  E-value=0.21  Score=45.95  Aligned_cols=88  Identities=20%  Similarity=0.217  Sum_probs=64.5

Q ss_pred             hcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHH
Q 006997          482 RAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATAR  559 (622)
Q Consensus       482 ~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  559 (622)
                      ..|.+++|++.+...+  .++....+..-.+++.+.+....|++-+..+++++|+...-|-.-+.+..-+|+|++|...+
T Consensus       126 n~G~~~~ai~~~t~ai~lnp~~a~l~~kr~sv~lkl~kp~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~e~aa~dl  205 (377)
T KOG1308|consen  126 NDGEFDTAIELFTSAIELNPPLAILYAKRASVFLKLKKPNAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNWEEAAHDL  205 (377)
T ss_pred             cCcchhhhhcccccccccCCchhhhcccccceeeeccCCchhhhhhhhhhccCcccccccchhhHHHHHhhchHHHHHHH
Confidence            4566777777777665  33334445555666777788888888888888888888888888888888888888888888


Q ss_pred             HHhhhCCCcc
Q 006997          560 GLMDDRRLTK  569 (622)
Q Consensus       560 ~~~~~~~~~~  569 (622)
                      ....+.+...
T Consensus       206 ~~a~kld~dE  215 (377)
T KOG1308|consen  206 ALACKLDYDE  215 (377)
T ss_pred             HHHHhccccH
Confidence            8887766543

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=89.91  E-value=1.6  Score=38.35  Aligned_cols=62  Identities=13%  Similarity=0.023  Sum_probs=53.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          505 WAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       505 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      +.++-+++...|++-++++....++...|+|..+|+..+.+....=+.++|..-|.++++.+
T Consensus       233 llNy~QC~L~~~e~yevleh~seiL~~~~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~ld  294 (329)
T KOG0545|consen  233 LLNYCQCLLKKEEYYEVLEHCSEILRHHPGNVKAYFRRAKAHAAVWNEAEAKADLQKVLELD  294 (329)
T ss_pred             HHhHHHHHhhHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhcCHHHHHHHHHHHHhcC
Confidence            33444556678999999999999999999999999999999999999999999999888743

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=89.85  E-value=7.5  Score=33.18  Aligned_cols=97  Identities=10%  Similarity=0.029  Sum_probs=48.7

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH--HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHH--H
Q 006997          400 VWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDA--VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYL--C  475 (622)
Q Consensus       400 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~--~  475 (622)
                      .+..+..-|++.|+.+.|++.|.++.+ ....|..  ..+..+++.....+++..+.....++........+...-+  .
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~-~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARD-YCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhh-hcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            344455566666666666666666665 4434432  2345556666666666666666655543211111111111  1


Q ss_pred             HH--HHHHhcCChHHHHHHHHhCC
Q 006997          476 LV--DLLGRAGRFDLALKTIHEMP  497 (622)
Q Consensus       476 l~--~~~~~~g~~~~A~~~~~~~~  497 (622)
                      ..  -.+...+++.+|-+.|-...
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccC
Confidence            11  12234567777777766654

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.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=89.69  E-value=0.59  Score=28.25  Aligned_cols=28  Identities=18%  Similarity=0.166  Sum_probs=24.6

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          537 GNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      .++..++.+|...|++++|..++++..+
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4678999999999999999999999876

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=89.56  E-value=1.5  Score=32.51  Aligned_cols=43  Identities=12%  Similarity=0.173  Sum_probs=22.2

Q ss_pred             HHHHHHhCCCCCCcccHHHHHHHhhccCChhhHHHHHHHHHHh
Q 006997           17 TYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKV   59 (622)
Q Consensus        17 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~   59 (622)
                      -++.+-..++-|++....+.|++|.+.+|+..|.++++-+...
T Consensus        32 glN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K   74 (108)
T PF02284_consen   32 GLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK   74 (108)
T ss_dssp             HHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3344444455666666666666666666666666666655543

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 ....

>smart00028 TPR Tetratricopeptide repeats

Probab=89.45  E-value=0.77  Score=25.26  Aligned_cols=29  Identities=21%  Similarity=0.133  Sum_probs=14.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHccCC
Q 006997          505 WAPLLSACMKHHNVELGEYAAKNLLTLNP  533 (622)
Q Consensus       505 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  533 (622)
                      |..++..+...++++.|...++++++..|
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            34444444555555555555555555444

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.

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=89.44  E-value=8.8  Score=40.45  Aligned_cols=86  Identities=14%  Similarity=-0.008  Sum_probs=35.8

Q ss_pred             HHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhC-CCCCchhHHHHHHHHHh---
Q 006997          203 IGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSG-YNNEDPLDNLLVSMYTK---  278 (622)
Q Consensus       203 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~---  278 (622)
                      ...+.-.|+++.|++.+-.  ..+...|.+++...+..+.-.+-.+...   ..+.... -.|...-+..|+..|.+   
T Consensus       265 f~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F~  339 (613)
T PF04097_consen  265 FQVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSFE  339 (613)
T ss_dssp             HHHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTTT
T ss_pred             HHHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHHh
Confidence            3445557788888877766  2233455666655555544332222211   2222211 01111445566666654   


Q ss_pred             cCCHHHHHHHHhhcC
Q 006997          279 CGDLELARRVFDAVL  293 (622)
Q Consensus       279 ~~~~~~a~~~~~~~~  293 (622)
                      ..+...|.+.|--+.
T Consensus       340 ~td~~~Al~Y~~li~  354 (613)
T PF04097_consen  340 ITDPREALQYLYLIC  354 (613)
T ss_dssp             TT-HHHHHHHHHGGG
T ss_pred             ccCHHHHHHHHHHHH
Confidence            356777777776553

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>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=89.34  E-value=1.3  Score=28.68  Aligned_cols=37  Identities=19%  Similarity=0.110  Sum_probs=28.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHH
Q 006997          505 WAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYIL  541 (622)
Q Consensus       505 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  541 (622)
                      .-.+.-++.+.|+++.|.+..+.+++.+|+|..+...
T Consensus         4 lY~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa~~L   40 (53)
T PF14853_consen    4 LYYLAIGHYKLGEYEKARRYCDALLEIEPDNRQAQSL   40 (53)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHHHHH
Confidence            3446667889999999999999999999987655443

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=89.20  E-value=10  Score=30.71  Aligned_cols=52  Identities=6%  Similarity=-0.022  Sum_probs=33.8

Q ss_pred             ccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCC
Q 006997           42 NINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVR   94 (622)
Q Consensus        42 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~   94 (622)
                      ...+++.+..+++.|.-.. +.....-..-...+...|++.+|.++|+++...
T Consensus        22 ~~~d~~D~e~lLdALrvLr-P~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLR-PNLKELDMFDGWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhC-CCccccchhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence            4677788888888777664 222222223344566778888888888888754

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=88.89  E-value=0.71  Score=44.77  Aligned_cols=86  Identities=14%  Similarity=0.123  Sum_probs=59.9

Q ss_pred             HHHhcCChHHHHHHHHhCC-CCCcHHhHHHH-HHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHH
Q 006997          479 LLGRAGRFDLALKTIHEMP-VEVQAQVWAPL-LSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAA  556 (622)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  556 (622)
                      .+...+.++.|..++.++. ..|+-..|-+. ..++.+.+++..|..-+.++++++|.....|..-+.++.+.+++.+|.
T Consensus        13 ~~l~~~~fd~avdlysKaI~ldpnca~~~anRa~a~lK~e~~~~Al~Da~kaie~dP~~~K~Y~rrg~a~m~l~~~~~A~   92 (476)
T KOG0376|consen   13 EALKDKVFDVAVDLYSKAIELDPNCAIYFANRALAHLKVESFGGALHDALKAIELDPTYIKAYVRRGTAVMALGEFKKAL   92 (476)
T ss_pred             hhcccchHHHHHHHHHHHHhcCCcceeeechhhhhheeechhhhHHHHHHhhhhcCchhhheeeeccHHHHhHHHHHHHH
Confidence            3445566666666666665 45553333222 256677788888888888888888887888888888888888888888


Q ss_pred             HHHHHhhh
Q 006997          557 TARGLMDD  564 (622)
Q Consensus       557 ~~~~~~~~  564 (622)
                      ..|++...
T Consensus        93 ~~l~~~~~  100 (476)
T KOG0376|consen   93 LDLEKVKK  100 (476)
T ss_pred             HHHHHhhh
Confidence            88876543

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=88.87  E-value=1.4  Score=43.79  Aligned_cols=100  Identities=14%  Similarity=0.037  Sum_probs=70.0

Q ss_pred             hccCchHHHHHHHHHhHHhcCCCCC--hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHH
Q 006997          445 SHSGMVDDGLSFFKSMQSNFGIEPS--IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVEL  520 (622)
Q Consensus       445 ~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~  520 (622)
                      ...|+...|...+..+.   ...|.  -.....|.+.+.+.|..-+|-.++.+..  ....+.++..++.++....|+++
T Consensus       618 r~~gn~~~a~~cl~~a~---~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~~sepl~~~~~g~~~l~l~~i~~  694 (886)
T KOG4507|consen  618 RAVGNSTFAIACLQRAL---NLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAINSSEPLTFLSLGNAYLALKNISG  694 (886)
T ss_pred             eecCCcHHHHHHHHHHh---ccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhcccCchHHHhcchhHHHHhhhHH
Confidence            44678888888877766   34552  2334456677777777777777776543  33345567777888888888888


Q ss_pred             HHHHHHHHHccCCCCCchHHHHHHHHH
Q 006997          521 GEYAAKNLLTLNPGSTGNYILMANLFT  547 (622)
Q Consensus       521 a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (622)
                      |++.+++++.++|+++..-..|..+-+
T Consensus       695 a~~~~~~a~~~~~~~~~~~~~l~~i~c  721 (886)
T KOG4507|consen  695 ALEAFRQALKLTTKCPECENSLKLIRC  721 (886)
T ss_pred             HHHHHHHHHhcCCCChhhHHHHHHHHH
Confidence            888888888888888877777765544

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=88.87  E-value=2.4  Score=36.30  Aligned_cols=70  Identities=11%  Similarity=0.067  Sum_probs=46.1

Q ss_pred             HHHHHHHHhCCCCC--cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC----CCchHHHHHHHHHhcCChHHHH
Q 006997          487 DLALKTIHEMPVEV--QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG----STGNYILMANLFTSAGMWKEAA  556 (622)
Q Consensus       487 ~~A~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~A~  556 (622)
                      ++|.+.|-.+...|  +....-..+.+|....|.++++.++-+++++.+.    |+.++..|+.+|.+.|+++.|-
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            45666665554222  2223333444455567888888888888885432    5788888888898888888773

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=88.24  E-value=5.9  Score=38.58  Aligned_cols=88  Identities=20%  Similarity=0.164  Sum_probs=36.8

Q ss_pred             HhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CC-CcHHhHHHHHHHHHhcCCHHHH
Q 006997          444 CSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-VE-VQAQVWAPLLSACMKHHNVELG  521 (622)
Q Consensus       444 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-~~~~~~~~l~~~~~~~~~~~~a  521 (622)
                      +...|+++.+.+.+.....  -+.....+..++++.....|++++|..+-+-|. .+ .++.............|-++++
T Consensus       333 ~~~lg~ye~~~~~~s~~~~--~~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~  410 (831)
T PRK15180        333 FSHLGYYEQAYQDISDVEK--IIGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKS  410 (831)
T ss_pred             HHHhhhHHHHHHHhhchhh--hhcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccCChhheeeecccHHHHhHHHHH
Confidence            3444555555555544431  112233444445555555555555555544443 11 1111121122222334445555


Q ss_pred             HHHHHHHHccCC
Q 006997          522 EYAAKNLLTLNP  533 (622)
Q Consensus       522 ~~~~~~~~~~~p  533 (622)
                      .-.+++++.++|
T Consensus       411 ~~~wk~~~~~~~  422 (831)
T PRK15180        411 YHYWKRVLLLNP  422 (831)
T ss_pred             HHHHHHHhccCC
Confidence            555555555444

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=87.95  E-value=40  Score=35.72  Aligned_cols=45  Identities=18%  Similarity=0.245  Sum_probs=27.8

Q ss_pred             ChhhHhHHHHHHHhcCChHHHHHHHhhcCC---CCcchHHHHHHHHHcC
Q 006997          164 EIPLANSVMSMYAKFGKVNEARSIFDEIGE---TSIVSWTTIIGGYVNV  209 (622)
Q Consensus       164 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~  209 (622)
                      +.++| ++|-.+.|+|++++|.++..+...   .....+-..+..|...
T Consensus       111 ~~p~W-a~Iyy~LR~G~~~~A~~~~~~~~~~~~~~~~~f~~~l~~~~~s  158 (613)
T PF04097_consen  111 GDPIW-ALIYYCLRCGDYDEALEVANENRNQFQKIERSFPTYLKAYASS  158 (613)
T ss_dssp             TEEHH-HHHHHHHTTT-HHHHHHHHHHTGGGS-TTTTHHHHHHHHCTTT
T ss_pred             CCccH-HHHHHHHhcCCHHHHHHHHHHhhhhhcchhHHHHHHHHHHHhC
Confidence            33444 466678899999999999933322   3334555666666554

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>PRK09687 putative lyase; Provisional

Probab=87.91  E-value=23  Score=32.98  Aligned_cols=73  Identities=11%  Similarity=0.048  Sum_probs=32.8

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHH
Q 006997          366 NRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSAC  444 (622)
Q Consensus       366 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~  444 (622)
                      +..+-...+.++.+.|+.+-...+.+.+..++  .....+.++...|.. +|...+..+.+   -.||...-...+.+|
T Consensus       205 ~~~VR~~A~~aLg~~~~~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~---~~~d~~v~~~a~~a~  277 (280)
T PRK09687        205 NEEIRIEAIIGLALRKDKRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLY---KFDDNEIITKAIDKL  277 (280)
T ss_pred             ChHHHHHHHHHHHccCChhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHh---hCCChhHHHHHHHHH
Confidence            44444445555555555333333333333222  122344555555553 45555555554   334554444444443

>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=87.84  E-value=6.5  Score=33.57  Aligned_cols=62  Identities=16%  Similarity=0.209  Sum_probs=36.6

Q ss_pred             hHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCH--hHHHHHHHHHhccCChHHHHHHHHHHHH
Q 006997          198 SWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDL--VVFLNLILGCAQVGNLFLALSMHSLLLK  259 (622)
Q Consensus       198 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~  259 (622)
                      .+..+...|.+.|+.+.|++.|.++++....+..  ..+..+++.+...+++..+...+.++..
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            4555666667777777777777776665433332  2345556666666666666666555543

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.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=87.81  E-value=24  Score=33.10  Aligned_cols=28  Identities=21%  Similarity=0.300  Sum_probs=19.7

Q ss_pred             hhHHHHHHHHHHHCCCCCCHhHHHHHHH
Q 006997          212 VNEAFGLCNQMRRMSVTPDLVVFLNLIL  239 (622)
Q Consensus       212 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~  239 (622)
                      ..++.++++.+.+.|+++....|..+.-
T Consensus       198 v~r~~~l~~~l~~~~~kik~~~yp~lGl  225 (297)
T PF13170_consen  198 VARVIELYNALKKNGVKIKYMHYPTLGL  225 (297)
T ss_pred             HHHHHHHHHHHHHcCCccccccccHHHH
Confidence            3467778888888888877777655443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=87.71  E-value=24  Score=33.17  Aligned_cols=49  Identities=8%  Similarity=0.127  Sum_probs=29.7

Q ss_pred             hhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhc--cC----ChHHHHHHHHHHHHh
Q 006997          212 VNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQ--VG----NLFLALSMHSLLLKS  260 (622)
Q Consensus       212 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~--~~----~~~~a~~~~~~~~~~  260 (622)
                      +++.+.+++.|.+.|.+-+..+|.+..-....  ..    ....+..+|+.|++.
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~  132 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKK  132 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHh
Confidence            34556777888888887777666553333322  12    244567777777764

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=87.54  E-value=7.7  Score=35.66  Aligned_cols=99  Identities=9%  Similarity=0.178  Sum_probs=75.0

Q ss_pred             hCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCC---------CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 006997          260 SGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEK---------SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRP  330 (622)
Q Consensus       260 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~  330 (622)
                      .|.+.+..+...++..-....+++.+...+-++...         ...+|-.++    -.-++++++.++..=+..|+-|
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irll----lky~pq~~i~~l~npIqYGiF~  133 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLL----LKYDPQKAIYTLVNPIQYGIFP  133 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHH----HccChHHHHHHHhCcchhcccc
Confidence            456667777777777777778888888877666432         233333333    3447789999999989999999


Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcC
Q 006997          331 NEATLATTLSACAELGSLSKGKEIEEYIVLNG  362 (622)
Q Consensus       331 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  362 (622)
                      |..+++.+|..+.+.+++..|.++.-.+....
T Consensus       134 dqf~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  134 DQFTFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             chhhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            99999999999999999999988877776543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=87.41  E-value=0.99  Score=25.93  Aligned_cols=24  Identities=17%  Similarity=0.303  Sum_probs=15.1

Q ss_pred             CCchhHHHHHHHHHHhcCChHHHH
Q 006997          364 ESNRQVQTSLIHMFSKCGRINKAK  387 (622)
Q Consensus       364 ~~~~~~~~~l~~~~~~~~~~~~A~  387 (622)
                      |.+..+|+.+...|...|++++|+
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            445666666666666666666654

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=87.22  E-value=1.8  Score=36.20  Aligned_cols=45  Identities=9%  Similarity=0.025  Sum_probs=27.0

Q ss_pred             HHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCcc
Q 006997          518 VELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTK  569 (622)
Q Consensus       518 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  569 (622)
                      +++|...|+++...+|++......| .+.      ++|=++..++.+.+...
T Consensus        96 F~kA~~~FqkAv~~~P~ne~Y~ksL-e~~------~kap~lh~e~~~~~~~~  140 (186)
T PF06552_consen   96 FEKATEYFQKAVDEDPNNELYRKSL-EMA------AKAPELHMEIHKQGLGQ  140 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HHHHHHH-HHH------HTHHHHHHHHHHSSS--
T ss_pred             HHHHHHHHHHHHhcCCCcHHHHHHH-HHH------HhhHHHHHHHHHHHhhh
Confidence            6778888888999999665444333 332      35666777776665433

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=87.13  E-value=7.8  Score=30.70  Aligned_cols=70  Identities=11%  Similarity=0.075  Sum_probs=33.1

Q ss_pred             CCChhHHHHHHHHHHhcCC---hHHHHHHHHhCC--CCCc--HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCC
Q 006997          467 EPSIEHYLCLVDLLGRAGR---FDLALKTIHEMP--VEVQ--AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGST  536 (622)
Q Consensus       467 ~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~--~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  536 (622)
                      .++..+--.+..++.++.+   ..+.+.++++..  ..|+  .....-|.-++.+.++++.+.++.+.+++.+|+|.
T Consensus        29 ~~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~n~  105 (149)
T KOG3364|consen   29 DVSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPNNR  105 (149)
T ss_pred             cchHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCCcH
Confidence            4444444455555555443   333444444443  1121  22233344455555566666666665555555443

>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=87.08  E-value=17  Score=30.50  Aligned_cols=133  Identities=11%  Similarity=0.005  Sum_probs=77.7

Q ss_pred             HHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcC--CHHHHHHHHhhcC
Q 006997          216 FGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCG--DLELARRVFDAVL  293 (622)
Q Consensus       216 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~  293 (622)
                      .++++.+.+.+++|+...+..+++.+.+.|.+...    .+++..++-+|.......+-.+....  -.+-+.+.+.++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            35566666778888888888888888888876554    33444454555444443332222211  1334455555443


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHH
Q 006997          294 EKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVL  360 (622)
Q Consensus       294 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  360 (622)
                          ..+..++..+...|++-+|++..++....    +......++.+..+.+|...-..+++...+
T Consensus        90 ----~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   90 ----TAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             ----hhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                24556677788888888888887765322    222234456666666666555555555544

>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function

Probab=86.75  E-value=26  Score=32.26  Aligned_cols=87  Identities=20%  Similarity=0.159  Sum_probs=46.5

Q ss_pred             CCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHH
Q 006997          159 GLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLI  238 (622)
Q Consensus       159 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  238 (622)
                      +...+++.....+...|.+.|++.+|+..|-.-..++...+-.++......|...++              |...-..+ 
T Consensus        84 ~~~~Gdp~LH~~~a~~~~~e~~~~~A~~Hfl~~~~~~~~~~~~ll~~~~~~~~~~e~--------------dlfi~RaV-  148 (260)
T PF04190_consen   84 SYKFGDPELHHLLAEKLWKEGNYYEAERHFLLGTDPSAFAYVMLLEEWSTKGYPSEA--------------DLFIARAV-  148 (260)
T ss_dssp             S-TT--HHHHHHHHHHHHHTT-HHHHHHHHHTS-HHHHHHHHHHHHHHHHHTSS--H--------------HHHHHHHH-
T ss_pred             CCCCCCHHHHHHHHHHHHhhccHHHHHHHHHhcCChhHHHHHHHHHHHHHhcCCcch--------------hHHHHHHH-
Confidence            345558888889999999999999998877654444333332233333333332222              11111222 


Q ss_pred             HHHhccCChHHHHHHHHHHHHh
Q 006997          239 LGCAQVGNLFLALSMHSLLLKS  260 (622)
Q Consensus       239 ~~~~~~~~~~~a~~~~~~~~~~  260 (622)
                      -.|...+++..|...+....+.
T Consensus       149 L~yL~l~n~~~A~~~~~~f~~~  170 (260)
T PF04190_consen  149 LQYLCLGNLRDANELFDTFTSK  170 (260)
T ss_dssp             HHHHHTTBHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            2345567788888777666544

; PDB: 3LKU_E 2WPV_G.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=86.65  E-value=1.3  Score=27.28  Aligned_cols=26  Identities=12%  Similarity=0.079  Sum_probs=22.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          540 ILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       540 ~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      ..|+.+|.+.|+.+.|+++++.+...
T Consensus         3 LdLA~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         3 LDLARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             hHHHHHHHHcCChHHHHHHHHHHHHc
Confidence            57899999999999999999988863

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=86.62  E-value=2.8  Score=37.01  Aligned_cols=64  Identities=13%  Similarity=-0.026  Sum_probs=46.0

Q ss_pred             HhHHHHHHHHHhcCCHH-------HHHHHHHHHHccC--CC----CCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          503 QVWAPLLSACMKHHNVE-------LGEYAAKNLLTLN--PG----STGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       503 ~~~~~l~~~~~~~~~~~-------~a~~~~~~~~~~~--p~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      ..+..+.+.|+..|+.+       .|.+.|+++.+..  |.    ...+.+.+|.+..+.|++++|.+.|.++...+
T Consensus       119 ~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~  195 (214)
T PF09986_consen  119 GLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSK  195 (214)
T ss_pred             HHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC
Confidence            35566777788777744       4555555555432  22    24678889999999999999999999998743

>PRK11619 lytic murein transglycosylase; Provisional

Probab=86.32  E-value=49  Score=35.15  Aligned_cols=80  Identities=11%  Similarity=-0.126  Sum_probs=46.3

Q ss_pred             HHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccC---CCCCchHHHHHHHHHhcCChH
Q 006997          477 VDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLN---PGSTGNYILMANLFTSAGMWK  553 (622)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~  553 (622)
                      +..+...|...+|...+..+....+......+.......|..+.++....+....+   -.-|..|......+.+.-.++
T Consensus       414 a~~L~~~g~~~~a~~ew~~~~~~~~~~~~~~la~~A~~~g~~~~ai~~~~~~~~~~~~~~rfp~~~~~~~~~~a~~~~v~  493 (644)
T PRK11619        414 VRELMYWNMDNTARSEWANLVASRSKTEQAQLARYAFNQQWWDLSVQATIAGKLWDHLEERFPLAWNDEFRRYTSGKGIP  493 (644)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCHHHHHHHHhhchhHHHHHHhCCcchHHHHHHHHHHcCCC
Confidence            34456678888888777766534455555566666667788887777665443211   112334555555555555555


Q ss_pred             HHH
Q 006997          554 EAA  556 (622)
Q Consensus       554 ~A~  556 (622)
                      .+.
T Consensus       494 ~~l  496 (644)
T PRK11619        494 QSY  496 (644)
T ss_pred             HHH
Confidence            544

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=86.15  E-value=5.2  Score=36.30  Aligned_cols=60  Identities=13%  Similarity=0.029  Sum_probs=53.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          505 WAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       505 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ++.....|...|.+.+|.++.++++.++|-+.+.+-.+...|...|+--+|.+-++++.+
T Consensus       282 lgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya~  341 (361)
T COG3947         282 LGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYAE  341 (361)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHHH
Confidence            444556788999999999999999999999999999999999999999999988887754

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=86.02  E-value=54  Score=35.28  Aligned_cols=222  Identities=14%  Similarity=-0.007  Sum_probs=119.2

Q ss_pred             HHhccCChHHHHHHHHHHHHcCCCCch-------hHHHHHH-HHHHhcCChHHHHHHhccCCC--------CChhHHHHH
Q 006997          341 ACAELGSLSKGKEIEEYIVLNGLESNR-------QVQTSLI-HMFSKCGRINKAKEVFERVPD--------KDLAVWSAM  404 (622)
Q Consensus       341 ~~~~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~-~~~~~~~~~~~A~~~~~~~~~--------~~~~~~~~l  404 (622)
                      ......++++|..+..++...-..|+.       ..++.+- ..-...|++++|.++.+....        .....+..+
T Consensus       424 ~~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~  503 (894)
T COG2909         424 LLASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVL  503 (894)
T ss_pred             HHHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhh
Confidence            345667888888888877654323221       1223221 223456888888887765442        355677778


Q ss_pred             HHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHH---HHH--HHHHhccCchHH--HHHHHHHhHHhcCC-CC----ChhH
Q 006997          405 INGYAIHGMGDQALNLFYKMQHVEGLKPDAVVY---TSI--LSACSHSGMVDD--GLSFFKSMQSNFGI-EP----SIEH  472 (622)
Q Consensus       405 ~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~---~~l--l~~~~~~g~~~~--a~~~~~~~~~~~~~-~p----~~~~  472 (622)
                      ..+..-.|++++|..+.+...+ ..-.-+...+   ..+  ...+...|....  ....+......+.. .|    -..+
T Consensus       504 ~~a~~~~G~~~~Al~~~~~a~~-~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~  582 (894)
T COG2909         504 GEAAHIRGELTQALALMQQAEQ-MARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRI  582 (894)
T ss_pred             hHHHHHhchHHHHHHHHHHHHH-HHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHH
Confidence            8888889999999988887766 3222233222   222  224556673332  33333333222111 11    1233


Q ss_pred             HHHHHHHHHh-cCChHHHHHHHHhCC-CCCc--HHhH--HHHHHHHHhcCCHHHHHHHHHHHHccCCCC-Cch-HHH---
Q 006997          473 YLCLVDLLGR-AGRFDLALKTIHEMP-VEVQ--AQVW--APLLSACMKHHNVELGEYAAKNLLTLNPGS-TGN-YIL---  541 (622)
Q Consensus       473 ~~~l~~~~~~-~g~~~~A~~~~~~~~-~~~~--~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-~~~-~~~---  541 (622)
                      ...+..++.+ .+...++..-++--. ..|.  ....  ..|+......||.++|.....++..+..+. +.+ |..   
T Consensus       583 r~~ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~~  662 (894)
T COG2909         583 RAQLLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAAY  662 (894)
T ss_pred             HHHHHHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHHH
Confidence            3344444444 122222222222211 2222  2222  256667788999999999999887754322 222 221   


Q ss_pred             H--HHHHHhcCChHHHHHHHHHhh
Q 006997          542 M--ANLFTSAGMWKEAATARGLMD  563 (622)
Q Consensus       542 l--~~~~~~~g~~~~A~~~~~~~~  563 (622)
                      .  ......+||..+|.....+-.
T Consensus       663 ~v~~~lwl~qg~~~~a~~~l~~s~  686 (894)
T COG2909         663 KVKLILWLAQGDKELAAEWLLKSG  686 (894)
T ss_pred             HhhHHHhcccCCHHHHHHHHHhcc
Confidence            1  222355799999988887643

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.75  E-value=8.4  Score=35.42  Aligned_cols=101  Identities=13%  Similarity=0.147  Sum_probs=68.3

Q ss_pred             cCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC-CCh-----hHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH
Q 006997          361 NGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD-KDL-----AVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDA  434 (622)
Q Consensus       361 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~  434 (622)
                      .|.+.+..+...++..-....+++.+...+-++.. |+.     .+-...+.. +..-++++++.++..=.+ .|+-||.
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irl-llky~pq~~i~~l~npIq-YGiF~dq  135 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRL-LLKYDPQKAIYTLVNPIQ-YGIFPDQ  135 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHH-HHccChHHHHHHHhCcch-hccccch
Confidence            34455555556666666666778888877766653 211     011112222 233467788888887777 8999999


Q ss_pred             HHHHHHHHHHhccCchHHHHHHHHHhHHh
Q 006997          435 VVYTSILSACSHSGMVDDGLSFFKSMQSN  463 (622)
Q Consensus       435 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  463 (622)
                      +++..+++.+.+.+++.+|.++.-.|...
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            99999999999999999888887766643

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.47  E-value=25  Score=31.03  Aligned_cols=150  Identities=11%  Similarity=0.148  Sum_probs=74.4

Q ss_pred             HHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh----CCCCCCHH-HHHHHHHHHhccCChHH
Q 006997          276 YTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLK----TSVRPNEA-TLATTLSACAELGSLSK  350 (622)
Q Consensus       276 ~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~----~~~~~~~~-~~~~ll~~~~~~~~~~~  350 (622)
                      +.-.+.+++|.++|.+.           ...|--..+|+.|-..|.+.-+    .|-+.|.. +|..... |.+..++++
T Consensus        24 fgg~~k~eeAadl~~~A-----------an~yklaK~w~~AG~aflkaA~~h~k~~skhDaat~YveA~~-cykk~~~~e   91 (288)
T KOG1586|consen   24 FGGSNKYEEAAELYERA-----------ANMYKLAKNWSAAGDAFLKAADLHLKAGSKHDAATTYVEAAN-CYKKVDPEE   91 (288)
T ss_pred             cCCCcchHHHHHHHHHH-----------HHHHHHHHhHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHHH-HhhccChHH
Confidence            44445677777766542           3455555666666555555432    22222222 2322222 233335555


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHc-CCHHHHHHHHHHhHHhc-
Q 006997          351 GKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIH-GMGDQALNLFYKMQHVE-  428 (622)
Q Consensus       351 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~-  428 (622)
                      |...++.               -|+.|...|++..|-...-++           ...|-.. .++++|+..|+..-+.. 
T Consensus        92 Av~cL~~---------------aieIyt~~Grf~~aAk~~~~i-----------aEiyEsdl~d~ekaI~~YE~Aae~yk  145 (288)
T KOG1586|consen   92 AVNCLEK---------------AIEIYTDMGRFTMAAKHHIEI-----------AEIYESDLQDFEKAIAHYEQAAEYYK  145 (288)
T ss_pred             HHHHHHH---------------HHHHHHhhhHHHHHHhhhhhH-----------HHHHhhhHHHHHHHHHHHHHHHHHHc
Confidence            5444433               345666777776665544332           2222221 35556666666554411 


Q ss_pred             CCCCCH---HHHHHHHHHHhccCchHHHHHHHHHhHHh
Q 006997          429 GLKPDA---VVYTSILSACSHSGMVDDGLSFFKSMQSN  463 (622)
Q Consensus       429 ~~~p~~---~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  463 (622)
                      |-..+.   ..+.-+...-...+++.+|+.+|+++...
T Consensus       146 ~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~  183 (288)
T KOG1586|consen  146 GEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARS  183 (288)
T ss_pred             chhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            111111   22333334445678889999999988754

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.42  E-value=15  Score=37.14  Aligned_cols=151  Identities=18%  Similarity=0.085  Sum_probs=95.7

Q ss_pred             hcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHH
Q 006997          379 KCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFK  458 (622)
Q Consensus       379 ~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  458 (622)
                      -.|+++.|..++-.++++.   .+.++.-+-+.|-.++|++          +.+|+.-   -.....+.|+++.|.++..
T Consensus       598 mrrd~~~a~~vLp~I~k~~---rt~va~Fle~~g~~e~AL~----------~s~D~d~---rFelal~lgrl~iA~~la~  661 (794)
T KOG0276|consen  598 LRRDLEVADGVLPTIPKEI---RTKVAHFLESQGMKEQALE----------LSTDPDQ---RFELALKLGRLDIAFDLAV  661 (794)
T ss_pred             hhccccccccccccCchhh---hhhHHhHhhhccchHhhhh----------cCCChhh---hhhhhhhcCcHHHHHHHHH
Confidence            4577777777776666322   2334444555666666554          3333321   1223346688888887765


Q ss_pred             HhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCch
Q 006997          459 SMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGN  538 (622)
Q Consensus       459 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  538 (622)
                      +..       +..-|..|.++....|++..|.+.|.+..      -|..|+-.+...|+.+.-..+...+.+...+    
T Consensus       662 e~~-------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~------d~~~LlLl~t~~g~~~~l~~la~~~~~~g~~----  724 (794)
T KOG0276|consen  662 EAN-------SEVKWRQLGDAALSAGELPLASECFLRAR------DLGSLLLLYTSSGNAEGLAVLASLAKKQGKN----  724 (794)
T ss_pred             hhc-------chHHHHHHHHHHhhcccchhHHHHHHhhc------chhhhhhhhhhcCChhHHHHHHHHHHhhccc----
Confidence            443       45668888898889999999998888765      2556666666777766555555554443332    


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhh
Q 006997          539 YILMANLFTSAGMWKEAATARGLMD  563 (622)
Q Consensus       539 ~~~l~~~~~~~g~~~~A~~~~~~~~  563 (622)
                       +....+|...|+++++.+++.+-.
T Consensus       725 -N~AF~~~~l~g~~~~C~~lLi~t~  748 (794)
T KOG0276|consen  725 -NLAFLAYFLSGDYEECLELLISTQ  748 (794)
T ss_pred             -chHHHHHHHcCCHHHHHHHHHhcC
Confidence             333456788999999999887653

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=85.33  E-value=8.1  Score=28.51  Aligned_cols=63  Identities=16%  Similarity=0.229  Sum_probs=44.4

Q ss_pred             CHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 006997          413 MGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVD  478 (622)
Q Consensus       413 ~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  478 (622)
                      +.-++.+-+..+.. ..+-|++......+++|.+.+++..|.++++-++.+.|  .+...|..+++
T Consensus        22 D~we~rr~mN~l~~-~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~--~~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFG-YDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCG--AHKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhc-cccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--CchhhHHHHHH
Confidence            33455555566555 66788888899999999999999999999988775532  24445655543

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.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.18  E-value=8  Score=38.97  Aligned_cols=75  Identities=24%  Similarity=0.235  Sum_probs=36.4

Q ss_pred             HhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHH
Q 006997          176 AKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHS  255 (622)
Q Consensus       176 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  255 (622)
                      .+.|+++.|.++..+.  .+..-|..|.++..+.+++..|.+.|....+         |..|+-.+...|+-+....+-.
T Consensus       648 l~lgrl~iA~~la~e~--~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~  716 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEA--NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLAS  716 (794)
T ss_pred             hhcCcHHHHHHHHHhh--cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHH
Confidence            3445555555544332  2344455566666666666666655554433         2334444444455444444444


Q ss_pred             HHHHhC
Q 006997          256 LLLKSG  261 (622)
Q Consensus       256 ~~~~~~  261 (622)
                      ...+.|
T Consensus       717 ~~~~~g  722 (794)
T KOG0276|consen  717 LAKKQG  722 (794)
T ss_pred             HHHhhc
Confidence            444433

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=84.85  E-value=8.2  Score=28.82  Aligned_cols=60  Identities=13%  Similarity=0.239  Sum_probs=40.2

Q ss_pred             HHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 006997          416 QALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVD  478 (622)
Q Consensus       416 ~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  478 (622)
                      +..+-+..+.. ..+-|++......+.+|.+.+++..|.++++-++.+.+  +....|..+++
T Consensus        28 e~rrglN~l~~-~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~--~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFG-YDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCG--NKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTT-SSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTT--T-TTHHHHHHH
T ss_pred             HHHHHHHHHhc-cccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--ChHHHHHHHHH
Confidence            45555555555 66788999999999999999999999999998887633  33336666654

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 ....

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=84.59  E-value=4.3  Score=35.13  Aligned_cols=64  Identities=14%  Similarity=-0.032  Sum_probs=47.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC-CCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCC
Q 006997          473 YLCLVDLLGRAGRFDLALKTIHEMP-VEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGST  536 (622)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  536 (622)
                      .+.-+..+.+.++..+|+...+.-. .+| +..+-..++..++..|++++|..-++-+-++.|+..
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t   69 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDT   69 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccc
Confidence            3445667778888888888876543 334 455666788888889999999988888888888643

>smart00386 HAT HAT (Half-A-TPR) repeats

Probab=84.48  E-value=1.8  Score=24.09  Aligned_cols=30  Identities=17%  Similarity=0.168  Sum_probs=24.7

Q ss_pred             CCHHHHHHHHHHHHccCCCCCchHHHHHHH
Q 006997          516 HNVELGEYAAKNLLTLNPGSTGNYILMANL  545 (622)
Q Consensus       516 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  545 (622)
                      |+.+.+..+|++++...|.++..|...+..
T Consensus         1 ~~~~~~r~i~e~~l~~~~~~~~~W~~y~~~   30 (33)
T smart00386        1 GDIERARKIYERALEKFPKSVELWLKYAEF   30 (33)
T ss_pred             CcHHHHHHHHHHHHHHCCCChHHHHHHHHH
Confidence            567888999999999889888888877654

Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.

>smart00028 TPR Tetratricopeptide repeats

Probab=84.40  E-value=1.7  Score=23.70  Aligned_cols=29  Identities=14%  Similarity=0.067  Sum_probs=25.5

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          537 GNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      ..+..++.++...|++++|...++...+.
T Consensus         2 ~~~~~~a~~~~~~~~~~~a~~~~~~~~~~   30 (34)
T smart00028        2 EALYNLGNAYLKLGDYDEALEYYEKALEL   30 (34)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            46789999999999999999999987653

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.

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.07  E-value=61  Score=34.27  Aligned_cols=170  Identities=11%  Similarity=0.028  Sum_probs=99.0

Q ss_pred             HHHhhcCCChhHHHHHhccCCCCCC---CcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhh
Q 006997           72 IDMYSKCSDFVSSRKVLDEMPVRLR---SVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQG  148 (622)
Q Consensus        72 ~~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~  148 (622)
                      ++.+.+.+.+++|+...+......+   -...+...|..+.-.|++++|-...-.|...                     
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn---------------------  421 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIGNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN---------------------  421 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccCCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc---------------------
Confidence            5677888899999999888775533   2345788888899999999998888888653                     


Q ss_pred             HHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCC-CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCC
Q 006997          149 ISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGE-TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSV  227 (622)
Q Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  227 (622)
                                     +..-|.--+..+...|+......++-.-+. -+...|..++..+.. .+.    .-|.+.+.   
T Consensus       422 ---------------~~~eWe~~V~~f~e~~~l~~Ia~~lPt~~~rL~p~vYemvLve~L~-~~~----~~F~e~i~---  478 (846)
T KOG2066|consen  422 ---------------NAAEWELWVFKFAELDQLTDIAPYLPTGPPRLKPLVYEMVLVEFLA-SDV----KGFLELIK---  478 (846)
T ss_pred             ---------------hHHHHHHHHHHhccccccchhhccCCCCCcccCchHHHHHHHHHHH-HHH----HHHHHHHH---
Confidence                           333344444445555554443333222221 234567777777776 222    22333322   


Q ss_pred             CCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCH
Q 006997          228 TPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSV  297 (622)
Q Consensus       228 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  297 (622)
                      ..+...|..+...-+...++.+          .  ..+......|+..|...++++.|..++-.+.++++
T Consensus       479 ~Wp~~Lys~l~iisa~~~q~~q----------~--Se~~~L~e~La~LYl~d~~Y~~Al~~ylklk~~~v  536 (846)
T KOG2066|consen  479 EWPGHLYSVLTIISATEPQIKQ----------N--SESTALLEVLAHLYLYDNKYEKALPIYLKLQDKDV  536 (846)
T ss_pred             hCChhhhhhhHHHhhcchHHHh----------h--ccchhHHHHHHHHHHHccChHHHHHHHHhccChHH
Confidence            2233334333222111111111          1  12223334488889999999999999888877654

>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]

Probab=84.02  E-value=1.9  Score=37.49  Aligned_cols=57  Identities=16%  Similarity=0.138  Sum_probs=47.5

Q ss_pred             HHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCc
Q 006997          512 CMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLT  568 (622)
Q Consensus       512 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  568 (622)
                      ..+.+|.+.+.+++.+++++.|+....|..++..-.+.|+++.|.+.+++..+-++.
T Consensus         5 ~~~~~D~~aaaely~qal~lap~w~~gwfR~g~~~ekag~~daAa~a~~~~L~ldp~   61 (287)
T COG4976           5 LAESGDAEAAAELYNQALELAPEWAAGWFRLGEYTEKAGEFDAAAAAYEEVLELDPE   61 (287)
T ss_pred             hcccCChHHHHHHHHHHhhcCchhhhhhhhcchhhhhcccHHHHHHHHHHHHcCCcc
Confidence            345678888888999999999988888899998888999999999988888775543

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=83.83  E-value=8.9  Score=28.47  Aligned_cols=80  Identities=13%  Similarity=0.144  Sum_probs=59.9

Q ss_pred             CChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHHHHHHHhCCCchHHHHHHHH
Q 006997           44 NSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKE  123 (622)
Q Consensus        44 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  123 (622)
                      ...++|..|-+.+...+ .....+--..++.+...|++++|..+.+...  .||...|-+|-..  +.|-.+++..-+.+
T Consensus        19 HcHqEA~tIAdwL~~~~-~~~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~--~pdlepw~ALce~--rlGl~s~l~~rl~r   93 (115)
T TIGR02508        19 HCHQEANTIADWLHLKG-ESEEAVQLIRLSSLMNRGDYQSALQLGNKLC--YPDLEPWLALCEW--RLGLGSALESRLNR   93 (115)
T ss_pred             hHHHHHHHHHHHHhcCC-chHHHHHHHHHHHHHccchHHHHHHhcCCCC--CchHHHHHHHHHH--hhccHHHHHHHHHH
Confidence            35678888888777654 2244444555677889999999999999998  8999999888764  56766777777777


Q ss_pred             HHHcC
Q 006997          124 MWVLG  128 (622)
Q Consensus       124 m~~~~  128 (622)
                      |...|
T Consensus        94 la~sg   98 (115)
T TIGR02508        94 LAASG   98 (115)
T ss_pred             HHhCC
Confidence            77665

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.

>KOG3824 consensus Huntingtin interacting protein HYPE [General function prediction only]

Probab=83.64  E-value=4.7  Score=36.75  Aligned_cols=53  Identities=17%  Similarity=0.024  Sum_probs=42.1

Q ss_pred             HHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          512 CMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       512 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ..+.|+.++|..+|+.++.+.|.++.+...+|.......++-+|-.+|-+...
T Consensus       126 ~~~~Gk~ekA~~lfeHAlalaP~~p~~L~e~G~f~E~~~~iv~ADq~Y~~ALt  178 (472)
T KOG3824|consen  126 SRKDGKLEKAMTLFEHALALAPTNPQILIEMGQFREMHNEIVEADQCYVKALT  178 (472)
T ss_pred             HHhccchHHHHHHHHHHHhcCCCCHHHHHHHhHHHHhhhhhHhhhhhhheeee
Confidence            34678888888888888888888888888888888777888888888776544

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=83.54  E-value=50  Score=32.90  Aligned_cols=89  Identities=10%  Similarity=0.053  Sum_probs=50.0

Q ss_pred             hHHHHHHHHHhCCCCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHh-hcCCChhHHHHHhccC
Q 006997           13 ETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMY-SKCSDFVSSRKVLDEM   91 (622)
Q Consensus        13 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~~~~A~~~~~~~   91 (622)
                      ....+|+....+ ..-|+..|..-+.-|.+.+.+.+...+|..|+... +.++..|-.-.... -....++.|+.+|..-
T Consensus        89 rIv~lyr~at~r-f~~D~~lW~~yi~f~kk~~~~~~v~ki~~~~l~~H-p~~~dLWI~aA~wefe~n~ni~saRalflrg  166 (568)
T KOG2396|consen   89 RIVFLYRRATNR-FNGDVKLWLSYIAFCKKKKTYGEVKKIFAAMLAKH-PNNPDLWIYAAKWEFEINLNIESARALFLRG  166 (568)
T ss_pred             HHHHHHHHHHHh-cCCCHHHHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCchhHHhhhhhHHhhccchHHHHHHHHHH
Confidence            344555555543 33367777777777777777777777888777664 33444443322222 2223377777777765


Q ss_pred             CCC-CCCcchHHH
Q 006997           92 PVR-LRSVVSWNS  103 (622)
Q Consensus        92 ~~~-~~~~~~~~~  103 (622)
                      .+. +.++..|-.
T Consensus       167 LR~npdsp~Lw~e  179 (568)
T KOG2396|consen  167 LRFNPDSPKLWKE  179 (568)
T ss_pred             hhcCCCChHHHHH
Confidence            544 333344433

>PRK12798 chemotaxis protein; Reviewed

Probab=83.50  E-value=46  Score=32.43  Aligned_cols=181  Identities=19%  Similarity=0.251  Sum_probs=121.5

Q ss_pred             cCChHHHHHHhccCCC----CChhHHHHHHHH-HHHcCCHHHHHHHHHHhHHhcCCCCCHH----HHHHHHHHHhccCch
Q 006997          380 CGRINKAKEVFERVPD----KDLAVWSAMING-YAIHGMGDQALNLFYKMQHVEGLKPDAV----VYTSILSACSHSGMV  450 (622)
Q Consensus       380 ~~~~~~A~~~~~~~~~----~~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~p~~~----~~~~ll~~~~~~g~~  450 (622)
                      .|+.+++.+.+..+..    +....+-.|+.+ .....++.+|+++|+...-   ..|-..    ....-+....+.|+.
T Consensus       125 ~Gr~~~a~~~La~i~~~~l~~~lg~~laLv~a~l~~~~dP~~Al~~lD~aRL---laPGTLvEEAALRRsi~la~~~g~~  201 (421)
T PRK12798        125 SGRGREARKLLAGVAPEYLPAELGAYLALVQGNLMVATDPATALKLLDQARL---LAPGTLVEEAALRRSLFIAAQLGDA  201 (421)
T ss_pred             cCCHHHHHHHhhcCChhhcCchhhhHHHHHHHHHhcccCHHHHHHHHHHHHH---hCCchHHHHHHHHHhhHHHHhcCcH
Confidence            5778888888877763    233455555554 3456689999999998876   556533    344455567789999


Q ss_pred             HHHHHHHHHhHHhcCCCCChhHHHH-HHHHHHhc---CChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHH
Q 006997          451 DDGLSFFKSMQSNFGIEPSIEHYLC-LVDLLGRA---GRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAK  526 (622)
Q Consensus       451 ~~a~~~~~~~~~~~~~~p~~~~~~~-l~~~~~~~---g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  526 (622)
                      +++..+-.....+|.-.|=...|.. +...+.+.   ...+.-..++..|.-.-....|..+...-...|+.+.|....+
T Consensus       202 ~rf~~la~~Y~rRF~~S~YA~~F~~~F~~~~~~~~d~~~~~~l~~~ls~~d~~~q~~lYL~iAR~Ali~Gk~~lA~~As~  281 (421)
T PRK12798        202 DKFEALARNYLRRFRHSPYASQFAQRFVDLVVRLDDEIRDARLVEILSFMDPERQRELYLRIARAALIDGKTELARFASE  281 (421)
T ss_pred             HHHHHHHHHHHHHhccCchHHHHHHHHHHHHHhccccccHHHHHHHHHhcCchhHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            9988888887777655553333332 33333333   3455566666666533336678888888889999999999999


Q ss_pred             HHHccCCCCCchHHHHHHHHHh-----cCChHHHHHHHHHhhh
Q 006997          527 NLLTLNPGSTGNYILMANLFTS-----AGMWKEAATARGLMDD  564 (622)
Q Consensus       527 ~~~~~~p~~~~~~~~l~~~~~~-----~g~~~~A~~~~~~~~~  564 (622)
                      ++..+.+ ....-...+.+|..     ..+.++|.+.+..+..
T Consensus       282 ~A~~L~~-~~~~~~~ra~LY~aaa~v~s~~~~~al~~L~~I~~  323 (421)
T PRK12798        282 RALKLAD-PDSADAARARLYRGAALVASDDAESALEELSQIDR  323 (421)
T ss_pred             HHHHhcc-CCCcchHHHHHHHHHHccCcccHHHHHHHHhcCCh
Confidence            9999864 34444455555533     4678888888887755

>KOG4279 consensus Serine/threonine protein kinase [Signal transduction mechanisms]

Probab=82.71  E-value=27  Score=36.46  Aligned_cols=183  Identities=18%  Similarity=0.276  Sum_probs=92.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH----------HHHHHHHHhccCChHHHHHHHHHHHHcCCCCch
Q 006997          298 FLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEAT----------LATTLSACAELGSLSKGKEIEEYIVLNGLESNR  367 (622)
Q Consensus       298 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~----------~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  367 (622)
                      .+-..++-.|....+++..+++.+.+...   ||..-          |.-.+.---+.|+-++|..+.-.+++..-+..+
T Consensus       202 d~V~nlmlSyRDvQdY~amirLVe~Lk~i---P~t~~vve~~nv~f~YaFALNRRNr~GDRakAL~~~l~lve~eg~vap  278 (1226)
T KOG4279|consen  202 DTVSNLMLSYRDVQDYDAMIRLVEDLKRI---PDTLKVVETHNVRFHYAFALNRRNRPGDRAKALNTVLPLVEKEGPVAP  278 (1226)
T ss_pred             HHHHHHHhhhccccchHHHHHHHHHHHhC---cchhhhhccCceEEEeeehhcccCCCccHHHHHHHHHHHHHhcCCCCC
Confidence            34455666677777777777777776652   32211          222222223456677777766665554323222


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHH---HHHHHHHH
Q 006997          368 QVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVV---YTSILSAC  444 (622)
Q Consensus       368 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~---~~~ll~~~  444 (622)
                      .       +||-+|++      |+.|-         +-+.|...+..+.|.+.|++.-+   +.|+..+   +..++.+-
T Consensus       279 D-------m~Cl~GRI------YKDmF---------~~S~ytDa~s~~~a~~WyrkaFe---veP~~~sGIN~atLL~aa  333 (1226)
T KOG4279|consen  279 D-------MYCLCGRI------YKDMF---------IASNYTDAESLNHAIEWYRKAFE---VEPLEYSGINLATLLRAA  333 (1226)
T ss_pred             c-------eeeeechh------hhhhh---------hccCCcchhhHHHHHHHHHHHhc---cCchhhccccHHHHHHHh
Confidence            2       23333432      22211         11234445566788888888877   7776543   44444432


Q ss_pred             hccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHH
Q 006997          445 SHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYA  524 (622)
Q Consensus       445 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  524 (622)
                      .+  .++...++ +.+    |        -.|-..+++.|..++-..+++-.          .++.+..-.+|+.+|.+.
T Consensus       334 G~--~Fens~El-q~I----g--------mkLn~LlgrKG~leklq~YWdV~----------~y~~asVLAnd~~kaiqA  388 (1226)
T KOG4279|consen  334 GE--HFENSLEL-QQI----G--------MKLNSLLGRKGALEKLQEYWDVA----------TYFEASVLANDYQKAIQA  388 (1226)
T ss_pred             hh--hccchHHH-HHH----H--------HHHHHHhhccchHHHHHHHHhHH----------HhhhhhhhccCHHHHHHH
Confidence            21  11111111 000    1        11334456666666655555432          123344455677777777


Q ss_pred             HHHHHccCC
Q 006997          525 AKNLLTLNP  533 (622)
Q Consensus       525 ~~~~~~~~p  533 (622)
                      .+++.++.|
T Consensus       389 ae~mfKLk~  397 (1226)
T KOG4279|consen  389 AEMMFKLKP  397 (1226)
T ss_pred             HHHHhccCC
Confidence            777777766

>PHA02875 ankyrin repeat protein; Provisional

Probab=82.01  E-value=52  Score=32.87  Aligned_cols=70  Identities=14%  Similarity=0.029  Sum_probs=33.9

Q ss_pred             HHHHHHhCCCCCCccc--HHHHHHHhhccCChhhHHHHHHHHHHhcCCCCch--hHHHHHHHhhcCCChhHHHHHhcc
Q 006997           17 TYSSMLQTGVHGNSFT--FPLVLKACANINSIWDGKRVHSHVLKVGFQQDAF--VQTGLIDMYSKCSDFVSSRKVLDE   90 (622)
Q Consensus        17 ~~~~~~~~~~~~~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~~~~A~~~~~~   90 (622)
                      +++.+.+.|..|+...  ..+.+..++..|+.+    +.+.+.+.|..|+..  ....-+...++.|+.+.+..+++.
T Consensus        17 iv~~Ll~~g~~~n~~~~~g~tpL~~A~~~~~~~----~v~~Ll~~ga~~~~~~~~~~t~L~~A~~~g~~~~v~~Ll~~   90 (413)
T PHA02875         17 IARRLLDIGINPNFEIYDGISPIKLAMKFRDSE----AIKLLMKHGAIPDVKYPDIESELHDAVEEGDVKAVEELLDL   90 (413)
T ss_pred             HHHHHHHCCCCCCccCCCCCCHHHHHHHcCCHH----HHHHHHhCCCCccccCCCcccHHHHHHHCCCHHHHHHHHHc
Confidence            3444555666655432  234444555556654    334444455444321  112234445566666666666654

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=81.94  E-value=2.9  Score=22.12  Aligned_cols=20  Identities=25%  Similarity=0.180  Sum_probs=10.0

Q ss_pred             HHHHHHHhcCChHHHHHHHH
Q 006997          475 CLVDLLGRAGRFDLALKTIH  494 (622)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~  494 (622)
                      .+...+...|++++|..+++
T Consensus         6 ~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    6 ALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHcCCHHHHHHHHh
Confidence            34445555555555555443

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>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=81.90  E-value=15  Score=31.67  Aligned_cols=73  Identities=10%  Similarity=0.070  Sum_probs=35.9

Q ss_pred             HHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCC--CCChhHHHHHHHHHHhcCChHHH
Q 006997          415 DQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGI--EPSIEHYLCLVDLLGRAGRFDLA  489 (622)
Q Consensus       415 ~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A  489 (622)
                      +.|.+.|-.+.. .+.--++.....+...|. ..+.++++.++.++.+..+-  .+|+..+..|+..|.+.|+++.|
T Consensus       123 ~~A~~~fL~~E~-~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEG-TPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcC-CCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            455555555554 333333333333333333 34556666666555543211  34455556666666666555554

>KOG0551 consensus Hsp90 co-chaperone CNS1 (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=81.34  E-value=9.1  Score=35.57  Aligned_cols=94  Identities=17%  Similarity=0.060  Sum_probs=73.9

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC----CCCc--HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHH
Q 006997          470 IEHYLCLVDLLGRAGRFDLALKTIHEMP----VEVQ--AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMA  543 (622)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  543 (622)
                      ..+|.-=.+-|.+..++..|...|.+-.    ..|+  ...|+.=..+-...|++-.|+.-..+++.++|.+...|..=+
T Consensus        81 Aen~KeeGN~~fK~Kryk~A~~~Yt~Glk~kc~D~dlnavLY~NRAAa~~~l~NyRs~l~Dcs~al~~~P~h~Ka~~R~A  160 (390)
T KOG0551|consen   81 AENYKEEGNEYFKEKRYKDAVESYTEGLKKKCADPDLNAVLYTNRAAAQLYLGNYRSALNDCSAALKLKPTHLKAYIRGA  160 (390)
T ss_pred             HHHHHHHhHHHHHhhhHHHHHHHHHHHHhhcCCCccHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhhhhhh
Confidence            3445555667888889999999998764    2333  445666666666789999999999999999999999999999


Q ss_pred             HHHHhcCChHHHHHHHHHhh
Q 006997          544 NLFTSAGMWKEAATARGLMD  563 (622)
Q Consensus       544 ~~~~~~g~~~~A~~~~~~~~  563 (622)
                      .++....++++|...-+...
T Consensus       161 kc~~eLe~~~~a~nw~ee~~  180 (390)
T KOG0551|consen  161 KCLLELERFAEAVNWCEEGL  180 (390)
T ss_pred             HHHHHHHHHHHHHHHHhhhh
Confidence            99999999888877766543

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=81.30  E-value=6.9  Score=39.24  Aligned_cols=132  Identities=14%  Similarity=0.083  Sum_probs=91.1

Q ss_pred             CCCHHHHHHHHHHHhcc--CchHHHHHHHHHhHHhcCCCCChhHHHH--HHHHHHh-cCChHHHHHHHHhCC-CCCc--H
Q 006997          431 KPDAVVYTSILSACSHS--GMVDDGLSFFKSMQSNFGIEPSIEHYLC--LVDLLGR-AGRFDLALKTIHEMP-VEVQ--A  502 (622)
Q Consensus       431 ~p~~~~~~~ll~~~~~~--g~~~~a~~~~~~~~~~~~~~p~~~~~~~--l~~~~~~-~g~~~~A~~~~~~~~-~~~~--~  502 (622)
                      -|+..+...++.-....  ..-+-+-.++..|.     .|+...|..  +...|-+ .|+.-.|.+.+..+. ..|.  .
T Consensus       568 ~~~~~~~k~~~~r~~~~~i~e~e~~~~~~~~~~-----~~~~p~w~~ln~aglywr~~gn~~~a~~cl~~a~~~~p~~~~  642 (886)
T KOG4507|consen  568 MPDDHARKILLSRINNYTIPEEEIGSFLFHAIN-----KPNAPIWLILNEAGLYWRAVGNSTFAIACLQRALNLAPLQQD  642 (886)
T ss_pred             CchHHHHHHHHHHHhcccCcHHHHHHHHHHHhc-----CCCCCeEEEeecccceeeecCCcHHHHHHHHHHhccChhhhc
Confidence            35555555544433322  12233444444443     344333332  2333433 688999999988775 3443  3


Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          503 QVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      .....|.....+.|..-.|-.++.+.+.++...|-++..+|++|....+.+.|++.|+...+...
T Consensus       643 v~~v~la~~~~~~~~~~da~~~l~q~l~~~~sepl~~~~~g~~~l~l~~i~~a~~~~~~a~~~~~  707 (886)
T KOG4507|consen  643 VPLVNLANLLIHYGLHLDATKLLLQALAINSSEPLTFLSLGNAYLALKNISGALEAFRQALKLTT  707 (886)
T ss_pred             ccHHHHHHHHHHhhhhccHHHHHHHHHhhcccCchHHHhcchhHHHHhhhHHHHHHHHHHHhcCC
Confidence            45667888888888888999999999999888899999999999999999999999998877543

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=81.13  E-value=42  Score=30.28  Aligned_cols=59  Identities=15%  Similarity=-0.043  Sum_probs=38.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcC
Q 006997          304 IGGYAQLGYPSEAVNLFKRLLKTSV--RPNEATLATTLSACAELGSLSKGKEIEEYIVLNG  362 (622)
Q Consensus       304 ~~~~~~~~~~~~a~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  362 (622)
                      +..-.+.|++++|...|+.+....+  +-...+...++.++-+.++++.|....++..+.-
T Consensus        41 g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~ly  101 (254)
T COG4105          41 GLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLY  101 (254)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhC
Confidence            4445577888888888888776431  1234455666667777778888877777766653

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=80.42  E-value=22  Score=26.56  Aligned_cols=62  Identities=19%  Similarity=0.231  Sum_probs=43.1

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 006997          272 LVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLA  336 (622)
Q Consensus       272 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~  336 (622)
                      -+..+...|++++|..+.+.+..||...|-+|-..  +.|..+++..-+.+|...| .|....|.
T Consensus        45 RlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce~--rlGl~s~l~~rl~rla~sg-~p~lq~Fa  106 (115)
T TIGR02508        45 RLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCEW--RLGLGSALESRLNRLAASG-DPRLQTFV  106 (115)
T ss_pred             HHHHHHccchHHHHHHhcCCCCCchHHHHHHHHHH--hhccHHHHHHHHHHHHhCC-CHHHHHHH
Confidence            34456778888888888888888888888777543  5666676777777776665 44444443

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.

>PRK10941 hypothetical protein; Provisional

Probab=80.07  E-value=12  Score=34.46  Aligned_cols=68  Identities=9%  Similarity=-0.009  Sum_probs=51.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhCC-CCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHH
Q 006997          474 LCLVDLLGRAGRFDLALKTIHEMP-VEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYIL  541 (622)
Q Consensus       474 ~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  541 (622)
                      +.+-.+|.+.++++.|+++.+.+. ..| ++.-+.--+-.|.+.|-+..|..-++.-++..|+++.+-..
T Consensus       185 ~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P~dp~a~~i  254 (269)
T PRK10941        185 DTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCPEDPISEMI  254 (269)
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCCCchhHHHH
Confidence            446667788888888888888876 344 45567767777888888888888888888888877765443

---

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	622
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-13
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	9e-08
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-05
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	3e-06
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	4e-06
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	8e-06
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	2e-05
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	4e-05
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	1e-04
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	2e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 71.0 bits (172), Expect = 7e-13
 Identities = 30/195 (15%), Positives = 57/195 (29%), Gaps = 8/195 (4%)

Query: 316 AVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIH 375
           A  L     +    P E  LA  L       SL   +          L   +Q   +   
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 376 MFSKCGRINKAKEVFERVPDK-------DLAVWSAMINGYAIHGMGDQALNLFYKMQHVE 428
                 ++  A  +      +        L +++A++ G+A  G   + + + + ++   
Sbjct: 136 CCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKD-A 194

Query: 429 GLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDL 488
           GL PD + Y + L            +       S  G++        L+    RA     
Sbjct: 195 GLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKA 254

Query: 489 ALKTIHEMPVEVQAQ 503
             K      +  Q  
Sbjct: 255 VHKVKPTFSLPPQLP 269

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 54.4 bits (129), Expect = 9e-08
 Identities = 24/185 (12%), Positives = 57/185 (30%), Gaps = 9/185 (4%)

Query: 218 LCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYT 277
           L +  R+   +P       L+       +L +  +      ++  + +            
Sbjct: 79  LEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCL 138

Query: 278 KCGDLELARRVFDAVLEK-------SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRP 330
               L LA  +      +       ++ ++ +++ G+A+ G   E V +   +    + P
Sbjct: 139 LTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTP 198

Query: 331 NEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVF 390
           +  + A  L         +    IE  +     E  +        + S+  R    K V 
Sbjct: 199 DLLSYAAALQCMGRQDQDA--GTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVH 256

Query: 391 ERVPD 395
           +  P 
Sbjct: 257 KVKPT 261

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 45.2 bits (105), Expect = 7e-05
 Identities = 13/130 (10%), Positives = 40/130 (30%), Gaps = 8/130 (6%)

Query: 169 NSVMSMYAKFGKVNEARSIFDEIGE-------TSIVSWTTIIGGYVNVGNVNEAFGLCNQ 221
            +         ++  A  +              ++  +  ++ G+   G   E   +   
Sbjct: 131 LAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFM 190

Query: 222 MRRMSVTPDLVVFLNLILGCAQVGNLFLALS-MHSLLLKSGYNNEDPLDNLLVSMYTKCG 280
           ++   +TPDL+ +   +    +       +      + + G   +     +L+S   +  
Sbjct: 191 VKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT 250

Query: 281 DLELARRVFD 290
            L+   +V  
Sbjct: 251 VLKAVHKVKP 260

>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 = 62.2 bits (150), Expect = 4e-10
 Identities = 87/516 (16%), Positives = 145/516 (28%), Gaps = 193/516 (37%)

Query: 64  DAFVQTGLIDMYSKCSDFVSSR-KVLDEMPVRLRSVVSWNSIISAHSRACLND------- 115
             FV+  L   Y     F+ S  K     P  +         I    R   ND       
Sbjct: 80  QKFVEEVLRINY----KFLMSPIKTEQRQPSMMTR-----MYIEQRDRLY-NDNQVFAKY 129

Query: 116 -----EAILVLKEMWVLGLELSASTFVSV--VSGCSFRQGISMHCCVYKLGLLNNEIPLA 168
                +  L L++   L LEL  +  V +  V G     G +                +A
Sbjct: 130 NVSRLQPYLKLRQ--AL-LELRPAKNVLIDGVLGS----GKTW---------------VA 167

Query: 169 NSVMSMYAKFGKVNEARS--IFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMS 226
             V        KV       IF          W       +N+ N N    +   +    
Sbjct: 168 LDV----CLSYKVQCKMDFKIF----------W-------LNLKNCNSPETVLEML---- 202

Query: 227 VTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNN-EDPLDNLLVS-MYTKC----G 280
                     L     Q+   + + S HS  +K   ++ +  L  LL S  Y  C     
Sbjct: 203 --------QKL---LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL 251

Query: 281 DLELAR--RVFDA---VL----EKSVFLWTSMIGGYA---------QLGY-PSEAVNLFK 321
           +++ A+    F+    +L     K V   T  +              +   P E  +L  
Sbjct: 252 NVQNAKAWNAFNLSCKILLTTRFKQV---TDFLSAATTTHISLDHHSMTLTPDEVKSLLL 308

Query: 322 RLLKTSVR--PNEAT----LATTLSACAELGSLSKGKE-IEEYIVLNGLESNRQVQTSLI 374
           + L    +  P E          LS  AE   +  G    + +  +N  +    +++SL 
Sbjct: 309 KYLDCRPQDLPREVLTTNPRR--LSIIAES--IRDGLATWDNWKHVNCDKLTTIIESSLN 364

Query: 375 --------HMFSKCGRINKAKEVFE---RVPDKDLAV-WSAMI----------------- 405
                    MF +         VF     +P   L++ W  +I                 
Sbjct: 365 VLEPAEYRKMFDRLS-------VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLV 417

Query: 406 ------NGYAIHGM---------GDQAL--------NLFYKMQHVEGLKP--DAVVYTSI 440
                 +  +I  +          + AL        N+       + + P  D   Y+ I
Sbjct: 418 EKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHI 477

Query: 441 ---LSACSHSGMVDDGLSFFKSMQSNFG-IEPSIEH 472
              L    H   +      F+ +  +F  +E  I H
Sbjct: 478 GHHLKNIEHPERMT----LFRMVFLDFRFLEQKIRH 509

>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 = 45.6 bits (107), Expect = 5e-05
 Identities = 61/418 (14%), Positives = 121/418 (28%), Gaps = 145/418 (34%)

Query: 257 LLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEA 316
           + KS  + E+ +D++++S       +    R+F  +L K                   E 
Sbjct: 41  MPKSILSKEE-IDHIIMSK----DAVSGTLRLFWTLLSK-----------------QEEM 78

Query: 317 VNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHM 376
           V   ++ ++  +R N   L + +                 YI        R    +   +
Sbjct: 79  V---QKFVEEVLRINYKFLMSPIKT----EQRQPSMMTRMYI------EQRDRLYNDNQV 125

Query: 377 FSK--CGR---INKAKEVFERV-PDKDLAVWSAMINGYAIHGM---GDQAL-NLFYKMQH 426
           F+K    R     K ++    + P K++ +           G+   G   +         
Sbjct: 126 FAKYNVSRLQPYLKLRQALLELRPAKNVLI----------DGVLGSGKTWVALDVCLSYK 175

Query: 427 VEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-----------SIEHYL- 474
           V+      + + ++ +  S   +++        +  N+               SI+  L 
Sbjct: 176 VQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR 235

Query: 475 ----------CLVDL-------LGRAGRFDLALKTIHEMPVEV---QAQVWAPLLSA--- 511
                     CL+ L          A  F+L+ K +      +     QV   L +A   
Sbjct: 236 RLLKSKPYENCLLVLLNVQNAKAWNA--FNLSCKIL------LTTRFKQVTDFLSAATTT 287

Query: 512 --CMKHHNVELGEYAAKNLL----------------TLNPGSTGNYILMANLFTSAGMWK 553
              + HH++ L     K+LL                T NP          ++        
Sbjct: 288 HISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNP-------RRLSII------- 333

Query: 554 EAATARGLMDDRRLTKEPGWSQVEID---GSVQVFVAGDRSHHLS-VDIRKTLKELHI 607
            A      + D   T +  W  V  D     ++  +       L   + RK    L +
Sbjct: 334 -AE----SIRDGLATWDN-WKHVNCDKLTTIIESSLN-----VLEPAEYRKMFDRLSV 380

>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} Length = 330

 Score = 48.4 bits (116), Expect = 3e-06
 Identities = 47/324 (14%), Positives = 93/324 (28%), Gaps = 45/324 (13%)

Query: 263 NNEDPLDNLLVSMYTKCGDLELARRVFDAVLE---KSVFLWTSMIGGYAQLGYPSEAVNL 319
            N D + +L    Y    D ++  ++   V+E            IG   +L   +E   L
Sbjct: 20  ENLDVVVSLAERHYYN-CDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYL 78

Query: 320 FKRLLKTSVRPNEATLATTLSACAELGS--LSKGKEIEEYIV-------LNGLESNRQVQ 370
             +L+     P+         +   +G   L  G + E           L   ++     
Sbjct: 79  SHKLVDLY--PSNPV------SWFAVGCYYLMVGHKNEHARRYLSKATTLE--KTYGPAW 128

Query: 371 TSLIHMFSKCGRINKAKEVFERV----PDKDLAVWSAMINGYAIHGMGDQALNLFYKMQH 426
            +  H F+     ++A   +           L     +   Y +      A   F     
Sbjct: 129 IAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLP-MLYIGLEYGLTNNSKLAERFF---SQ 184

Query: 427 VEGLKP-DAVVYTSILSACSHSGMVDDGLSFFK---SMQSNFGIEPSIEHYLCLVDLLGR 482
              + P D  V   +      +G       +F          G E +++ +  L++ LG 
Sbjct: 185 ALSIAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGH 244

Query: 483 A----GRFDLAL----KTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG 534
                 ++  AL    + +  +P    A  ++ +        N E         L L   
Sbjct: 245 VCRKLKKYAEALDYHRQALVLIPQN--ASTYSAIGYIHSLMGNFENAVDYFHTALGLRRD 302

Query: 535 STGNYILMANLFTSAGMWKEAATA 558
            T +  ++ +         EA   
Sbjct: 303 DTFSVTMLGHCIEMYIGDSEAYIG 326

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 48.7 bits (116), Expect = 4e-06
 Identities = 29/191 (15%), Positives = 61/191 (31%), Gaps = 20/191 (10%)

Query: 377 FSKCGRINKAKEVFERV----PDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP 432
           ++     ++AKE ++             +  +++ + +    +  L L            
Sbjct: 210 YTNLSNFDRAKECYKEALMVDAK-CYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDA 268

Query: 433 DAV--VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLAL 490
             +  +Y   L+  SH   +     +  S+      E S +  LC  D L    RF   L
Sbjct: 269 AFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL---EKSSDLLLCKADTLFVRSRFIDVL 325

Query: 491 ----KTIHEMPVEVQAQVWAPLLSACMKH--HNVELGEYAAKNLLTLNPGSTGNYILMAN 544
               K +   P  +      PL  A +       +L    + +L+  +P     ++ +  
Sbjct: 326 AITTKILEIDPYNLDVY---PLHLASLHESGEKNKL-YLISNDLVDRHPEKAVTWLAVGI 381

Query: 545 LFTSAGMWKEA 555
            +       EA
Sbjct: 382 YYLCVNKISEA 392

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 47.9 bits (114), Expect = 8e-06
 Identities = 59/435 (13%), Positives = 128/435 (29%), Gaps = 57/435 (13%)

Query: 154 CVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGG--YVNVGN 211
           C+ KL      + L                A  +  + G   + +    + G  Y N+ N
Sbjct: 159 CLVKLYDWQGALNLLGET---NPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSN 215

Query: 212 VNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLD-- 269
            + A     +   +        F  L+       +L  A     L+LK  Y+     D  
Sbjct: 216 FDRAKECYKEALMVDAK-CYEAFDQLV-----SNHLLTADEEWDLVLKLNYSTYSKEDAA 269

Query: 270 ------NLLVSMYTKCGDLELARRVFDAV--LEKSVFLWTSMIGGYAQLGYPSEAVNLFK 321
                  L ++  +   +L  A     ++  LEKS  L               + + +  
Sbjct: 270 FLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITT 329

Query: 322 RLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVL--NGLESNRQVQTSLIHM--- 376
           ++L+    P    +     A      L +  E  +  ++  + ++ + +   + + +   
Sbjct: 330 KILEID--PYNLDVYPLHLAS-----LHESGEKNKLYLISNDLVDRHPEKAVTWLAVGIY 382

Query: 377 FSKCGRINKAKEVFERV----PDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP 432
           +    +I++A+  F +     P      W    + +AI G  DQA++ +        L  
Sbjct: 383 YLCVNKISEARRYFSKSSTMDPQ-FGPAWIGFAHSFAIEGEHDQAISAYTTAAR---LFQ 438

Query: 433 D-AVVYTSILSACSHSGMVDDGLSFF-KSMQSNFGIEPS-IEHYLCLVDLLGRAGRFDLA 489
              + Y  +       G +     +   S      +          L  +         A
Sbjct: 439 GTHLPYLFLGMQHMQLGNILLANEYLQSSYA----LFQYDPLLLNELGVVAFNKSDMQTA 494

Query: 490 L----KTIHEMPVEVQAQ-VWAPLLS----ACMKHHNVELGEYAAKNLLTLNPGSTGNYI 540
           +      +  +      +  WA   +    A  K    +    A    L L+      + 
Sbjct: 495 INHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHT 554

Query: 541 LMANLFTSAGMWKEA 555
            +A ++    +   A
Sbjct: 555 AIALVYLHKKIPGLA 569

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 46.8 bits (111), Expect = 2e-05
 Identities = 38/298 (12%), Positives = 89/298 (29%), Gaps = 25/298 (8%)

Query: 276 YTKCGDLELARRVFDAVLEKSVFLWTSMIG-GYAQLGYPSEAVNLFKRLLKTSVRPNEAT 334
           YT   + + A+  +   L      + +        L    E  +L  +L  ++    +A 
Sbjct: 210 YTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAA 269

Query: 335 LATTL--SACAELGSLSKGKEIEEYI-VLNGLESNRQVQTSLIHMFSKCGRINKAKEVFE 391
              +L      +     + +  E+Y+  +NGLE +  +            R      +  
Sbjct: 270 FLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITT 329

Query: 392 RVPDKD---LAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHS 447
           ++ + D   L V+   +      G  ++   +   +  V+   P+ AV + ++       
Sbjct: 330 KILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDL--VD-RHPEKAVTWLAVGIYYLCV 386

Query: 448 GMVDDGLSFFK---SMQSNFGIEPSIEHYLCLVDLLGRAGRFDLAL----KTIHEMPVEV 500
             + +   +F    +M   FG       ++         G  D A+              
Sbjct: 387 NKISEARRYFSKSSTMDPQFG-----PAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTH 441

Query: 501 QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATA 558
               +  L    M+  N+ L     ++   L          +  +  +    + A   
Sbjct: 442 LP--YLFLGMQHMQLGNILLANEYLQSSYALFQYDPLLLNELGVVAFNKSDMQTAINH 497

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 44.7 bits (105), Expect = 4e-05
 Identities = 24/182 (13%), Positives = 46/182 (25%), Gaps = 11/182 (6%)

Query: 381 GRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSI 440
            +     +  +     +L          A H   D  +    +         +       
Sbjct: 48  RKYGVVLDEIKPSSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMA 107

Query: 441 LSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEM---- 496
            S   +    D  L       S       +E     V +L +  R DLA K + +M    
Sbjct: 108 ASIYFYDQNPDAALRTLHQGDS-------LECMAMTVQILLKLDRLDLARKELKKMQDQD 160

Query: 497 PVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAA 556
                 Q+    +S       ++   Y  + +      +       A    + G W+ A 
Sbjct: 161 EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAE 220

Query: 557 TA 558
             
Sbjct: 221 GV 222

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 43.2 bits (101), Expect = 1e-04
 Identities = 36/256 (14%), Positives = 66/256 (25%), Gaps = 18/256 (7%)

Query: 310 LGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQV 369
           +G   + +N  +R+  +S  P            A L    K   + + I  +     + V
Sbjct: 12  IGSYQQCINEAQRVKPSS--PERDVERDVFLYRAYLA-QRKYGVVLDEIKPSSAPELQAV 68

Query: 370 QTSLIHMFSKCGRINKAKEVFER-----VPDKDLAVWSAMINGYAIHGMGDQALNLFYKM 424
           +       +   R +      +R     V   +        + Y      D AL   ++ 
Sbjct: 69  RM-FAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQG 127

Query: 425 QHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAG 484
             +E +     +   +         +D      K MQ         +     V L     
Sbjct: 128 DSLECMAMTVQILLKL-------DRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGE 180

Query: 485 RFDLALKTIHEM--PVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILM 542
           +   A     EM         +     +  M     E  E   +  L  + G     I +
Sbjct: 181 KLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINL 240

Query: 543 ANLFTSAGMWKEAATA 558
             L    G   E    
Sbjct: 241 VVLSQHLGKPPEVTNR 256

>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 Length = 388

 Score = 42.9 bits (102), Expect = 2e-04
 Identities = 57/312 (18%), Positives = 101/312 (32%), Gaps = 56/312 (17%)

Query: 276 YTKCGDLELARRVFDAVLE---KSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNE 332
             + GD E A R    +      +  +   +   + Q      + +     +K    P  
Sbjct: 9   EYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIK--QNPLL 66

Query: 333 ATLATTL-SACAELGSLSKGKEIEEY---IVLNGLESNRQVQTSLIHMFSKCGRINKAKE 388
           A   + L +   E G L +   IE Y   + L           +L       G +  A +
Sbjct: 67  AEAYSNLGNVYKERGQLQEA--IEHYRHALRLKP--DFIDGYINLAAALVAAGDMEGAVQ 122

Query: 389 VFERV----PDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSA 443
            +       PD    V S + N     G  ++A   + K   +E  +P+ AV ++++   
Sbjct: 123 AYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKA--IE-TQPNFAVAWSNLGCV 178

Query: 444 CSHSGMVDDGLSFFK---SMQSNFGIEPSIEHYLCLVDLLGRAGRFDLAL----KTIHEM 496
            +  G +   +  F+   ++  NF     ++ Y+ L ++L  A  FD A+    + +   
Sbjct: 179 FNAQGEIWLAIHHFEKAVTLDPNF-----LDAYINLGNVLKEARIFDRAVAAYLRALSLS 233

Query: 497 PVEVQAQVWAPLLSACMKHHN-----VELGEY--AAKNL---LTLNPGSTGNYILMANLF 546
           P                 H N      E G    A       + L P     Y  +AN  
Sbjct: 234 PNHAVV------------HGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANAL 281

Query: 547 TSAGMWKEAATA 558
              G   EA   
Sbjct: 282 KEKGSVAEAEDC 293

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	622
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.94
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.92
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.92
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.91
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.88
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.88
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.86
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.85
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.85
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.84
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.83
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.83
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.83
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.82
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.82
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.82
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.81
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.8
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.8
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.79
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.78
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.78
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.78
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.77
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.76
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.72
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.71
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.71
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.69
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.68
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.66
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.65
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.63
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.62
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.61
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.61
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.61
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.61
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.6
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.6
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.59
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.58
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.58
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.58
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.58
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.57
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.57
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.57
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.57
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.56
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.55
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.55
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.54
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.53
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.52
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.49
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.46
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.46
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.45
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.44
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.44
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.44
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.43
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.42
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.42
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.42
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.42
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.41
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.4
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.38
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.38
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.35
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.34
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.31
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.29
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.24
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.23
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.23
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.22
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.22
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.21
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.2
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.19
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.18
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.17
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.17
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.17
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.17
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.16
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.16
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.15
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.15
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.12
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.11
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.09
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.08
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.07
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.06
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	99.05
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.05
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.03
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.02
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.01
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.01
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.0
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.97
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.96
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.95
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.93
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.91
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.9
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.89
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.88
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.87
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.87
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.87
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.87
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.86
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.86
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.83
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.83
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.83
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.83
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.82
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.82
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.8
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.79
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.79
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.78
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.78
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.78
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.76
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.76
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.76
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.74
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.7
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.68
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.68
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.67
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.67
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.67
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.66
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.66
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.66
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.65
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.65
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.65
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.65
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.64
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.62
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.61
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.6
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.6
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.6
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.54
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.53
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.53
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.52
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.51
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.51
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.51
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.5
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.5
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.47
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.47
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.47
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.47
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.47
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.44
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.44
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.43
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.42
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.42
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.41
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.4
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.39
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.39
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.38
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.33
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.3
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.3
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.29
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.28
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.27
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.26
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.26
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.23
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.23
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.22
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.2
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.17
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	98.09
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.05
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.03
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.01
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.01
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.0
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.95
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.93
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.85
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.81
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.79
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.77
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.75
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.67
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.66
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.62
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.59
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.58
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.56
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.38
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.37
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.27
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	97.07
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	97.07
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.97
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.96
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.95
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.82
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.76
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.72
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.69
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.52
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.35
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.16
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.04
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	96.01
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.65
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.59
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.12
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	95.04
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	94.65
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.65
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	94.22
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.16
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	93.62
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	93.6
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	93.46
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	92.3
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	91.75
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	91.28
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	91.2
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	91.18
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	90.15
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	89.58
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	89.33
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	88.55
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	87.89
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	87.23
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	87.08
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	87.08
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	87.05
2p58_C	116	Putative type III secretion protein YSCG; type III	86.53
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	86.3
2p58_C	116	Putative type III secretion protein YSCG; type III	86.16
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	85.53
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	84.72
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	83.79
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	83.49
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	83.36
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	82.99
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	81.37
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	80.56

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.8e-40  Score=348.73  Aligned_cols=475  Identities=13%  Similarity=0.022  Sum_probs=376.5

Q ss_pred             hhcCCChhHHHHHhccCCCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhh----hhhhHH
Q 006997           75 YSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCS----FRQGIS  150 (622)
Q Consensus        75 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~----~~~~~~  150 (622)
                      +.+.|....+...+..++  .+++..|+.++..|.+.|++++|+.+|++|..  ..|+..++..+...+.    .+.+..
T Consensus        63 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~  138 (597)
T 2xpi_A           63 TSTDGSFLKERNAQNTDS--LSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKC  138 (597)
T ss_dssp             ---------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccccCccCCCCCccccch--HHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHH
Confidence            445566666677777666  56777788888888888888888888888774  4566666666666555    556666


Q ss_pred             HHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCC-------------------CcchHHHHHHHHHcCCC
Q 006997          151 MHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGET-------------------SIVSWTTIIGGYVNVGN  211 (622)
Q Consensus       151 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------------------~~~~~~~li~~~~~~~~  211 (622)
                      ++..+...   +++..+++.++.+|.+.|++++|.++|+++...                   +..+|+.++.+|.+.|+
T Consensus       139 ~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  215 (597)
T 2xpi_A          139 LLTKEDLY---NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSN  215 (597)
T ss_dssp             HHHHTCGG---GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhcc---ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCC
Confidence            66655332   237788899999999999999999999854433                   36789999999999999


Q ss_pred             hhHHHHHHHHHHHCCCCCC-HhHHHHHHHHHhccCChHHH--HHH-HHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHH
Q 006997          212 VNEAFGLCNQMRRMSVTPD-LVVFLNLILGCAQVGNLFLA--LSM-HSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARR  287 (622)
Q Consensus       212 ~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a--~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  287 (622)
                      +++|+++|++|.+.+  |+ ...+..+...+...+..+.+  ..+ +..+...+..+...+++.++..|.+.|++++|.+
T Consensus       216 ~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~  293 (597)
T 2xpi_A          216 FDRAKECYKEALMVD--AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAED  293 (597)
T ss_dssp             HHHHHHHHHHHHHHC--TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHH
Confidence            999999999998753  43 44444444433333222211  111 3344444444445566777888999999999999


Q ss_pred             HHhhcCC--CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCC
Q 006997          288 VFDAVLE--KSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLES  365 (622)
Q Consensus       288 ~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  365 (622)
                      +|+++.+  +++.+|+.++..|.+.|++++|+++|+++.+.+ +.+..++..++.++...|++++|..+++.+.+.. +.
T Consensus       294 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~  371 (597)
T 2xpi_A          294 YLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PE  371 (597)
T ss_dssp             HHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cc
Confidence            9999987  789999999999999999999999999999875 3477889999999999999999999999998765 66


Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHhccCC---CCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHH
Q 006997          366 NRQVQTSLIHMFSKCGRINKAKEVFERVP---DKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSIL  441 (622)
Q Consensus       366 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll  441 (622)
                      +..+++.++.+|.+.|++++|.++|+++.   ..+..+|+.++.+|.+.|++++|+++|+++.+   ..| +..++..++
T Consensus       372 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~~l~  448 (597)
T 2xpi_A          372 KAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAAR---LFQGTHLPYLFLG  448 (597)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---TTTTCSHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCccchHHHHHHH
Confidence            78999999999999999999999999875   34678999999999999999999999999997   445 678999999


Q ss_pred             HHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-------CCCc--HHhHHHHHHHH
Q 006997          442 SACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-------VEVQ--AQVWAPLLSAC  512 (622)
Q Consensus       442 ~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~--~~~~~~l~~~~  512 (622)
                      .+|.+.|++++|.++|+++.+.  .+.+..+|..++..|.+.|++++|.++|+++.       ..|+  ..+|..++.+|
T Consensus       449 ~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~  526 (597)
T 2xpi_A          449 MQHMQLGNILLANEYLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAY  526 (597)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHH
Confidence            9999999999999999999865  24478899999999999999999999999884       3676  67999999999


Q ss_pred             HhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          513 MKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       513 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      .+.|++++|++.++++++++|+++.+|..++.+|.+.|++++|.+.|+++.+.
T Consensus       527 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  579 (597)
T 2xpi_A          527 RKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAI  579 (597)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999874

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.5e-40  Score=349.47  Aligned_cols=495  Identities=9%  Similarity=0.012  Sum_probs=412.5

Q ss_pred             CCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHHHHH
Q 006997           28 GNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISA  107 (622)
Q Consensus        28 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~  107 (622)
                      ++...|+.++..|.+.|++++|..+++.+...  .|+..++..++..|.+.|++++|..+|+.+...+++..+|+.++.+
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~  159 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAFC  159 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHHHH
Confidence            56778999999999999999999999999965  4788899999999999999999999999986557889999999999


Q ss_pred             HHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHH
Q 006997          108 HSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSI  187 (622)
Q Consensus       108 ~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  187 (622)
                      |.+.|++++|+++|+++.     |+...-    ..+.       ...-...+... +..+++.++.+|.+.|++++|.+.
T Consensus       160 ~~~~g~~~~A~~~~~~~~-----~~~~~~----~~~~-------~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~  222 (597)
T 2xpi_A          160 LVKLYDWQGALNLLGETN-----PFRKDE----KNAN-------KLLMQDGGIKL-EASMCYLRGQVYTNLSNFDRAKEC  222 (597)
T ss_dssp             HHHTTCHHHHHHHHCSSC-----TTC---------------------CCCSSCCH-HHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHhhHHHHHHHHhccC-----Cccccc----cccc-------cccccccccch-hHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999998532     221000    0000       00000011222 677889999999999999999999


Q ss_pred             HhhcCC--C-CcchHHHHHHHHHcCCChhHHHH--H-HHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhC
Q 006997          188 FDEIGE--T-SIVSWTTIIGGYVNVGNVNEAFG--L-CNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSG  261 (622)
Q Consensus       188 ~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~--~-~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  261 (622)
                      |+++.+  | +...+..+...+...+..+.+..  + +..+...+..++..+|+.++..|.+.|++++|.++++.+.+. 
T Consensus       223 ~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~-  301 (597)
T 2xpi_A          223 YKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL-  301 (597)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG-
T ss_pred             HHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC-
Confidence            999975  3 33455556555544433332221  1 455555555556667778888999999999999999998776 


Q ss_pred             CCCCchhHHHHHHHHHhcCCHHHHHHHHhhcC---CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH
Q 006997          262 YNNEDPLDNLLVSMYTKCGDLELARRVFDAVL---EKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATT  338 (622)
Q Consensus       262 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  338 (622)
                       +++..+++.++..|.+.|++++|.++|+++.   ..+..+|+.++.++.+.|++++|..+++++.+.. +.+..++..+
T Consensus       302 -~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l  379 (597)
T 2xpi_A          302 -EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAV  379 (597)
T ss_dssp             -GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHH
T ss_pred             -CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHH
Confidence             6889999999999999999999999999885   3367889999999999999999999999998653 4578899999


Q ss_pred             HHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHH
Q 006997          339 LSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGD  415 (622)
Q Consensus       339 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~  415 (622)
                      +..|.+.|++++|.++|+.+.+.. +.+..+++.++.+|.+.|++++|.++|+++.+   .+..+|..++.+|.+.|+++
T Consensus       380 ~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  458 (597)
T 2xpi_A          380 GIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNIL  458 (597)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHH
Confidence            999999999999999999998865 55788999999999999999999999998753   47789999999999999999


Q ss_pred             HHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCchHHHHHHHHHhHHhc---CCCCC--hhHHHHHHHHHHhcCChHHH
Q 006997          416 QALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGMVDDGLSFFKSMQSNF---GIEPS--IEHYLCLVDLLGRAGRFDLA  489 (622)
Q Consensus       416 ~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~~p~--~~~~~~l~~~~~~~g~~~~A  489 (622)
                      +|.++|+++.+   ..| +..+|..++.+|.+.|++++|.++|+++.+..   +..|+  ..+|..++.+|.+.|++++|
T Consensus       459 ~A~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A  535 (597)
T 2xpi_A          459 LANEYLQSSYA---LFQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAA  535 (597)
T ss_dssp             HHHHHHHHHHH---HCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHH---hCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHH
Confidence            99999999997   344 57899999999999999999999999997542   55776  78999999999999999999


Q ss_pred             HHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHh
Q 006997          490 LKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTS  548 (622)
Q Consensus       490 ~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (622)
                      .+.++++.  .+.+..+|..++.+|...|++++|.+.++++++++|+++..+..++.+|..
T Consensus       536 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~  596 (597)
T 2xpi_A          536 IDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIMASDLLKRALEE  596 (597)
T ss_dssp             HHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHhc
Confidence            99999986  445788999999999999999999999999999999999999999988754

>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=99.97  E-value=7.2e-28  Score=238.17  Aligned_cols=372  Identities=13%  Similarity=0.084  Sum_probs=312.8

Q ss_pred             HHHHHHhcCChHHHHHHHhhcCC--C-CcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCCh
Q 006997          171 VMSMYAKFGKVNEARSIFDEIGE--T-SIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNL  247 (622)
Q Consensus       171 l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  247 (622)
                      +...+.+.|++++|.+.++.+.+  | +...+..+...+.+.|++++|...++...... +.+..+|..+...+...|++
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~   83 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCH
Confidence            45667788999999999988753  3 44567777788889999999999998887753 45678899999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCC--C-CHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006997          248 FLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLE--K-SVFLWTSMIGGYAQLGYPSEAVNLFKRLL  324 (622)
Q Consensus       248 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  324 (622)
                      ++|...|+.+.+.. |.+...+..+..++.+.|++++|.+.|+++..  | +...+..+...+...|++++|.+.|+++.
T Consensus        84 ~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  162 (388)
T 1w3b_A           84 QEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            99999999998875 55666788999999999999999999988743  3 45678888888999999999999999988


Q ss_pred             hCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHH
Q 006997          325 KTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVW  401 (622)
Q Consensus       325 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~  401 (622)
                      +.. +.+..++..+...+...|+++.|...++.+.+.+ +.+...+..+...+...|++++|...|++...   .+..++
T Consensus       163 ~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  240 (388)
T 1w3b_A          163 ETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVH  240 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHH
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHH
Confidence            763 3356788888889999999999999999998876 55677888899999999999999999887652   356788


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHH
Q 006997          402 SAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLL  480 (622)
Q Consensus       402 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  480 (622)
                      ..+..+|...|++++|++.|+++.+   ..|+ ..++..+..++.+.|++++|...|+++.+.  .+.+..++..++..+
T Consensus       241 ~~l~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~  315 (388)
T 1w3b_A          241 GNLACVYYEQGLIDLAIDTYRRAIE---LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH---TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHH
Confidence            8899999999999999999999988   5665 678888999999999999999999999865  245788889999999


Q ss_pred             HhcCChHHHHHHHHhCC-C-CCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCC
Q 006997          481 GRAGRFDLALKTIHEMP-V-EVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGM  551 (622)
Q Consensus       481 ~~~g~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  551 (622)
                      .+.|++++|.+.++++. . +.+..++..++.++.+.|++++|...++++++++|+++.++..++.++.+.|+
T Consensus       316 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          316 REQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHhHHHHHHHccC
Confidence            99999999999999886 3 44477888999999999999999999999999999999999999999888774

>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=99.97  E-value=2.2e-27  Score=234.75  Aligned_cols=353  Identities=17%  Similarity=0.131  Sum_probs=311.6

Q ss_pred             HHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCC
Q 006997          202 IIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGD  281 (622)
Q Consensus       202 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  281 (622)
                      +...+.+.|++++|.+.+.++.+.. +.+...+..+...+...|++++|...++...+.. +.+..++..+...|.+.|+
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCC
Confidence            3456788999999999999988753 3345566677778888999999999999998875 7788899999999999999


Q ss_pred             HHHHHHHHhhcC--CC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHH
Q 006997          282 LELARRVFDAVL--EK-SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYI  358 (622)
Q Consensus       282 ~~~a~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  358 (622)
                      +++|...|+++.  .| +..+|..++.++...|++++|...|+++.+.. +.+...+..+...+...|++++|...++.+
T Consensus        83 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  161 (388)
T 1w3b_A           83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            999999999874  23 56789999999999999999999999999864 224456677888889999999999999999


Q ss_pred             HHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-H
Q 006997          359 VLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-A  434 (622)
Q Consensus       359 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~  434 (622)
                      .+.. +.+..++..+...|.+.|++++|...|+++.+   .+...|..+...+...|++++|+..++++.+   ..|+ .
T Consensus       162 l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~---~~p~~~  237 (388)
T 1w3b_A          162 IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALS---LSPNHA  237 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHH---HCTTCH
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCcCCH
Confidence            8875 55678899999999999999999999998863   3556888899999999999999999999988   5675 6


Q ss_pred             HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHH
Q 006997          435 VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSA  511 (622)
Q Consensus       435 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  511 (622)
                      .++..+..++...|++++|...|+++.+.   .| ++..+..++..|.+.|++++|++.++++.  .+++..+|..++..
T Consensus       238 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  314 (388)
T 1w3b_A          238 VVHGNLACVYYEQGLIDLAIDTYRRAIEL---QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANI  314 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT---CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHH
Confidence            78899999999999999999999999854   45 57889999999999999999999999986  56678899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          512 CMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       512 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      +...|++++|...+++++++.|+++.++..++.+|.+.|++++|.+.|+++.+
T Consensus       315 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  367 (388)
T 1w3b_A          315 KREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999986

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.95  E-value=1.2e-27  Score=239.58  Aligned_cols=211  Identities=12%  Similarity=0.103  Sum_probs=165.8

Q ss_pred             hHHHHHHHHHhCCCCCCcc-cHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccC
Q 006997           13 ETLSTYSSMLQTGVHGNSF-TFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEM   91 (622)
Q Consensus        13 ~a~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~   91 (622)
                      .+..+.+.+.+++..+.+. .++.+|.+|++.|++++|.++|++|.+.|+.||..+||.||.+|++.+...++       
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~-------   80 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES-------   80 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS-------
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh-------
Confidence            3455667777777766554 58889999999999999999999999999999999999999999887754321       


Q ss_pred             CCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHH
Q 006997           92 PVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSV  171 (622)
Q Consensus        92 ~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  171 (622)
                                       .+.+.+++|.++|++|.+.|+.||..||                                ++|
T Consensus        81 -----------------~~~~~l~~A~~lf~~M~~~G~~Pd~~ty--------------------------------n~l  111 (501)
T 4g26_A           81 -----------------SPNPGLSRGFDIFKQMIVDKVVPNEATF--------------------------------TNG  111 (501)
T ss_dssp             -----------------SCCHHHHHHHHHHHHHHHTTCCCCHHHH--------------------------------HHH
T ss_pred             -----------------hhcchHHHHHHHHHHHHHhCCCCCHHHH--------------------------------HHH
Confidence                             1234567888888888888888877666                                777


Q ss_pred             HHHHHhcCChHHHHHHHhhcCC----CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCCh
Q 006997          172 MSMYAKFGKVNEARSIFDEIGE----TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNL  247 (622)
Q Consensus       172 ~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  247 (622)
                      |.+|++.|++++|.++|++|.+    ||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+.|+.+|++.|++
T Consensus       112 I~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~  191 (501)
T 4g26_A          112 ARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNA  191 (501)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCH
Confidence            7778888888888888888753    788888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCchhHHHHHHHHHhc
Q 006997          248 FLALSMHSLLLKSGYNNEDPLDNLLVSMYTKC  279 (622)
Q Consensus       248 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  279 (622)
                      ++|.+++++|.+.|..|+..||+.++..++..
T Consensus       192 d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          192 DKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999999888887753

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.95  E-value=8.9e-27  Score=233.40  Aligned_cols=184  Identities=14%  Similarity=0.123  Sum_probs=167.9

Q ss_pred             chHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCC---------hHHHHHHHHHHHHhCCCCCch
Q 006997          197 VSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGN---------LFLALSMHSLLLKSGYNNEDP  267 (622)
Q Consensus       197 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~---------~~~a~~~~~~~~~~~~~~~~~  267 (622)
                      ..++.+|.+|++.|++++|+++|++|.+.|++||..||+++|.+|++.+.         ++.|.++|++|...|+.||..
T Consensus        27 ~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~  106 (501)
T 4g26_A           27 ALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEA  106 (501)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHH
Confidence            35788899999999999999999999999999999999999999987654         688999999999999999999


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhcC----CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh
Q 006997          268 LDNLLVSMYTKCGDLELARRVFDAVL----EKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACA  343 (622)
Q Consensus       268 ~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~  343 (622)
                      +|++++.+|++.|++++|.++|++|.    .||..+|+++|.+|++.|++++|.++|++|.+.|+.||..||+.|+.+|+
T Consensus       107 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~  186 (501)
T 4g26_A          107 TFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSM  186 (501)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            99999999999999999999999884    56899999999999999999999999999999999999999999999999


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc
Q 006997          344 ELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKC  380 (622)
Q Consensus       344 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  380 (622)
                      +.|++++|.+++++|.+.+..|+..+|+.++..|...
T Consensus       187 ~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          187 DTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             hCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999888753

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.94  E-value=7e-25  Score=225.66  Aligned_cols=225  Identities=15%  Similarity=0.021  Sum_probs=120.1

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHH
Q 006997          334 TLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAI  410 (622)
Q Consensus       334 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~  410 (622)
                      .+..+...+...|+++.|...++.+.+....  ...+..+..+|...|++++|...|+++..   .+...+..+...+..
T Consensus       239 ~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  316 (514)
T 2gw1_A          239 SLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFI  316 (514)
T ss_dssp             HHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHH
Confidence            3444444455555555555555555444322  44455555555555555555555554432   233455555555555


Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHH
Q 006997          411 HGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLA  489 (622)
Q Consensus       411 ~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  489 (622)
                      .|++++|...++++.+   ..|+ ...+..+...+...|++++|...++++...  .+.+...+..+...|.+.|++++|
T Consensus       317 ~~~~~~A~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A  391 (514)
T 2gw1_A          317 LQNYDQAGKDFDKAKE---LDPENIFPYIQLACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDKA  391 (514)
T ss_dssp             TTCTTHHHHHHHHHHH---TCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHHH
T ss_pred             hCCHHHHHHHHHHHHH---hChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHHH
Confidence            5666666666655554   3332 345555555555666666666666555533  122344555555566666666666


Q ss_pred             HHHHHhCC----CCCc----HHhHHHHHHHHHh---cCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHH
Q 006997          490 LKTIHEMP----VEVQ----AQVWAPLLSACMK---HHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATA  558 (622)
Q Consensus       490 ~~~~~~~~----~~~~----~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  558 (622)
                      ...++++.    ..++    ...|..++..+..   .|++++|...++++++..|+++.++..++.+|.+.|++++|.+.
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            66655543    1111    2255555555555   56666666666666666665556666666666666666666666


Q ss_pred             HHHhhhC
Q 006997          559 RGLMDDR  565 (622)
Q Consensus       559 ~~~~~~~  565 (622)
                      ++++.+.
T Consensus       472 ~~~a~~~  478 (514)
T 2gw1_A          472 FEESADL  478 (514)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            6655543

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.94  E-value=3.9e-24  Score=220.06  Aligned_cols=371  Identities=11%  Similarity=0.005  Sum_probs=312.2

Q ss_pred             ChhhHhHHHHHHHhcCChHHHHHHHhhcCC--CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHH
Q 006997          164 EIPLANSVMSMYAKFGKVNEARSIFDEIGE--TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGC  241 (622)
Q Consensus       164 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  241 (622)
                      ....+......+.+.|++++|...|+++..  |+...|..+..++.+.|++++|+..++++.+.+ +.+...+..+...+
T Consensus         5 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~   83 (514)
T 2gw1_A            5 YALALKDKGNQFFRNKKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASAN   83 (514)
T ss_dssp             HHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHH
Confidence            345677788999999999999999999865  788899999999999999999999999998864 34567899999999


Q ss_pred             hccCChHHHHHHHHHHHHhCCCCC--------------------------------------------------------
Q 006997          242 AQVGNLFLALSMHSLLLKSGYNNE--------------------------------------------------------  265 (622)
Q Consensus       242 ~~~~~~~~a~~~~~~~~~~~~~~~--------------------------------------------------------  265 (622)
                      ...|++++|...|+.+.+.+. ++                                                        
T Consensus        84 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (514)
T 2gw1_A           84 EGLGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVT  162 (514)
T ss_dssp             HHTTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHH
T ss_pred             HHHhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhH
Confidence            999999999999999987652 11                                                        


Q ss_pred             -----------------------chhHHHHHHHHHh---cCCHHHHHHHHhhcCC----------------C-CHHHHHH
Q 006997          266 -----------------------DPLDNLLVSMYTK---CGDLELARRVFDAVLE----------------K-SVFLWTS  302 (622)
Q Consensus       266 -----------------------~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~----------------~-~~~~~~~  302 (622)
                                             ...+..+...+..   .|++++|...|+++..                + +..++..
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (514)
T 2gw1_A          163 SMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEH  242 (514)
T ss_dssp             HHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHH
Confidence                                   2222233333333   8999999999988754                1 3467888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCC
Q 006997          303 MIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGR  382 (622)
Q Consensus       303 l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  382 (622)
                      +...+...|++++|...|+++.+...  +...+..+...+...|+++.|...++.+.+.. +.+..++..+..+|...|+
T Consensus       243 ~~~~~~~~~~~~~A~~~~~~~l~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~  319 (514)
T 2gw1_A          243 TGIFKFLKNDPLGAHEDIKKAIELFP--RVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQN  319 (514)
T ss_dssp             HHHHHHHSSCHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCc--cHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCC
Confidence            99999999999999999999998753  37788889999999999999999999998875 5567788999999999999


Q ss_pred             hHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCchHHHHHHHH
Q 006997          383 INKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGMVDDGLSFFK  458 (622)
Q Consensus       383 ~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~  458 (622)
                      +++|...|+++.+   .+...+..+...+...|++++|...++++.+   ..| +...+..+..++...|++++|...++
T Consensus       320 ~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~la~~~~~~~~~~~A~~~~~  396 (514)
T 2gw1_A          320 YDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKR---KFPEAPEVPNFFAEILTDKNDFDKALKQYD  396 (514)
T ss_dssp             TTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHH---HSTTCSHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---HcccCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999998752   4567888899999999999999999999987   445 46788889999999999999999999


Q ss_pred             HhHHhcCCCCC----hhHHHHHHHHHHh---cCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 006997          459 SMQSNFGIEPS----IEHYLCLVDLLGR---AGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLL  529 (622)
Q Consensus       459 ~~~~~~~~~p~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  529 (622)
                      ++.....-.++    ...+..+...+..   .|++++|...++++.  .+.+..++..++..+...|++++|...+++++
T Consensus       397 ~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~  476 (514)
T 2gw1_A          397 LAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESA  476 (514)
T ss_dssp             HHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            98865222222    3388899999999   999999999999886  44457788999999999999999999999999


Q ss_pred             ccCCCCCchHHHH
Q 006997          530 TLNPGSTGNYILM  542 (622)
Q Consensus       530 ~~~p~~~~~~~~l  542 (622)
                      +++|+++..+..+
T Consensus       477 ~~~~~~~~~~~~~  489 (514)
T 2gw1_A          477 DLARTMEEKLQAI  489 (514)
T ss_dssp             HHCSSHHHHHHHH
T ss_pred             HhccccHHHHHHH
Confidence            9999888877766

>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=99.93  E-value=4.2e-23  Score=208.47  Aligned_cols=341  Identities=12%  Similarity=0.056  Sum_probs=247.4

Q ss_pred             CcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHH
Q 006997          195 SIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVS  274 (622)
Q Consensus       195 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  274 (622)
                      +...|..+...+.+.|++++|+.+|+++.+.. +.+..++..+...+...|++++|...++.+.+.+ +.+..++..+..
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  102 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGH  102 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHH
Confidence            34567777777777777777777777776542 3345666666666667777777777777666654 344455555555


Q ss_pred             HHHhcCCHHHHHHHHhhcCCCC---H---HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCCh
Q 006997          275 MYTKCGDLELARRVFDAVLEKS---V---FLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSL  348 (622)
Q Consensus       275 ~~~~~~~~~~a~~~~~~~~~~~---~---~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~  348 (622)
                      +|.+.|++++|...|+++...+   .   ..+..++..+...                       .+..+...+...|++
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------------------~~~~~a~~~~~~~~~  159 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQ-----------------------RLRSQALNAFGSGDY  159 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHTCH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHcCCH
Confidence            5555555555555555553321   1   3333333321111                       112223446677888


Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhH
Q 006997          349 SKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQ  425 (622)
Q Consensus       349 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  425 (622)
                      +.|...++.+.+.. +.+..++..++.+|.+.|++++|.+.|+++.+   .+..+|..+...|...|++++|+..|+++.
T Consensus       160 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  238 (450)
T 2y4t_A          160 TAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECL  238 (450)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            88888888887765 55677788888888888888888888887753   467788889999999999999999999998


Q ss_pred             HhcCCCCCH-HHHHHH------------HHHHhccCchHHHHHHHHHhHHhcCCCCC-----hhHHHHHHHHHHhcCChH
Q 006997          426 HVEGLKPDA-VVYTSI------------LSACSHSGMVDDGLSFFKSMQSNFGIEPS-----IEHYLCLVDLLGRAGRFD  487 (622)
Q Consensus       426 ~~~~~~p~~-~~~~~l------------l~~~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~  487 (622)
                      +   ..|+. ..+..+            ..+|...|++++|...|+++...   .|+     ...+..++.++.+.|+++
T Consensus       239 ~---~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~~~~g~~~  312 (450)
T 2y4t_A          239 K---LDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKERICHCFSKDEKPV  312 (450)
T ss_dssp             H---HCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHTTTCHH
T ss_pred             H---hCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHHHHCCCHH
Confidence            7   55654 334333            78899999999999999999864   554     457888999999999999


Q ss_pred             HHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHH------------HHHHhcC---
Q 006997          488 LALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMA------------NLFTSAG---  550 (622)
Q Consensus       488 ~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~------------~~~~~~g---  550 (622)
                      +|+..++++.  .+.+...|..++.+|...|++++|...++++++++|+++.++..++            +.|...|   
T Consensus       313 ~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~  392 (450)
T 2y4t_A          313 EAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKR  392 (450)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSST
T ss_pred             HHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCc
Confidence            9999999976  4456889999999999999999999999999999999999999999            4466666   


Q ss_pred             --ChHHHHHHHHH-hhhCCC
Q 006997          551 --MWKEAATARGL-MDDRRL  567 (622)
Q Consensus       551 --~~~~A~~~~~~-~~~~~~  567 (622)
                        +.+++.+.|++ ..+..+
T Consensus       393 ~~~~~~~~~~y~~~~l~~~p  412 (450)
T 2y4t_A          393 NAKKQEIIKAYRKLALQWHP  412 (450)
T ss_dssp             TCCTTHHHHHHHHHHHHSCG
T ss_pred             cCCHHHHHHHHHHHHHHhCC
Confidence              66777888876 444333

>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=99.92  E-value=2.4e-23  Score=215.44  Aligned_cols=424  Identities=14%  Similarity=0.038  Sum_probs=270.5

Q ss_pred             chHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhc
Q 006997           99 VSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKF  178 (622)
Q Consensus        99 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  178 (622)
                      ..|..+...+.+.|++++|++.|+++.+..  |+                               +..++..+...|...
T Consensus        26 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~-------------------------------~~~~~~~la~~~~~~   72 (537)
T 3fp2_A           26 VQLKNRGNHFFTAKNFNEAIKYYQYAIELD--PN-------------------------------EPVFYSNISACYIST   72 (537)
T ss_dssp             HHHHHHHHHHHHTTCCC-CHHHHHHHHHHC--TT-------------------------------CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhC--CC-------------------------------CcHHHHHHHHHHHHc
Confidence            445555666666666666666666665531  22                               445555666666666


Q ss_pred             CChHHHHHHHhhcCC---CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHH
Q 006997          179 GKVNEARSIFDEIGE---TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHS  255 (622)
Q Consensus       179 g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  255 (622)
                      |++++|.+.|+++.+   .+..+|..+..++...|++++|+..|+.+..   .|+..  ...+..+...+....+...++
T Consensus        73 g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~---~~~~~--~~~~~~~~~~~~~~~a~~~~~  147 (537)
T 3fp2_A           73 GDLEKVIEFTTKALEIKPDHSKALLRRASANESLGNFTDAMFDLSVLSL---NGDFD--GASIEPMLERNLNKQAMKVLN  147 (537)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHC----------------CHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHcCCHHHHHHHHHHHhc---CCCCC--hHHHHHHHHHHHHHHHHHHHH
Confidence            666666666665543   2345566666666666666666666643211   22211  111222333334455666665


Q ss_pred             HHHHhC--CCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHH---HHHHHHHHHHh--------cCChHHHHHHHHH
Q 006997          256 LLLKSG--YNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVF---LWTSMIGGYAQ--------LGYPSEAVNLFKR  322 (622)
Q Consensus       256 ~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~l~~~~~~--------~~~~~~a~~~~~~  322 (622)
                      .+....  ..+........+..+....+.+.+...+......+..   ....+...+..        .|++++|..+|++
T Consensus       148 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~  227 (537)
T 3fp2_A          148 ENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHS  227 (537)
T ss_dssp             HHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Confidence            554321  0111111233344455566666666666555444332   23333322222        2467788888888


Q ss_pred             HHhCCCCCC------HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC-
Q 006997          323 LLKTSVRPN------EATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD-  395 (622)
Q Consensus       323 m~~~~~~~~------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-  395 (622)
                      +.+......      ..++..+...+...|+++.|...++.+.+..  |+...+..+...|...|++++|.+.|+++.+ 
T Consensus       228 ~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  305 (537)
T 3fp2_A          228 LLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDL  305 (537)
T ss_dssp             HHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHH
T ss_pred             HHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhcc
Confidence            776532110      1245555666777888888888888887765  3367777788888888888888888887652 


Q ss_pred             --CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhH
Q 006997          396 --KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEH  472 (622)
Q Consensus       396 --~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~  472 (622)
                        .+..+|..+...+...|++++|...++++.+   ..|+ ...+..+..++...|++++|...++++...  .+.+...
T Consensus       306 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~  380 (537)
T 3fp2_A          306 NPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQS---LNPENVYPYIQLACLLYKQGKFTESEAFFNETKLK--FPTLPEV  380 (537)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHH
T ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHH
Confidence              3566788888888888899999999888887   4454 567888888888889999999999888865  1335677


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC-CCC-------cHHhHHHHHHHHHhc----------CCHHHHHHHHHHHHccCCC
Q 006997          473 YLCLVDLLGRAGRFDLALKTIHEMP-VEV-------QAQVWAPLLSACMKH----------HNVELGEYAAKNLLTLNPG  534 (622)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-------~~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~p~  534 (622)
                      +..+...+...|++++|.+.++++. ..|       ....+..+...+...          |++++|...++++++.+|+
T Consensus       381 ~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~  460 (537)
T 3fp2_A          381 PTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPR  460 (537)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCC
Confidence            8888888889999999998888864 111       122244455667777          8999999999999999998


Q ss_pred             CCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          535 STGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       535 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ++.++..++.+|.+.|++++|.+.|+++.+...
T Consensus       461 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~  493 (537)
T 3fp2_A          461 SEQAKIGLAQLKLQMEKIDEAIELFEDSAILAR  493 (537)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC
Confidence            899999999999999999999999998877443

>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=99.92  E-value=2.7e-22  Score=202.51  Aligned_cols=346  Identities=13%  Similarity=0.065  Sum_probs=231.4

Q ss_pred             CCChhhHhHHHHHHHhcCChHHHHHHHhhcCC---CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHH
Q 006997          162 NNEIPLANSVMSMYAKFGKVNEARSIFDEIGE---TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLI  238 (622)
Q Consensus       162 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  238 (622)
                      |.+...+..+...|.+.|++++|..+|+++..   .+..+|..+..++.+.|++++|+..|+++.+.+ +.+...+..+.
T Consensus        23 p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  101 (450)
T 2y4t_A           23 MADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRG  101 (450)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHH
Confidence            33778899999999999999999999998764   467889999999999999999999999998864 34577889999


Q ss_pred             HHHhccCChHHHHHHHHHHHHhCCCCCc---hhHHHHHHH------------HHhcCCHHHHHHHHhhcC---CCCHHHH
Q 006997          239 LGCAQVGNLFLALSMHSLLLKSGYNNED---PLDNLLVSM------------YTKCGDLELARRVFDAVL---EKSVFLW  300 (622)
Q Consensus       239 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~------------~~~~~~~~~a~~~~~~~~---~~~~~~~  300 (622)
                      ..+...|++++|...++.+.+.. +.+.   ..+..+...            +...|++++|...|+++.   ..+..++
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  180 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVWDAELR  180 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHH
Confidence            99999999999999999998864 3344   555555443            455555555555555442   1244455


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc
Q 006997          301 TSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKC  380 (622)
Q Consensus       301 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  380 (622)
                      ..++..|...|++++|+..|+++.+.. +.+..++..+...+...|++++|...++.+.+.. +.+...+..+....   
T Consensus       181 ~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~~~~~~---  255 (450)
T 2y4t_A          181 ELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVK---  255 (450)
T ss_dssp             HHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH---
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CChHHHHHHHHHHH---
Confidence            555555555555555555555554432 2234445555555555555555555555554432 11222221110000   


Q ss_pred             CChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-----HHHHHHHHHHHhccCchHHHHH
Q 006997          381 GRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-----AVVYTSILSACSHSGMVDDGLS  455 (622)
Q Consensus       381 ~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-----~~~~~~ll~~~~~~g~~~~a~~  455 (622)
                                      ....+..+...+...|++++|...|+++.+   ..|+     ...+..+..++.+.|++++|+.
T Consensus       256 ----------------~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~---~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~  316 (450)
T 2y4t_A          256 ----------------KLNKLIESAEELIRDGRYTDATSKYESVMK---TEPSIAEYTVRSKERICHCFSKDEKPVEAIR  316 (450)
T ss_dssp             ----------------HHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCCSSHHHHHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             ----------------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCcchHHHHHHHHHHHHHHHHCCCHHHHHH
Confidence                            000112236777888888888888888887   4555     3367777788888888888888


Q ss_pred             HHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHH------------HHhcC----
Q 006997          456 FFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSA------------CMKHH----  516 (622)
Q Consensus       456 ~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~------------~~~~~----  516 (622)
                      .++++...   .| +...+..+..+|...|++++|...++++. ..|+ ...+..+..+            |...|    
T Consensus       317 ~~~~a~~~---~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~  393 (450)
T 2y4t_A          317 VCSEVLQM---EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRN  393 (450)
T ss_dssp             HHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTT
T ss_pred             HHHHHHHh---CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCcc
Confidence            88887754   34 57788888888888888888888888775 4444 5555555532            22333    


Q ss_pred             -CHHHHHHHHHH-HHccCCCCC
Q 006997          517 -NVELGEYAAKN-LLTLNPGST  536 (622)
Q Consensus       517 -~~~~a~~~~~~-~~~~~p~~~  536 (622)
                       +.+++.+.+++ +++..|++.
T Consensus       394 ~~~~~~~~~y~~~~l~~~pd~~  415 (450)
T 2y4t_A          394 AKKQEIIKAYRKLALQWHPDNF  415 (450)
T ss_dssp             CCTTHHHHHHHHHHHHSCGGGC
T ss_pred             CCHHHHHHHHHHHHHHhCCCCC
Confidence             56778888886 777888643

>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=99.91  E-value=4e-23  Score=213.80  Aligned_cols=255  Identities=11%  Similarity=0.029  Sum_probs=207.7

Q ss_pred             CCHHHHHHHHhhcCCC---C-------HHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChH
Q 006997          280 GDLELARRVFDAVLEK---S-------VFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLS  349 (622)
Q Consensus       280 ~~~~~a~~~~~~~~~~---~-------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~  349 (622)
                      |++++|..+|+++.+.   +       ..++..+...+...|++++|...|+++.+.  .|+...+..+...+...|+++
T Consensus       216 ~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~  293 (537)
T 3fp2_A          216 DLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQ  293 (537)
T ss_dssp             HHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCH
T ss_pred             HHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHH
Confidence            4677777777776443   2       235667777888999999999999999886  456788888889999999999


Q ss_pred             HHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHH
Q 006997          350 KGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQH  426 (622)
Q Consensus       350 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  426 (622)
                      .|...++.+.+.. +.+..++..+...|...|++++|.+.|+++.+   .+...|..+...+...|++++|...++++.+
T Consensus       294 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  372 (537)
T 3fp2_A          294 EFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKL  372 (537)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999998876 55778899999999999999999999998763   3567888999999999999999999999998


Q ss_pred             hcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC----ChhHHHHHHHHHHhc----------CChHHHHH
Q 006997          427 VEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP----SIEHYLCLVDLLGRA----------GRFDLALK  491 (622)
Q Consensus       427 ~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~----------g~~~~A~~  491 (622)
                         ..|+ ...+..+..++...|++++|...|+++.+...-.+    ....+..+...+.+.          |++++|..
T Consensus       373 ---~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~  449 (537)
T 3fp2_A          373 ---KFPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIK  449 (537)
T ss_dssp             ---HCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHH
T ss_pred             ---hCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHH
Confidence               4454 56888899999999999999999999875421111    223345566778888          99999999


Q ss_pred             HHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHH
Q 006997          492 TIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYI  540 (622)
Q Consensus       492 ~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  540 (622)
                      .++++.  .+.+...+..++..+...|++++|.+.+++++++.|.++....
T Consensus       450 ~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  500 (537)
T 3fp2_A          450 LLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTMDEKLQ  500 (537)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CHHHHH
T ss_pred             HHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHH
Confidence            999986  4455788999999999999999999999999999998766544

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.88  E-value=1.5e-19  Score=176.40  Aligned_cols=303  Identities=15%  Similarity=0.086  Sum_probs=212.0

Q ss_pred             HhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCC---CCHHHHHHHHHHH
Q 006997          231 LVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLE---KSVFLWTSMIGGY  307 (622)
Q Consensus       231 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~  307 (622)
                      ...+..+...+...|++++|...++.+.+.. +.+..++..+...+...|++++|...|+++.+   .+...|..+...+
T Consensus         3 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~   81 (359)
T 3ieg_A            3 VEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLL   81 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence            4556677777778888888888888887764 55666777777777777888888777776632   2556777777777


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCC----CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCh
Q 006997          308 AQLGYPSEAVNLFKRLLKTSVRP----NEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRI  383 (622)
Q Consensus       308 ~~~~~~~~a~~~~~~m~~~~~~~----~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  383 (622)
                      ...|++++|...|+++.+.  .|    +...+..+.....                       ...+..+...+...|++
T Consensus        82 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~~  136 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADE-----------------------MQRLRSQALDAFDGADY  136 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTTCH
T ss_pred             HHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHccCH
Confidence            7777777777777777765  33    2222222211000                       01122234566667777


Q ss_pred             HHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCchHHHHHHHHH
Q 006997          384 NKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGMVDDGLSFFKS  459 (622)
Q Consensus       384 ~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~  459 (622)
                      ++|.+.|+++.+   .+...+..+...+...|++++|...++++.+   ..| +..++..+...+...|++++|...+++
T Consensus       137 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  213 (359)
T 3ieg_A          137 TAAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASK---LKSDNTEAFYKISTLYYQLGDHELSLSEVRE  213 (359)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---TCSCCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            777777766542   3455666777777777888888888877776   344 456677777777778888888888877


Q ss_pred             hHHhcCCCCC-hhHHH------------HHHHHHHhcCChHHHHHHHHhCC-CCCc-H----HhHHHHHHHHHhcCCHHH
Q 006997          460 MQSNFGIEPS-IEHYL------------CLVDLLGRAGRFDLALKTIHEMP-VEVQ-A----QVWAPLLSACMKHHNVEL  520 (622)
Q Consensus       460 ~~~~~~~~p~-~~~~~------------~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~----~~~~~l~~~~~~~~~~~~  520 (622)
                      +.+.   .|+ ...+.            .++..+.+.|++++|...++++. ..|+ .    ..+..++..+...|++++
T Consensus       214 a~~~---~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  290 (359)
T 3ieg_A          214 CLKL---DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVE  290 (359)
T ss_dssp             HHHH---CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHhh---CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHH
Confidence            7754   333 33222            23666888899999999888875 2333 2    234557788889999999


Q ss_pred             HHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          521 GEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       521 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      |...++++++.+|+++.++..++.+|...|++++|.+.|+++.+.
T Consensus       291 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~  335 (359)
T 3ieg_A          291 AIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEH  335 (359)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999999999988763

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.88  E-value=8.2e-20  Score=178.19  Aligned_cols=324  Identities=11%  Similarity=0.036  Sum_probs=243.9

Q ss_pred             CcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHH
Q 006997          195 SIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVS  274 (622)
Q Consensus       195 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  274 (622)
                      |+..+..+...+...|++++|+..|+++.+.. +.+..++..+...+...|++++|...++.+.+.. +.+...+..+..
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            34567888999999999999999999998863 3457788899999999999999999999999885 557788999999


Q ss_pred             HHHhcCCHHHHHHHHhhcCCCCH------HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCCh
Q 006997          275 MYTKCGDLELARRVFDAVLEKSV------FLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSL  348 (622)
Q Consensus       275 ~~~~~~~~~~a~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~  348 (622)
                      .+...|++++|...|+++.+.++      ..+..+...+.                       ...+..+...+...|++
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~~  136 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADE-----------------------MQRLRSQALDAFDGADY  136 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTTCH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHccCH
Confidence            99999999999999998855433      33333321100                       01122334445556666


Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhH
Q 006997          349 SKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQ  425 (622)
Q Consensus       349 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  425 (622)
                      +.|...++.+.+.. +.+...+..+..++...|++++|...++++.+   .+...+..+...+...|++++|...++++.
T Consensus       137 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  215 (359)
T 3ieg_A          137 TAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECL  215 (359)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            66666666665554 34555666666666777777777776665543   345667777777888888888888888877


Q ss_pred             HhcCCCCCH-HHHH------------HHHHHHhccCchHHHHHHHHHhHHhcCCCCC-h----hHHHHHHHHHHhcCChH
Q 006997          426 HVEGLKPDA-VVYT------------SILSACSHSGMVDDGLSFFKSMQSNFGIEPS-I----EHYLCLVDLLGRAGRFD  487 (622)
Q Consensus       426 ~~~~~~p~~-~~~~------------~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~----~~~~~l~~~~~~~g~~~  487 (622)
                      +   ..|+. ..+.            .+...+.+.|++++|...++++...   .|+ .    ..+..+..++...|+++
T Consensus       216 ~---~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~la~~~~~~~~~~  289 (359)
T 3ieg_A          216 K---LDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSVAEYTVRSKERICHCFSKDEKPV  289 (359)
T ss_dssp             H---HCTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             h---hCccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCCchHHHHHHHHHHHHHHHHccCHH
Confidence            6   44542 2222            3366788899999999999999865   344 2    23556788999999999


Q ss_pred             HHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcC
Q 006997          488 LALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAG  550 (622)
Q Consensus       488 ~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  550 (622)
                      +|++.++++.  .+.+...|..++..+...|++++|...++++++++|+++.++..+..++...+
T Consensus       290 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~  354 (359)
T 3ieg_A          290 EAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRLLK  354 (359)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHH
Confidence            9999999886  34468889999999999999999999999999999999999998888866543

>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=99.86  E-value=3.3e-19  Score=171.69  Aligned_cols=286  Identities=11%  Similarity=0.043  Sum_probs=192.0

Q ss_pred             CCCchhHHHHHHHHHhcCCHHHHHHHHhhcCC---CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 006997          263 NNEDPLDNLLVSMYTKCGDLELARRVFDAVLE---KSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTL  339 (622)
Q Consensus       263 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll  339 (622)
                      +.+..++..+...+...|++++|.++|+++..   .+...+..++..+...|++++|...++++.+.. +.+...+..+.
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            33444445555555555555555555555422   123344445555555666666666666655542 22344555555


Q ss_pred             HHHhccC-ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHH
Q 006997          340 SACAELG-SLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGD  415 (622)
Q Consensus       340 ~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~  415 (622)
                      ..+...| +++.|...++.+.+.. +.+...+..+..++...|++++|...|+++.+   .+...+..+...|...|+++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHH
Confidence            5566666 6666666666665544 33455566666666666666666666665542   23456666777788888888


Q ss_pred             HHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcC-------CCCChhHHHHHHHHHHhcCChH
Q 006997          416 QALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFG-------IEPSIEHYLCLVDLLGRAGRFD  487 (622)
Q Consensus       416 ~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-------~~p~~~~~~~l~~~~~~~g~~~  487 (622)
                      +|.+.++++.+   ..|+ ...+..+...+...|++++|...++++.....       .+.....+..+..+|...|+++
T Consensus       177 ~A~~~~~~al~---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  253 (330)
T 3hym_B          177 LAERFFSQALS---IAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYA  253 (330)
T ss_dssp             HHHHHHHHHHT---TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHH---hCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHH
Confidence            88888888876   4454 56777888888888888888888888775421       1234568888888999999999


Q ss_pred             HHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHH-HhcCChH
Q 006997          488 LALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLF-TSAGMWK  553 (622)
Q Consensus       488 ~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~  553 (622)
                      +|+..++++.  .+.+...|..++..+...|++++|...++++++++|+++..+..++.++ ...|+.+
T Consensus       254 ~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          254 EALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCchh
Confidence            9999998876  3445778888999999999999999999999999999999999999988 4566654

>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=99.85  E-value=4.1e-17  Score=173.02  Aligned_cols=467  Identities=13%  Similarity=0.077  Sum_probs=335.2

Q ss_pred             HHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCC-----------CCCCCcch----
Q 006997           36 VLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMP-----------VRLRSVVS----  100 (622)
Q Consensus        36 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-----------~~~~~~~~----  100 (622)
                      |+..+-+++++.--...++.-...| ..++.++|+|...|...++-.+..  +.+=+           + +.|+..    
T Consensus       845 lv~~~ekrnrLkll~p~LE~~~~~g-~~~~~~hnalakiyid~n~npe~f--L~~n~~yd~~~vgkyce-~rDp~la~ia  920 (1630)
T 1xi4_A          845 LVAEVEKRNRLKLLLPWLEARIHEG-CEEPATHNALAKIYIDSNNNPERF--LRENPYYDSRVVGKYCE-KRDPHLACVA  920 (1630)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHhccCCCHHHH--hhccCcccHHHHHHHHH-hcCcchHHHH
Confidence            3333344444444555566666667 678899999999999876544431  11110           0 111110    


Q ss_pred             ------HHHHHHHHHhCCCchHH-HHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCC-CCChhhHhHHH
Q 006997          101 ------WNSIISAHSRACLNDEA-ILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLL-NNEIPLANSVM  172 (622)
Q Consensus       101 ------~~~li~~~~~~~~~~~A-~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~  172 (622)
                            -.-||..+-+++-++.- .-+.+       +-|...|..++.-.. ..-+++.+......+. ..++.-....+
T Consensus       921 y~~g~~d~eli~vt~~n~l~k~~arylv~-------r~d~~lW~~vl~~~n-~~RR~Lidqv~a~aL~e~~~PeeVs~~v  992 (1630)
T 1xi4_A          921 YERGQCDLELINVCNENSLFKSLSRYLVR-------RKDPELWGSVLLESN-PYRRPLIDQVVQTALSETQDPEEVSVTV  992 (1630)
T ss_pred             hcccCCcHHHHHHHhcchhHHHHHHHHHH-------hcCHHHHHHHhcCCc-HHHHHHHHHHHHhhcccccCHHHhHHHH
Confidence                  12233333333333221 11111       134555555553322 2233444444433321 12555567788


Q ss_pred             HHHHhcCChHHHHHHHhhcCC-CC-----cchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCC
Q 006997          173 SMYAKFGKVNEARSIFDEIGE-TS-----IVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGN  246 (622)
Q Consensus       173 ~~~~~~g~~~~A~~~~~~~~~-~~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  246 (622)
                      +.|...|.+.+|+++++++.- ++     ...-|.++.+..+. +..+..++..+...       .....+...+...|.
T Consensus       993 Kaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~-------~d~~eIA~Iai~lgl 1064 (1630)
T 1xi4_A          993 KAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDN-------YDAPDIANIAISNEL 1064 (1630)
T ss_pred             HHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhh-------ccHHHHHHHHHhCCC
Confidence            999999999999999999863 22     24566677777777 55677676666542       113447778889999


Q ss_pred             hHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006997          247 LFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKT  326 (622)
Q Consensus       247 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  326 (622)
                      +++|..+|++..     ......+.+   +-..+++++|.++.++.  .+..+|..+..++...|++++|+..|.+.   
T Consensus      1065 yEEAf~IYkKa~-----~~~~A~~VL---ie~i~nldrAiE~Aerv--n~p~vWsqLAKAql~~G~~kEAIdsYiKA--- 1131 (1630)
T 1xi4_A         1065 FEEAFAIFRKFD-----VNTSAVQVL---IEHIGNLDRAYEFAERC--NEPAVWSQLAKAQLQKGMVKEAIDSYIKA--- 1131 (1630)
T ss_pred             HHHHHHHHHHcC-----CHHHHHHHH---HHHHhhHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCHHHHHHHHHhc---
Confidence            999999999852     111112222   33788999999999977  45788999999999999999999999763   


Q ss_pred             CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHH
Q 006997          327 SVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMIN  406 (622)
Q Consensus       327 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~  406 (622)
                         -|...|..++.+|.+.|+++++.+++....+..  +++.+.+.++.+|++.+++++.....   ..++...|..+..
T Consensus      1132 ---dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI---~~~n~ad~~~iGd 1203 (1630)
T 1xi4_A         1132 ---DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---NGPNNAHIQQVGD 1203 (1630)
T ss_pred             ---CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---hCCCHHHHHHHHH
Confidence               477888999999999999999999999888765  34444556999999999999755554   3556677888999


Q ss_pred             HHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCCh
Q 006997          407 GYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRF  486 (622)
Q Consensus       407 ~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  486 (622)
                      .|...|++++|..+|..+.          .|..+..++.+.|+++.|.+.+++..       +..+|..+..+|...|++
T Consensus      1204 ~le~eg~YeeA~~~Y~kA~----------ny~rLA~tLvkLge~q~AIEaarKA~-------n~~aWkev~~acve~~Ef 1266 (1630)
T 1xi4_A         1204 RCYDEKMYDAAKLLYNNVS----------NFGRLASTLVHLGEYQAAVDGARKAN-------STRTWKEVCFACVDGKEF 1266 (1630)
T ss_pred             HHHhcCCHHHHHHHHHhhh----------HHHHHHHHHHHhCCHHHHHHHHHHhC-------CHHHHHHHHHHHhhhhHH
Confidence            9999999999999999853          58999999999999999999998763       568899999999999999


Q ss_pred             HHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhc--CChHHHHHHHHHh
Q 006997          487 DLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSA--GMWKEAATARGLM  562 (622)
Q Consensus       487 ~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~--g~~~~A~~~~~~~  562 (622)
                      ..|......+.  .++..+..++..|...|.+++|+.++++++.++|.+...|.-++.+|.+-  ++..++.+.|..-
T Consensus      1267 ~LA~~cgl~Ii--v~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f~~r 1342 (1630)
T 1xi4_A         1267 RLAQMCGLHIV--VHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSR 1342 (1630)
T ss_pred             HHHHHHHHhhh--cCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            99999887643  34555678999999999999999999999999999999998888888764  6777777777744

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.85  E-value=1.4e-17  Score=169.45  Aligned_cols=379  Identities=12%  Similarity=0.021  Sum_probs=307.1

Q ss_pred             ChhhHhHHHHHHHh----cCChHHHHHHHhhcCC-CCcchHHHHHHHHHc----CCChhHHHHHHHHHHHCCCCCCHhHH
Q 006997          164 EIPLANSVMSMYAK----FGKVNEARSIFDEIGE-TSIVSWTTIIGGYVN----VGNVNEAFGLCNQMRRMSVTPDLVVF  234 (622)
Q Consensus       164 ~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~  234 (622)
                      +......+...|..    .+++++|...|+...+ .+..++..+...|..    .+++++|.+.|++..+.|   +...+
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~  114 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQ  114 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            67777778888887    8999999999988755 466788888889988    899999999999998865   56667


Q ss_pred             HHHHHHHhc----cCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHh----cCCHHHHHHHHhhcCC-CCHHHHHHHHH
Q 006997          235 LNLILGCAQ----VGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTK----CGDLELARRVFDAVLE-KSVFLWTSMIG  305 (622)
Q Consensus       235 ~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~-~~~~~~~~l~~  305 (622)
                      ..+...+..    .+++++|...++...+.|   +...+..|...|..    .++.++|.+.|++..+ .++.++..+..
T Consensus       115 ~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~  191 (490)
T 2xm6_A          115 QNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGY  191 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            777777777    789999999999998876   56677888888887    7899999999988754 47788889999


Q ss_pred             HHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 006997          306 GYAQ----LGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAE----LGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMF  377 (622)
Q Consensus       306 ~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  377 (622)
                      .|..    .+++++|+..|++..+.|   +...+..+...+..    .+++++|...++...+.+   ++..+..+..+|
T Consensus       192 ~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y  265 (490)
T 2xm6_A          192 MYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYIL  265 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHH
T ss_pred             HHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHH
Confidence            9988    899999999999998865   55667777777765    789999999999988765   456677788888


Q ss_pred             Hh----cCChHHHHHHhccCCC-CChhHHHHHHHHHHHc-----CCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhcc
Q 006997          378 SK----CGRINKAKEVFERVPD-KDLAVWSAMINGYAIH-----GMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHS  447 (622)
Q Consensus       378 ~~----~~~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~  447 (622)
                      ..    .+++++|.+.|++..+ .+...+..+...|...     +++++|+..|++..+ .+   +...+..+...|...
T Consensus       266 ~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~y~~~  341 (490)
T 2xm6_A          266 EQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAE-QG---DATAQANLGAIYFRL  341 (490)
T ss_dssp             HHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHS
T ss_pred             HCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHh-cC---CHHHHHHHHHHHHhC
Confidence            87    8999999999998765 4566777788888887     899999999999988 43   455677777777765


Q ss_pred             C---chHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh----cCChHHHHHHHHhCCCCCcHHhHHHHHHHHHh----cC
Q 006997          448 G---MVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGR----AGRFDLALKTIHEMPVEVQAQVWAPLLSACMK----HH  516 (622)
Q Consensus       448 g---~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~  516 (622)
                      |   ++++|.++|++..+.    .++..+..|...|..    .+++++|.+++++.....++..+..|...|..    .+
T Consensus       342 g~~~~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~~~  417 (490)
T 2xm6_A          342 GSEEEHKKAVEWFRKAAAK----GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVER  417 (490)
T ss_dssp             CCHHHHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCC
T ss_pred             CCcccHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCCC
Confidence            6   889999999998853    467788889999988    89999999999988744567788889999988    89


Q ss_pred             CHHHHHHHHHHHHccCCC---CCchHHHHHHHHHhcCChHH--HHHHHHHh
Q 006997          517 NVELGEYAAKNLLTLNPG---STGNYILMANLFTSAGMWKE--AATARGLM  562 (622)
Q Consensus       517 ~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~~~~--A~~~~~~~  562 (622)
                      |.++|...|+++++.+|+   ++.....++.++.+.....+  |.+++++.
T Consensus       418 d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~~~~~a~~~a~~~~~~~  468 (490)
T 2xm6_A          418 DYVQAWAWFDTASTNDMNLFGTENRNITEKKLTAKQLQQAELLSQQYIEKY  468 (490)
T ss_dssp             CHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHhHHHHHHHHHHHHHHHH
Confidence            999999999999999854   77777778777665332222  44555443

>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=99.84  E-value=1.3e-18  Score=167.48  Aligned_cols=263  Identities=13%  Similarity=0.059  Sum_probs=229.5

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHH
Q 006997          295 KSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLI  374 (622)
Q Consensus       295 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  374 (622)
                      .++..+..++..+...|++++|+.+|+++.+.. +.+...+..++..+...|++++|...++.+.+.. +.+...+..+.
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            355667788888999999999999999998864 3345566677788899999999999999998876 55778889999


Q ss_pred             HHHHhcC-ChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCc
Q 006997          375 HMFSKCG-RINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGM  449 (622)
Q Consensus       375 ~~~~~~~-~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~  449 (622)
                      ..+...| ++++|.+.|+++..   .+...|..+...+...|++++|.+.++++.+   ..|+ ...+..+...+...|+
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~l~~~~~~~~~  174 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQ---LMKGCHLPMLYIGLEYGLTNN  174 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HTTTCSHHHHHHHHHHHHTTC
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHH---hccccHHHHHHHHHHHHHHhh
Confidence            9999999 99999999998764   3567899999999999999999999999998   4454 5677779999999999


Q ss_pred             hHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-C----------CCcHHhHHHHHHHHHhcCC
Q 006997          450 VDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-V----------EVQAQVWAPLLSACMKHHN  517 (622)
Q Consensus       450 ~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~----------~~~~~~~~~l~~~~~~~~~  517 (622)
                      +++|...++++...   .| +...+..+...+...|++++|...++++. .          +.....+..++..+...|+
T Consensus       175 ~~~A~~~~~~al~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~  251 (330)
T 3hym_B          175 SKLAERFFSQALSI---APEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKK  251 (330)
T ss_dssp             HHHHHHHHHHHHTT---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcC
Confidence            99999999999843   44 57888999999999999999999998874 1          3346789999999999999


Q ss_pred             HHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          518 VELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       518 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      +++|...+++++++.|+++.++..++.+|.+.|++++|.+.++++.+.
T Consensus       252 ~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  299 (330)
T 3hym_B          252 YAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGL  299 (330)
T ss_dssp             HHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTT
T ss_pred             HHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHcc
Confidence            999999999999999999999999999999999999999999988763

>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=99.83  E-value=3.4e-19  Score=174.56  Aligned_cols=279  Identities=12%  Similarity=-0.013  Sum_probs=196.0

Q ss_pred             cCCHHHHHH-HHhhcCCC-------CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHH
Q 006997          279 CGDLELARR-VFDAVLEK-------SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSK  350 (622)
Q Consensus       279 ~~~~~~a~~-~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~  350 (622)
                      .|++++|.+ .|++....       +...+..+...+...|++++|+..|+++.+.. +.+...+..+...+...|+++.
T Consensus        38 ~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~  116 (368)
T 1fch_A           38 LSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELL  116 (368)
T ss_dssp             --------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHH
Confidence            355555555 55543211       12345555566666666666666666666543 2344555555566666666666


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC--C-ChhHHHH---------------HHHHHHHcC
Q 006997          351 GKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD--K-DLAVWSA---------------MINGYAIHG  412 (622)
Q Consensus       351 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~---------------l~~~~~~~~  412 (622)
                      |...++.+.+.. +.+..++..+..+|...|++++|.+.|+++..  | +...+..               .+..+...|
T Consensus       117 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  195 (368)
T 1fch_A          117 AISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDS  195 (368)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcc
Confidence            666666665554 33555566666666666666666666655432  1 1111110               133334889


Q ss_pred             CHHHHHHHHHHhHHhcCCCCC---HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHH
Q 006997          413 MGDQALNLFYKMQHVEGLKPD---AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLA  489 (622)
Q Consensus       413 ~~~~a~~~~~~~~~~~~~~p~---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  489 (622)
                      ++++|...|+++.+   ..|+   ..++..+..++...|++++|+..++++...  .+.+...+..++..|...|++++|
T Consensus       196 ~~~~A~~~~~~a~~---~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A  270 (368)
T 1fch_A          196 LFLEVKELFLAAVR---LDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEA  270 (368)
T ss_dssp             HHHHHHHHHHHHHH---HSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHHHH---hCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcCCHHHH
Confidence            99999999999998   4454   788999999999999999999999999865  133578899999999999999999


Q ss_pred             HHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC-----------CchHHHHHHHHHhcCChHHHH
Q 006997          490 LKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS-----------TGNYILMANLFTSAGMWKEAA  556 (622)
Q Consensus       490 ~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~A~  556 (622)
                      +..++++.  .+.+...+..++.++...|++++|...+++++++.|++           +.+|..++.+|...|++++|.
T Consensus       271 ~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  350 (368)
T 1fch_A          271 VAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  350 (368)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHH
Confidence            99999986  44557889999999999999999999999999998877           789999999999999999999


Q ss_pred             HHHHHhhh
Q 006997          557 TARGLMDD  564 (622)
Q Consensus       557 ~~~~~~~~  564 (622)
                      .++++..+
T Consensus       351 ~~~~~~l~  358 (368)
T 1fch_A          351 AADARDLS  358 (368)
T ss_dssp             HHHTTCHH
T ss_pred             HhHHHHHH
Confidence            99885543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.83  E-value=5.2e-17  Score=166.94  Aligned_cols=396  Identities=11%  Similarity=0.055  Sum_probs=292.0

Q ss_pred             CCChhhHhHHHHHHHhcCChHHHHHHHhhcCC--C-CcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHH
Q 006997          162 NNEIPLANSVMSMYAKFGKVNEARSIFDEIGE--T-SIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLI  238 (622)
Q Consensus       162 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  238 (622)
                      |.+...|..++. +.+.|++++|..+|+++.+  | +...|...+..+.+.|++++|..+|++....  .|+...|...+
T Consensus        10 P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~--~p~~~lw~~~~   86 (530)
T 2ooe_A           10 PYDLDAWSILIR-EAQNQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMK--VLHIDLWKCYL   86 (530)
T ss_dssp             TTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTT--CCCHHHHHHHH
T ss_pred             CCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--CCChHHHHHHH
Confidence            337788888888 4778999999999999876  3 4567999999999999999999999999875  46777666666


Q ss_pred             HHH-hccCChHHHHH----HHHHHHHh-CCCC-CchhHHHHHHHHHh---------cCCHHHHHHHHhhcCCC-C---HH
Q 006997          239 LGC-AQVGNLFLALS----MHSLLLKS-GYNN-EDPLDNLLVSMYTK---------CGDLELARRVFDAVLEK-S---VF  298 (622)
Q Consensus       239 ~~~-~~~~~~~~a~~----~~~~~~~~-~~~~-~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~-~---~~  298 (622)
                      ... ...|+.+.|.+    +|+..+.. |..| +...|...+....+         .|+++.|..+|++.... .   ..
T Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~  166 (530)
T 2ooe_A           87 SYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQ  166 (530)
T ss_dssp             HHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHH
T ss_pred             HHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHH
Confidence            433 34566666554    67766553 5443 55677777776654         68899999999987642 1   12


Q ss_pred             HHHHHHHHH-------------HhcCChHHHHHHHHHH------HhCC---CCCCH--------HHHHHHHHHHhc----
Q 006997          299 LWTSMIGGY-------------AQLGYPSEAVNLFKRL------LKTS---VRPNE--------ATLATTLSACAE----  344 (622)
Q Consensus       299 ~~~~l~~~~-------------~~~~~~~~a~~~~~~m------~~~~---~~~~~--------~~~~~ll~~~~~----  344 (622)
                      .|.......             ...+++..|..+++.+      .+..   ++|+.        ..|...+.....    
T Consensus       167 ~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~  246 (530)
T 2ooe_A          167 LWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLR  246 (530)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSC
T ss_pred             HHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCcc
Confidence            333322211             1235567777777653      2221   24431        334443332221    


Q ss_pred             cCCh----HHHHHHHHHHHHcCCCCchhHHHHHHHHHHh-------cCChH-------HHHHHhccCCC---C-ChhHHH
Q 006997          345 LGSL----SKGKEIEEYIVLNGLESNRQVQTSLIHMFSK-------CGRIN-------KAKEVFERVPD---K-DLAVWS  402 (622)
Q Consensus       345 ~~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~A~~~~~~~~~---~-~~~~~~  402 (622)
                      .++.    ..+..+|+++.... +.++.+|..++..+.+       .|+++       +|..+|++..+   | +...|.
T Consensus       247 ~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~  325 (530)
T 2ooe_A          247 TEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYF  325 (530)
T ss_dssp             CSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHH
T ss_pred             CCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHH
Confidence            1232    36778888888764 5678888888888876       79987       89999998764   3 567888


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH--HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC-hhHHHHHHHH
Q 006997          403 AMINGYAIHGMGDQALNLFYKMQHVEGLKPDA--VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS-IEHYLCLVDL  479 (622)
Q Consensus       403 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~  479 (622)
                      .++..+.+.|++++|..+|+++.+   +.|+.  ..|..++..+.+.|++++|..+|++..+.   .|+ ...+...+..
T Consensus       326 ~~~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~---~~~~~~~~~~~a~~  399 (530)
T 2ooe_A          326 AYADYEESRMKYEKVHSIYNRLLA---IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED---ARTRHHVYVTAALM  399 (530)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH---SSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC---TTCCTHHHHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHhC---ccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc---cCCchHHHHHHHHH
Confidence            999999999999999999999998   67763  47888888888999999999999999843   443 3444333322


Q ss_pred             -HHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCc----hHHHHHHHHHhcCCh
Q 006997          480 -LGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTG----NYILMANLFTSAGMW  552 (622)
Q Consensus       480 -~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~----~~~~l~~~~~~~g~~  552 (622)
                       +...|+.++|..+|++..  .+.++..|..++..+.+.|+.++|..+|+++++..|.++.    .|...+......|+.
T Consensus       400 ~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~  479 (530)
T 2ooe_A          400 EYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDL  479 (530)
T ss_dssp             HHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCH
T ss_pred             HHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCH
Confidence             346899999999999876  3445788999999999999999999999999998877665    788888888999999


Q ss_pred             HHHHHHHHHhhhCCC
Q 006997          553 KEAATARGLMDDRRL  567 (622)
Q Consensus       553 ~~A~~~~~~~~~~~~  567 (622)
                      +.+..+++++.+..+
T Consensus       480 ~~~~~~~~r~~~~~p  494 (530)
T 2ooe_A          480 ASILKVEKRRFTAFR  494 (530)
T ss_dssp             HHHHHHHHHHHHHTH
T ss_pred             HHHHHHHHHHHHHCc
Confidence            999999999877543

>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=99.83  E-value=3.5e-15  Score=158.54  Aligned_cols=418  Identities=12%  Similarity=0.113  Sum_probs=307.4

Q ss_pred             CcccHHHHHHHhhccCChhhHHHHHHHHHHhc--CCCCchhHHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHHHH
Q 006997           29 NSFTFPLVLKACANINSIWDGKRVHSHVLKVG--FQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIIS  106 (622)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~  106 (622)
                      ++.-.....++|...|.+.+|.++++.+...+  +..+....+.++....+. +..+..+......  ..+   ..-+..
T Consensus       984 ~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd--~~d---~~eIA~ 1057 (1630)
T 1xi4_A          984 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLD--NYD---APDIAN 1057 (1630)
T ss_pred             CHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhh--hcc---HHHHHH
Confidence            34445677788888999999999999988442  123445666677666665 4444444444433  122   344777


Q ss_pred             HHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhh-hhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHH
Q 006997          107 AHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCS-FRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEAR  185 (622)
Q Consensus       107 ~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  185 (622)
                      .+...|.+++|..+|++..     -.......++.... ++.|.++..++       .++.+|..+..++...|++++|.
T Consensus      1058 Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie~i~nldrAiE~Aerv-------n~p~vWsqLAKAql~~G~~kEAI 1125 (1630)
T 1xi4_A         1058 IAISNELFEEAFAIFRKFD-----VNTSAVQVLIEHIGNLDRAYEFAERC-------NEPAVWSQLAKAQLQKGMVKEAI 1125 (1630)
T ss_pred             HHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHHHHhhHHHHHHHHHhc-------CCHHHHHHHHHHHHhCCCHHHHH
Confidence            7888999999999999852     12223344554444 66666666644       27889999999999999999999


Q ss_pred             HHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCC
Q 006997          186 SIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNE  265 (622)
Q Consensus       186 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  265 (622)
                      ..|.+.  .|...|..++.++.+.|++++|++.|...++..  +++...+.++.+|++.++++....+..       .++
T Consensus      1126 dsYiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI~-------~~n 1194 (1630)
T 1xi4_A         1126 DSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFIN-------GPN 1194 (1630)
T ss_pred             HHHHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHHh-------CCC
Confidence            999775  677888999999999999999999999887754  444444468889999999886554431       445


Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc
Q 006997          266 DPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAEL  345 (622)
Q Consensus       266 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~  345 (622)
                      ...+..+...|...|++++|..+|...     ..|..+...|++.|++++|.+.+++.      .+..+|..+..+|...
T Consensus      1195 ~ad~~~iGd~le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~ 1263 (1630)
T 1xi4_A         1195 NAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDG 1263 (1630)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhh
Confidence            566777999999999999999999985     58999999999999999999999976      3668899999999999


Q ss_pred             CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCC---ChhHHHHHHHHHHHc--CCHHHHHHH
Q 006997          346 GSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDK---DLAVWSAMINGYAIH--GMGDQALNL  420 (622)
Q Consensus       346 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~--~~~~~a~~~  420 (622)
                      |++..|......     +..++..+..++..|.+.|.+++|..+++....-   ....|+-+...|++.  ++..++++.
T Consensus      1264 ~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~ 1338 (1630)
T 1xi4_A         1264 KEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLEL 1338 (1630)
T ss_pred             hHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            999888876653     3445667778999999999999999999877643   334666666666654  344555555


Q ss_pred             HHHhHHhcCCCC------CHHHHHHHHHHHhccCchHHHHHHH-------------HHhHHhcCCCCChhHHHHHHHHHH
Q 006997          421 FYKMQHVEGLKP------DAVVYTSILSACSHSGMVDDGLSFF-------------KSMQSNFGIEPSIEHYLCLVDLLG  481 (622)
Q Consensus       421 ~~~~~~~~~~~p------~~~~~~~ll~~~~~~g~~~~a~~~~-------------~~~~~~~~~~p~~~~~~~l~~~~~  481 (622)
                      |..-..   ++|      +...|.-+...|.+.|+++.|....             ....   .-..+++.|...+.-|.
T Consensus      1339 f~~rin---i~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i---~kv~n~elyykai~Fyl 1412 (1630)
T 1xi4_A         1339 FWSRVN---IPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDII---TKVANVELYYRAIQFYL 1412 (1630)
T ss_pred             HHHhcc---cchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHh---cccccHHHHHHHHHHHH
Confidence            554332   444      3567888888999999999988322             2222   12446778877777777


Q ss_pred             hcC---------------ChHHHHHHHHhCC
Q 006997          482 RAG---------------RFDLALKTIHEMP  497 (622)
Q Consensus       482 ~~g---------------~~~~A~~~~~~~~  497 (622)
                      ...               +.+.+.++|.+..
T Consensus      1413 ~~~P~~lndLl~~l~~rlD~~R~V~l~~~~~ 1443 (1630)
T 1xi4_A         1413 EFKPLLLNDLLMVLSPRLDHTRAVNYFSKVK 1443 (1630)
T ss_pred             hhChHHHHHHHHHhhhcCChHHHHHHHHHcC
Confidence            666               7788888887553

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.82  E-value=1.5e-16  Score=161.77  Aligned_cols=352  Identities=10%  Similarity=-0.002  Sum_probs=298.8

Q ss_pred             CCcchHHHHHHHHHc----CCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhc----cCChHHHHHHHHHHHHhCCCCC
Q 006997          194 TSIVSWTTIIGGYVN----VGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQ----VGNLFLALSMHSLLLKSGYNNE  265 (622)
Q Consensus       194 ~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~  265 (622)
                      .+..++..+...|..    .+++++|+..|++..+.|   +...+..+...+..    .++.++|...|++..+.|   +
T Consensus        37 g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~  110 (490)
T 2xm6_A           37 GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---L  110 (490)
T ss_dssp             TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---C
T ss_pred             CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---C
Confidence            466777888888888    899999999999998864   56777788888888    899999999999998875   5


Q ss_pred             chhHHHHHHHHHh----cCCHHHHHHHHhhcCCC-CHHHHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHH
Q 006997          266 DPLDNLLVSMYTK----CGDLELARRVFDAVLEK-SVFLWTSMIGGYAQ----LGYPSEAVNLFKRLLKTSVRPNEATLA  336 (622)
Q Consensus       266 ~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~  336 (622)
                      ...+..|...|..    .+++++|...|++..+. ++.++..|...|..    .+++++|++.|++..+.|   +...+.
T Consensus       111 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~  187 (490)
T 2xm6_A          111 PQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCN  187 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            6677788888988    88999999999987544 67888889998987    789999999999999875   677777


Q ss_pred             HHHHHHhc----cCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh----cCChHHHHHHhccCCC-CChhHHHHHHHH
Q 006997          337 TTLSACAE----LGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSK----CGRINKAKEVFERVPD-KDLAVWSAMING  407 (622)
Q Consensus       337 ~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~-~~~~~~~~l~~~  407 (622)
                      .+...|..    .++.++|...++...+.+   ++..+..+..+|..    .+++++|.+.|++..+ .+...+..+...
T Consensus       188 ~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~  264 (490)
T 2xm6_A          188 QLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYI  264 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            88888877    899999999999998865   56677888888886    7899999999998764 466677777788


Q ss_pred             HHH----cCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhcc-----CchHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 006997          408 YAI----HGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHS-----GMVDDGLSFFKSMQSNFGIEPSIEHYLCLVD  478 (622)
Q Consensus       408 ~~~----~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~-----g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  478 (622)
                      |..    .+++++|++.|++..+ .+   +...+..+...|...     +++++|...|++..+.    .+...+..+..
T Consensus       265 y~~g~~~~~d~~~A~~~~~~a~~-~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~  336 (490)
T 2xm6_A          265 LEQGLAGAKEPLKALEWYRKSAE-QG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ----GDATAQANLGA  336 (490)
T ss_dssp             HHHTTTSSCCHHHHHHHHHHHHT-TT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT----TCHHHHHHHHH
T ss_pred             HHCCCCCCCCHHHHHHHHHHHHH-cC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc----CCHHHHHHHHH
Confidence            887    8999999999999987 43   456677777787776     8999999999998854    35567788888


Q ss_pred             HHHhcC---ChHHHHHHHHhCCCCCcHHhHHHHHHHHHh----cCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHh---
Q 006997          479 LLGRAG---RFDLALKTIHEMPVEVQAQVWAPLLSACMK----HHNVELGEYAAKNLLTLNPGSTGNYILMANLFTS---  548 (622)
Q Consensus       479 ~~~~~g---~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~---  548 (622)
                      .|...|   ++++|++++++.....++..+..|...|..    .+++++|...++++.+..  ++.++..++.+|..   
T Consensus       337 ~y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~--~~~a~~~Lg~~y~~g~g  414 (490)
T 2xm6_A          337 IYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG--LSAAQVQLGEIYYYGLG  414 (490)
T ss_dssp             HHHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSS
T ss_pred             HHHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC--CHHHHHHHHHHHHcCCC
Confidence            888866   789999999998745678889999999988    899999999999999864  58899999999999   


Q ss_pred             -cCChHHHHHHHHHhhhCCC
Q 006997          549 -AGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       549 -~g~~~~A~~~~~~~~~~~~  567 (622)
                       .+++++|...|++..+.+.
T Consensus       415 ~~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          415 VERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             SCCCHHHHHHHHHHHHHHHC
T ss_pred             CCCCHHHHHHHHHHHHHCCC
Confidence             8999999999999998764

>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=99.82  E-value=3.9e-19  Score=169.15  Aligned_cols=347  Identities=14%  Similarity=0.115  Sum_probs=163.6

Q ss_pred             HhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHH
Q 006997          176 AKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHS  255 (622)
Q Consensus       176 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  255 (622)
                      .+.|++++|.++++++..|  ..|..++.++.+.|++++|++.|.+      .+|..+|..++..+...|++++|..+++
T Consensus        14 ~~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~   85 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQ   85 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            3678899999999999665  4999999999999999999999975      3678899999999999999999999888


Q ss_pred             HHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH
Q 006997          256 LLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATL  335 (622)
Q Consensus       256 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~  335 (622)
                      ..++.  .+++.+.+.++.+|.+.|+++++.++++.   |+..+|+.++..|...|.+++|...|..+         ..|
T Consensus        86 ~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~  151 (449)
T 1b89_A           86 MARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNF  151 (449)
T ss_dssp             -------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCH
T ss_pred             HHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhH
Confidence            77774  45578899999999999999999988864   67789999999999999999999999977         378


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHH
Q 006997          336 ATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGD  415 (622)
Q Consensus       336 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  415 (622)
                      ..+..++.+.|+++.|.+.+..+      .++.+|..++.+|...|+++.|......+. ..+.-...++..|.+.|+++
T Consensus       152 ~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~e  224 (449)
T 1b89_A          152 GRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFE  224 (449)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHH
Confidence            99999999999999999999988      378899999999999999999988887765 44444556889999999999


Q ss_pred             HHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhc--cCchHHHHHHHHHhHHhcCCCC------ChhHHHHHHHHHHhcCCh
Q 006997          416 QALNLFYKMQHVEGLKPD-AVVYTSILSACSH--SGMVDDGLSFFKSMQSNFGIEP------SIEHYLCLVDLLGRAGRF  486 (622)
Q Consensus       416 ~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~--~g~~~~a~~~~~~~~~~~~~~p------~~~~~~~l~~~~~~~g~~  486 (622)
                      +|..+++....   ..+. ...|+.+.-+|++  .++..+.++.|.   ++-+++|      +...|..++-.|...+++
T Consensus       225 Eai~lLe~aL~---le~ah~~~ftel~il~~ky~p~k~~ehl~~~~---~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~  298 (449)
T 1b89_A          225 ELITMLEAALG---LERAHMGMFTELAILYSKFKPQKMREHLELFW---SRVNIPKVLRAAEQAHLWAELVFLYDKYEEY  298 (449)
T ss_dssp             HHHHHHHHHTT---STTCCHHHHHHHHHHHHTTCHHHHHHHHHHHS---TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhC---CcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH---HHhcCcHHHHHHHHHHHHHHHHHHHHhhchH
Confidence            99999999876   4443 4455555555554  445555555554   3335555      467789999999999999


Q ss_pred             HHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHh
Q 006997          487 DLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLM  562 (622)
Q Consensus       487 ~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  562 (622)
                      +.|...+-+-+  |+.--...+.....+-.+.+--.+...--++-.   |.....|..++...=+.+.+.+.|++.
T Consensus       299 d~A~~tm~~h~--~~a~~~~~f~~~~~kv~n~elyYkai~fyl~~~---p~~l~~ll~~l~~~ld~~r~v~~~~~~  369 (449)
T 1b89_A          299 DNAIITMMNHP--TDAWKEGQFKDIITKVANVELYYRAIQFYLEFK---PLLLNDLLMVLSPRLDHTRAVNYFSKV  369 (449)
T ss_dssp             HHHHHHHHHST--TTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHHC---GGGHHHHHHHHGGGCCHHHHHHHHHHT
T ss_pred             HHHHHHHHhCC--hhhhhhHHHHHHHhchhHHHHHHHHHHHHHhcC---HHHHHHHHHHHHhccCcHHHHHHHHHc
Confidence            99988776653  222122223333444444443333333333222   234444555554444555555554433

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.82  E-value=1.9e-17  Score=154.91  Aligned_cols=271  Identities=11%  Similarity=-0.018  Sum_probs=220.7

Q ss_pred             HHHHhcCCHHHHHHHHhhcCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChH
Q 006997          274 SMYTKCGDLELARRVFDAVLEKSV----FLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLS  349 (622)
Q Consensus       274 ~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~  349 (622)
                      +-....|+++.|+..++.....++    .....+..+|...|+++.|+..++..    -.|+..++..+...+...++.+
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~----~~~~~~a~~~la~~~~~~~~~~   82 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPS----SAPELQAVRMFAEYLASHSRRD   82 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT----SCHHHHHHHHHHHHHHCSTTHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhccc----CChhHHHHHHHHHHHcCCCcHH
Confidence            345667999999999988765543    34456788999999999999877542    3567778888889999999999


Q ss_pred             HHHHHHHHHHHcCC-CCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhc
Q 006997          350 KGKEIEEYIVLNGL-ESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVE  428 (622)
Q Consensus       350 ~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  428 (622)
                      .|.+.++.+...+. |.++..+..+..++...|++++|.+.+++  ..+...+..++..+.+.|++++|.+.|+++.+  
T Consensus        83 ~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~--  158 (291)
T 3mkr_A           83 AIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQD--  158 (291)
T ss_dssp             HHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--
Confidence            99999999988764 55677788888999999999999999999  56778899999999999999999999999998  


Q ss_pred             CCCCCHHHH---HHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHH
Q 006997          429 GLKPDAVVY---TSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQ  503 (622)
Q Consensus       429 ~~~p~~~~~---~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~  503 (622)
                       ..|+....   ..++..+...|++++|..+|+++.+.  .+.++..++.+..++.+.|++++|...++++.  .+.++.
T Consensus       159 -~~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~  235 (291)
T 3mkr_A          159 -QDEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPE  235 (291)
T ss_dssp             -HCTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             -hCcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHH
Confidence             45764321   22334455679999999999999976  35578889999999999999999999999976  445678


Q ss_pred             hHHHHHHHHHhcCCHHH-HHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHH
Q 006997          504 VWAPLLSACMKHHNVEL-GEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATAR  559 (622)
Q Consensus       504 ~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  559 (622)
                      ++..++..+...|+.++ +.++++++++++|+++.+.    +...+.+.++++..-|
T Consensus       236 ~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~----d~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          236 TLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIK----EYRAKENDFDRLVLQY  288 (291)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHH----HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHH----HHHHHHHHHHHHHHHc
Confidence            89999999999999865 6789999999999887654    4566677777776554

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.81  E-value=3e-17  Score=166.52  Aligned_cols=382  Identities=11%  Similarity=-0.004  Sum_probs=228.8

Q ss_pred             ChhhHhHHHHHHHhcCChHHHHHHHhhcCC------------CCcchHHHHHHHHHcCCChhHHHHHHHHHHHC-----C
Q 006997          164 EIPLANSVMSMYAKFGKVNEARSIFDEIGE------------TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRM-----S  226 (622)
Q Consensus       164 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~  226 (622)
                      ....|+.|...+...|+.++|++.|++..+            ....+|+.+..+|...|++++|...+++....     +
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            456788899999999999999998876521            23467888888888889999888888876542     1


Q ss_pred             -CCC-CHhHHHHHHHHHhc--cCChHHHHHHHHHHHHhCCCCCchhHHHHHHHH---HhcCCHHHHHHHHhhcC---CCC
Q 006997          227 -VTP-DLVVFLNLILGCAQ--VGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMY---TKCGDLELARRVFDAVL---EKS  296 (622)
Q Consensus       227 -~~p-~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~a~~~~~~~~---~~~  296 (622)
                       ..+ ...++.....++..  .+++++|...|++.++.. |.++..+..+..++   ...++.++|++.+++..   ..+
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~  208 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDN  208 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSC
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcc
Confidence             111 23445544444433  346778888888777764 34444454444442   34455566666665542   234


Q ss_pred             HHHHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHH
Q 006997          297 VFLWTSMIGGYAQ----LGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTS  372 (622)
Q Consensus       297 ~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  372 (622)
                      ..++..+...+..    .++.++|.+.+++..... +.+...+..+...+...|+++.|...++.+.+.. |.+..++..
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~  286 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQ  286 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHH
Confidence            4555555444433    345667777777766643 3345566667777777777777777777776654 345555555


Q ss_pred             HHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchH
Q 006997          373 LIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVD  451 (622)
Q Consensus       373 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~  451 (622)
                      +..+|...+....+     ...       ..........+..++|...+++..+   ..|+ ..++..+...+...|+++
T Consensus       287 lg~~y~~~~~~~~~-----~~~-------~~~~~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~lg~~~~~~~~~~  351 (472)
T 4g1t_A          287 IGCCYRAKVFQVMN-----LRE-------NGMYGKRKLLELIGHAVAHLKKADE---ANDNLFRVCSILASLHALADQYE  351 (472)
T ss_dssp             HHHHHHHHHHHHHH-----C-------------CHHHHHHHHHHHHHHHHHHHH---HCTTTCCCHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHhhh-----HHH-------HHHHHHHHHHhhHHHHHHHHHHHhh---cCCchhhhhhhHHHHHHHhccHH
Confidence            55555432111111     000       0000011122346788888988887   4554 467888899999999999


Q ss_pred             HHHHHHHHhHHhcCCCCChh----HHHHHHHH-HHhcCChHHHHHHHHhCC-CCCcHHhHHHHHHHHHhcCCHHHHHHHH
Q 006997          452 DGLSFFKSMQSNFGIEPSIE----HYLCLVDL-LGRAGRFDLALKTIHEMP-VEVQAQVWAPLLSACMKHHNVELGEYAA  525 (622)
Q Consensus       452 ~a~~~~~~~~~~~~~~p~~~----~~~~l~~~-~~~~g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~  525 (622)
                      +|+..|+++.+.   .|+..    .+..+... +...|++++|+..+++.. ..|+...+..         ....+..++
T Consensus       352 ~A~~~~~kaL~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~---------~~~~l~~~~  419 (472)
T 4g1t_A          352 EAEYYFQKEFSK---ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEK---------MKDKLQKIA  419 (472)
T ss_dssp             HHHHHHHHHHHS---CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHH---------HHHHHHHHH
T ss_pred             HHHHHHHHHHhc---CCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHH---------HHHHHHHHH
Confidence            999999998854   44432    23333332 356789999999998876 5665433322         234566788


Q ss_pred             HHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCccCCCceE
Q 006997          526 KNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQ  575 (622)
Q Consensus       526 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  575 (622)
                      ++.++.+|+++.++..+|.+|...|++++|++.|++.++.+.....+.+|
T Consensus       420 ~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          420 KMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             HHHHHHCC-CTTHHHHHHHHHHHHHHCC----------------------
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhc
Confidence            89999999999999999999999999999999999999876544444444

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.80  E-value=1.2e-18  Score=170.46  Aligned_cols=260  Identities=10%  Similarity=-0.057  Sum_probs=200.0

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 006997          297 VFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHM  376 (622)
Q Consensus       297 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  376 (622)
                      ...|..+...+.+.|++++|+..|+++.+.. +.+..++..+...+...|++++|...++.+.+.. +.+..++..+..+
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVS  142 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            3456667777777777777777777777653 3356667777777777777777777777777665 4456677777777


Q ss_pred             HHhcCChHHHHHHhccCCCCC-------------hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC---CHHHHHHH
Q 006997          377 FSKCGRINKAKEVFERVPDKD-------------LAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP---DAVVYTSI  440 (622)
Q Consensus       377 ~~~~~~~~~A~~~~~~~~~~~-------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p---~~~~~~~l  440 (622)
                      |...|++++|...|+++.+.+             ...+..+...+...|++++|+..++++.+   ..|   +..++..+
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~~~l  219 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAH---QNGDMIDPDLQTGL  219 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHH---HSCSSCCHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHH---hCcCccCHHHHHHH
Confidence            777777777777777665311             12334457788899999999999999998   344   57889999


Q ss_pred             HHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCH
Q 006997          441 LSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNV  518 (622)
Q Consensus       441 l~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~  518 (622)
                      ...+...|++++|+..|+++.+.  .+.+...+..+..+|...|++++|+..++++.  .+.+..+|..++.++...|++
T Consensus       220 ~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~  297 (365)
T 4eqf_A          220 GVLFHLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAY  297 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCH
Confidence            99999999999999999999865  13468889999999999999999999999886  344588899999999999999


Q ss_pred             HHHHHHHHHHHccCCC------------CCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 006997          519 ELGEYAAKNLLTLNPG------------STGNYILMANLFTSAGMWKEAATARGLMD  563 (622)
Q Consensus       519 ~~a~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (622)
                      ++|...+++++++.|+            +..++..++.++...|+.+.|..+.++-.
T Consensus       298 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~l  354 (365)
T 4eqf_A          298 REAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLGDL  354 (365)
T ss_dssp             HHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHhhH
Confidence            9999999999998876            36789999999999999999998887543

>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=99.80  E-value=2.9e-17  Score=156.43  Aligned_cols=294  Identities=13%  Similarity=0.023  Sum_probs=135.7

Q ss_pred             hHHHHHHHhcCChHHHHHHHhhcCC--CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCC
Q 006997          169 NSVMSMYAKFGKVNEARSIFDEIGE--TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGN  246 (622)
Q Consensus       169 ~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  246 (622)
                      ..++..+...|++++|.++++...+  ++..+.+.++.+|.+.|+++++.++++       .|+..+|..+...|...|.
T Consensus        65 ~~V~~~ae~~g~~EeAi~yl~~ark~~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~  137 (449)
T 1b89_A           65 MEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKM  137 (449)
T ss_dssp             --------------------------------------------CHHHHTTTTT-------CC----------------C
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCC
Confidence            3344444444444554444443332  223344444455555555554444442       2444455555555555555


Q ss_pred             hHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 006997          247 LFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKT  326 (622)
Q Consensus       247 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  326 (622)
                      ++.|..+|..+         ..|..++.++.+.|++++|.+.+.++  .++.+|..++.+|...|+++.|......+   
T Consensus       138 yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AVea~~KA--~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L---  203 (449)
T 1b89_A          138 YDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLAQMCGLHI---  203 (449)
T ss_dssp             TTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHHHTTCHHHHHHTTTTT---
T ss_pred             HHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHHHHHHHc--CCchhHHHHHHHHHHcCcHHHHHHHHHHH---
Confidence            55555555543         34666777777777777777777766  36677777777777777777775544432   


Q ss_pred             CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc--CChHHHHHHhccCCC--------C
Q 006997          327 SVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKC--GRINKAKEVFERVPD--------K  396 (622)
Q Consensus       327 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~A~~~~~~~~~--------~  396 (622)
                        ...+.....++..|.+.|.++++..+++...... +-...+|+-|..+|++-  +++.+..+.|..-..        .
T Consensus       204 --~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~ini~k~~~~~~  280 (449)
T 1b89_A          204 --VVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAE  280 (449)
T ss_dssp             --TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTTSCHHHHHHHHH
T ss_pred             --HhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence              2233334456677777777777777777776554 45566677776666653  345555555554332        2


Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHH
Q 006997          397 DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCL  476 (622)
Q Consensus       397 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  476 (622)
                      +...|..+...|...++++.|...   |.+   .+|+...-..+.....+..+.+--.+...-....   .|  ...+.|
T Consensus       281 ~~~~w~e~~~ly~~~~e~d~A~~t---m~~---h~~~a~~~~~f~~~~~kv~n~elyYkai~fyl~~---~p--~~l~~l  349 (449)
T 1b89_A          281 QAHLWAELVFLYDKYEEYDNAIIT---MMN---HPTDAWKEGQFKDIITKVANVELYYRAIQFYLEF---KP--LLLNDL  349 (449)
T ss_dssp             TTTCHHHHHHHHHHTTCHHHHHHH---HHH---STTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH---CG--GGHHHH
T ss_pred             HHHHHHHHHHHHHhhchHHHHHHH---HHh---CChhhhhhHHHHHHHhchhHHHHHHHHHHHHHhc---CH--HHHHHH
Confidence            456788899999999999988763   444   3344333333334444444443322222222211   23  234555


Q ss_pred             HHHHHhcCChHHHHHHHHhCC
Q 006997          477 VDLLGRAGRFDLALKTIHEMP  497 (622)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~~  497 (622)
                      ..++...=+...+.++|++..
T Consensus       350 l~~l~~~ld~~r~v~~~~~~~  370 (449)
T 1b89_A          350 LMVLSPRLDHTRAVNYFSKVK  370 (449)
T ss_dssp             HHHHGGGCCHHHHHHHHHHTT
T ss_pred             HHHHHhccCcHHHHHHHHHcC
Confidence            555555555555555555543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.79  E-value=1.2e-15  Score=156.78  Aligned_cols=404  Identities=11%  Similarity=0.084  Sum_probs=224.4

Q ss_pred             CcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHHHHHH
Q 006997           29 NSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAH  108 (622)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~~  108 (622)
                      +...|..++.. ...|+++.|..+++.+++.. +.+...|..++..+.+.|++++|..+|++.....|++..|...+...
T Consensus        12 ~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~~lw~~~~~~~   89 (530)
T 2ooe_A           12 DLDAWSILIRE-AQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHIDLWKCYLSYV   89 (530)
T ss_dssp             CHHHHHHHHHH-HHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHH-HHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCChHHHHHHHHHH
Confidence            45567777774 66788888999998888764 55677888888888888999999999988877666777777776533


Q ss_pred             -HhCCCchHHHH----HHHHHHHc-CCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHh-----
Q 006997          109 -SRACLNDEAIL----VLKEMWVL-GLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAK-----  177 (622)
Q Consensus       109 -~~~~~~~~A~~----~~~~m~~~-~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----  177 (622)
                       ...|+.++|.+    +|+..... |..|+                               +...|...+....+     
T Consensus        90 ~~~~~~~~~a~~~~~~~~~~al~~~g~~~~-------------------------------~~~~w~~~~~~~~~~~~~~  138 (530)
T 2ooe_A           90 RETKGKLPSYKEKMAQAYDFALDKIGMEIM-------------------------------SYQIWVDYINFLKGVEAVG  138 (530)
T ss_dssp             HHHTTTSTTHHHHHHHHHHHHHHHTTTSTT-------------------------------CHHHHHHHHHHHHHSCCCS
T ss_pred             HHHccchhhHHHHHHHHHHHHHHHCCCCcc-------------------------------cHHHHHHHHHHHhcCCCcc
Confidence             35677777665    55544432 33332                               34444444444433     


Q ss_pred             ----cCChHHHHHHHhhcCC-CCc---chHHHHHHHH-------------HcCCChhHHHHHHHHHH------HCC---C
Q 006997          178 ----FGKVNEARSIFDEIGE-TSI---VSWTTIIGGY-------------VNVGNVNEAFGLCNQMR------RMS---V  227 (622)
Q Consensus       178 ----~g~~~~A~~~~~~~~~-~~~---~~~~~li~~~-------------~~~~~~~~a~~~~~~m~------~~~---~  227 (622)
                          .|+++.|..+|++... |..   ..|.......             .+.+++..|..++.++.      +..   +
T Consensus       139 ~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~  218 (530)
T 2ooe_A          139 SYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSV  218 (530)
T ss_dssp             STTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCC
T ss_pred             cHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccC
Confidence                6778888888887765 221   1222211110             01223344444433311      110   1


Q ss_pred             CCCHh-HHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhc----CCH----HHHHHHHhhcCC---C
Q 006997          228 TPDLV-VFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKC----GDL----ELARRVFDAVLE---K  295 (622)
Q Consensus       228 ~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~----~~a~~~~~~~~~---~  295 (622)
                      +|+.. .+..             .               ...|...+......    ++.    ..+..+|++...   .
T Consensus       219 ~p~~~~~~~~-------------~---------------~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~p~  270 (530)
T 2ooe_A          219 PPQNTPQEAQ-------------Q---------------VDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVLGH  270 (530)
T ss_dssp             CCC--CCHHH-------------H---------------HHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHHTT
T ss_pred             CCCCChhHHH-------------H---------------HHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhCCC
Confidence            22210 0000             0               11222222211111    111    234444444321   2


Q ss_pred             CHHHHHHHHHHHHh-------cCChH-------HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHc
Q 006997          296 SVFLWTSMIGGYAQ-------LGYPS-------EAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLN  361 (622)
Q Consensus       296 ~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  361 (622)
                      ++..|..++..+..       .|+++       +|..+|++..+.-.+-+...+..++..+...|+++.|..+++.+.+.
T Consensus       271 ~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~  350 (530)
T 2ooe_A          271 HPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI  350 (530)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc
Confidence            44555555555443       45554       56666666554211223445555555555666666666666666553


Q ss_pred             CCCCch-hHHHHHHHHHHhcCChHHHHHHhccCCCCC---hhHHHHHHH-HHHHcCCHHHHHHHHHHhHHhcCCCCC-HH
Q 006997          362 GLESNR-QVQTSLIHMFSKCGRINKAKEVFERVPDKD---LAVWSAMIN-GYAIHGMGDQALNLFYKMQHVEGLKPD-AV  435 (622)
Q Consensus       362 ~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~  435 (622)
                      . +.+. .+|..++..+.+.|++++|.++|++..+..   ...|...+. .+...|+.++|..+|++..+   ..|+ ..
T Consensus       351 ~-p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~---~~p~~~~  426 (530)
T 2ooe_A          351 E-DIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLK---KYGDIPE  426 (530)
T ss_dssp             S-SSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCTTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHH---HHTTCHH
T ss_pred             c-ccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHH---HCCCCHH
Confidence            2 1122 355556666666666666666666554321   112221111 12357788888888888776   3453 56


Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC--hhHHHHHHHHHHhcCChHHHHHHHHhCC
Q 006997          436 VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS--IEHYLCLVDLLGRAGRFDLALKTIHEMP  497 (622)
Q Consensus       436 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~  497 (622)
                      .+..++..+.+.|+.++|..+|+++.......|+  ...|...+......|+.+.+.++.+++.
T Consensus       427 ~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~  490 (530)
T 2ooe_A          427 YVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  490 (530)
T ss_dssp             HHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            7777777788888888888888887754222332  3467777777777888888888877764

>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=99.78  E-value=5.7e-18  Score=165.77  Aligned_cols=276  Identities=12%  Similarity=0.056  Sum_probs=205.7

Q ss_pred             CCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHH-HHHHHHhCCC-CC--CHHHHHHHHHHHhccCChHHHHHHH
Q 006997          280 GDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVN-LFKRLLKTSV-RP--NEATLATTLSACAELGSLSKGKEIE  355 (622)
Q Consensus       280 ~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~-~~~~m~~~~~-~~--~~~~~~~ll~~~~~~~~~~~a~~~~  355 (622)
                      +.++.+...|+.+...+..       .+...|++++|+. .|++...... .|  +...+..+...+...|++++|...+
T Consensus        15 ~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~   87 (368)
T 1fch_A           15 DFWDKLQAELEEMAKRDAE-------AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLF   87 (368)
T ss_dssp             --------------------------------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHcCCch-------hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHH
Confidence            3444444555554433322       3445688999998 8887654321 11  3456778888999999999999999


Q ss_pred             HHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC
Q 006997          356 EYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP  432 (622)
Q Consensus       356 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p  432 (622)
                      +.+.+.. +.+..++..+..+|.+.|++++|.+.|+++.+   .+..++..+...|...|++++|.+.++++.+   ..|
T Consensus        88 ~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~  163 (368)
T 1fch_A           88 EAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLR---YTP  163 (368)
T ss_dssp             HHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---TST
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCc
Confidence            9999876 56788899999999999999999999997763   4677899999999999999999999999998   555


Q ss_pred             CHH-HHHH---------------HHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC
Q 006997          433 DAV-VYTS---------------ILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEM  496 (622)
Q Consensus       433 ~~~-~~~~---------------ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  496 (622)
                      +.. .+..               .+..+...|++++|...++++.....-.++..++..+...|.+.|++++|+..++++
T Consensus       164 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  243 (368)
T 1fch_A          164 AYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAA  243 (368)
T ss_dssp             TTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            532 2211               233344889999999999999865221124788999999999999999999999998


Q ss_pred             C--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          497 P--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       497 ~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      .  .+.+...|..++..+...|++++|+..+++++++.|+++.++..++.+|.+.|++++|.+.++++.+..
T Consensus       244 l~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  315 (368)
T 1fch_A          244 LSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQ  315 (368)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            6  445578899999999999999999999999999999999999999999999999999999999998743

>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=99.78  E-value=1.8e-17  Score=159.22  Aligned_cols=273  Identities=12%  Similarity=-0.005  Sum_probs=191.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhcC---CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh
Q 006997          267 PLDNLLVSMYTKCGDLELARRVFDAVL---EKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACA  343 (622)
Q Consensus       267 ~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~  343 (622)
                      ..+..+...+...|++++|..+|+++.   ..+..++..+...+...|++++|...|+++.+.. +.+..++..+...+.
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~  100 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHT  100 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHH
Confidence            344555566666666666666666553   2245566666666666666666666666666542 224455555666666


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHH-HH-HHHHcCCHHHHHHHH
Q 006997          344 ELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAM-IN-GYAIHGMGDQALNLF  421 (622)
Q Consensus       344 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l-~~-~~~~~~~~~~a~~~~  421 (622)
                      ..|++++|...++.+.+.. +.+...+..+....                  ++......+ .. .+...|++++|.+.+
T Consensus       101 ~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~A~~~~  161 (327)
T 3cv0_A          101 NEHNANAALASLRAWLLSQ-PQYEQLGSVNLQAD------------------VDIDDLNVQSEDFFFAAPNEYRECRTLL  161 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHTS-TTTTTC--------------------------------------CCTTSHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHH------------------HHHHHHHHHHHhHHHHHcccHHHHHHHH
Confidence            6666666666666665543 11122211111000                  000011111 22 366778899999999


Q ss_pred             HHhHHhcCCCC-CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--C
Q 006997          422 YKMQHVEGLKP-DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--V  498 (622)
Q Consensus       422 ~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~  498 (622)
                      +++.+   ..| +...+..+...+...|++++|...++++...  .+.+...+..+...+...|++++|.+.++++.  .
T Consensus       162 ~~~~~---~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~  236 (327)
T 3cv0_A          162 HAALE---MNPNDAQLHASLGVLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQEALDAYNRALDIN  236 (327)
T ss_dssp             HHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHh---hCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            99987   444 5678889999999999999999999999865  13357888999999999999999999999876  3


Q ss_pred             CCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC------------CCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          499 EVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG------------STGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       499 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      +.+...|..++..+...|++++|...++++++..|+            ++.++..++.++.+.|++++|..++++..+
T Consensus       237 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          237 PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVE  314 (327)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSH
T ss_pred             CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            455788999999999999999999999999999998            688999999999999999999999986654

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.78  E-value=3.1e-17  Score=153.53  Aligned_cols=248  Identities=13%  Similarity=0.053  Sum_probs=203.8

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 006997          304 IGGYAQLGYPSEAVNLFKRLLKTSVRPNE--ATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCG  381 (622)
Q Consensus       304 ~~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  381 (622)
                      ++-....|++..|+..+++....  .|+.  .....+.++|...|+++.|...++.    .-+|+..++..+...+...+
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCC
Confidence            34566789999999998876543  3443  3446678899999999999876644    23567788889999999999


Q ss_pred             ChHHHHHHhccCC----CC-ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHH
Q 006997          382 RINKAKEVFERVP----DK-DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSF  456 (622)
Q Consensus       382 ~~~~A~~~~~~~~----~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~  456 (622)
                      +.++|.+.++++.    .| +...+..+...+...|++++|++.+++       +.+...+..++..+.+.|++++|.+.
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~-------~~~~~~~~~l~~~~~~~g~~~~A~~~  152 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ-------GDSLECMAMTVQILLKLDRLDLARKE  152 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT-------CCSHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC-------CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999999864    24 455677778899999999999999876       35677889999999999999999999


Q ss_pred             HHHhHHhcCCCCChhHH---HHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHcc
Q 006997          457 FKSMQSNFGIEPSIEHY---LCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTL  531 (622)
Q Consensus       457 ~~~~~~~~~~~p~~~~~---~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  531 (622)
                      ++++.+.   .|+....   ..++..+...|++++|..+|+++.  .+.+...|+.++.++.+.|++++|+..+++++++
T Consensus       153 l~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~  229 (291)
T 3mkr_A          153 LKKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK  229 (291)
T ss_dssp             HHHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999865   4654321   234455556699999999999987  5667889999999999999999999999999999


Q ss_pred             CCCCCchHHHHHHHHHhcCChHH-HHHHHHHhhhCCC
Q 006997          532 NPGSTGNYILMANLFTSAGMWKE-AATARGLMDDRRL  567 (622)
Q Consensus       532 ~p~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~~  567 (622)
                      +|+++.++..++.++...|+.++ +.++++++.+.++
T Consensus       230 ~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P  266 (291)
T 3mkr_A          230 DSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHR  266 (291)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT
T ss_pred             CCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCC
Confidence            99999999999999999999987 5789998887443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.77  E-value=1.8e-17  Score=162.06  Aligned_cols=232  Identities=13%  Similarity=0.058  Sum_probs=197.5

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHH
Q 006997          331 NEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMING  407 (622)
Q Consensus       331 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~  407 (622)
                      +...+..+...+...|++++|..+++.+.+.. +.+..++..+..+|.+.|++++|...|+++.+   .+..+|..+...
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVS  142 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            34557888889999999999999999999876 56788999999999999999999999998763   457789999999


Q ss_pred             HHHcCCHHHHHHHHHHhHHhcCCCCCHH-----------HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHH
Q 006997          408 YAIHGMGDQALNLFYKMQHVEGLKPDAV-----------VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCL  476 (622)
Q Consensus       408 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~-----------~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l  476 (622)
                      |...|++++|+..|+++.+   ..|+..           .+..+...+...|++++|+..++++.....-.++...+..+
T Consensus       143 ~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l  219 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIK---QNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGL  219 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHH---HCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHH---hCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHH
Confidence            9999999999999999988   455422           22345778999999999999999999762222268899999


Q ss_pred             HHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHH
Q 006997          477 VDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKE  554 (622)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  554 (622)
                      ...|.+.|++++|++.++++.  .+.+..+|..++.++...|++++|+..+++++++.|+++.++..++.+|.+.|++++
T Consensus       220 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          220 GVLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHH
Confidence            999999999999999999986  455688999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhCC
Q 006997          555 AATARGLMDDRR  566 (622)
Q Consensus       555 A~~~~~~~~~~~  566 (622)
                      |.+.|+++.+..
T Consensus       300 A~~~~~~al~~~  311 (365)
T 4eqf_A          300 AVSNFLTALSLQ  311 (365)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC
Confidence            999999998743

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.76  E-value=3.9e-16  Score=158.38  Aligned_cols=390  Identities=11%  Similarity=-0.036  Sum_probs=238.1

Q ss_pred             CCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHH
Q 006997           95 LRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSM  174 (622)
Q Consensus        95 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  174 (622)
                      ......||.|...+...|++++|++.|++..+.                        ..........+....+|+.+..+
T Consensus        48 ~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~------------------------~~~~~~~~~~~~~~~~~~nla~~  103 (472)
T 4g1t_A           48 EFKATMCNLLAYLKHLKGQNEAALECLRKAEEL------------------------IQQEHADQAEIRSLVTWGNYAWV  103 (472)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------------HHHHSGGGCTTTTHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH------------------------HHhcCccccchHHHHHHHHHHHH
Confidence            344677999999999999999999999887541                        00000001122245677889999


Q ss_pred             HHhcCChHHHHHHHhhcCC----------C-CcchHHHHHHHHHc--CCChhHHHHHHHHHHHCCCCCC-HhHHHHHHHH
Q 006997          175 YAKFGKVNEARSIFDEIGE----------T-SIVSWTTIIGGYVN--VGNVNEAFGLCNQMRRMSVTPD-LVVFLNLILG  240 (622)
Q Consensus       175 ~~~~g~~~~A~~~~~~~~~----------~-~~~~~~~li~~~~~--~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~  240 (622)
                      |...|++++|...+++..+          + ...+++.+..++.+  .+++++|++.|++..+.  .|+ ...+..+...
T Consensus       104 y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~  181 (472)
T 4g1t_A          104 YYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIA  181 (472)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHH
T ss_pred             HHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            9999999999998876532          1 22456655555554  45799999999998875  454 3344444433


Q ss_pred             ---HhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHh----cCCHHHHHHHHhhcC---CCCHHHHHHHHHHHHhc
Q 006997          241 ---CAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTK----CGDLELARRVFDAVL---EKSVFLWTSMIGGYAQL  310 (622)
Q Consensus       241 ---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~  310 (622)
                         +...++.++|.+.+++.++.. +.+..++..+...+..    .++.++|.+.+++..   ..+..++..+...|...
T Consensus       182 ~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~  260 (472)
T 4g1t_A          182 SYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRK  260 (472)
T ss_dssp             HHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHT
T ss_pred             HHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHc
Confidence               445677888999999888875 5566666666655554    457788999988763   34678899999999999


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHh
Q 006997          311 GYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVF  390 (622)
Q Consensus       311 ~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  390 (622)
                      |++++|+..|++..+.. +-+..++..+...|...+....         ... .      ..........+.++.|...|
T Consensus       261 ~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~~~---------~~~-~------~~~~~~~~~~~~~~~A~~~~  323 (472)
T 4g1t_A          261 DEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQVM---------NLR-E------NGMYGKRKLLELIGHAVAHL  323 (472)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHH---------HC-------------CHHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHhh---------hHH-H------HHHHHHHHHHhhHHHHHHHH
Confidence            99999999999998863 2244555555544432211110         000 0      00001111122356666666


Q ss_pred             ccCC---CCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHH----HHHHHHH-HHhccCchHHHHHHHHHhHH
Q 006997          391 ERVP---DKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAV----VYTSILS-ACSHSGMVDDGLSFFKSMQS  462 (622)
Q Consensus       391 ~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~----~~~~ll~-~~~~~g~~~~a~~~~~~~~~  462 (622)
                      ++..   ..+..++..+...|...|++++|+..|++..+   ..|+..    .+..+.. .....|+.++|+..|++..+
T Consensus       324 ~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~  400 (472)
T 4g1t_A          324 KKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFS---KELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK  400 (472)
T ss_dssp             HHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHH---SCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH
T ss_pred             HHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHh---cCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            6554   23556788889999999999999999999988   445432    2233332 34578999999999999884


Q ss_pred             hcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHH
Q 006997          463 NFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYI  540 (622)
Q Consensus       463 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  540 (622)
                         +.|+........         ..+.+++++..  .+.+..+|..++.++...|++++|++.|++++++.|.+|.+..
T Consensus       401 ---i~~~~~~~~~~~---------~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~  468 (472)
T 4g1t_A          401 ---INQKSREKEKMK---------DKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASS  468 (472)
T ss_dssp             ---SCCCCHHHHHHH---------HHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC---------------------
T ss_pred             ---cCcccHHHHHHH---------HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhh
Confidence               466643332222         23334444433  3556788999999999999999999999999999998888776


Q ss_pred             HHH
Q 006997          541 LMA  543 (622)
Q Consensus       541 ~l~  543 (622)
                      -+|
T Consensus       469 ~~G  471 (472)
T 4g1t_A          469 WNG  471 (472)
T ss_dssp             ---
T ss_pred             cCC
Confidence            655

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.72  E-value=1.8e-16  Score=141.72  Aligned_cols=193  Identities=18%  Similarity=0.114  Sum_probs=155.3

Q ss_pred             CCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHH
Q 006997          364 ESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTS  439 (622)
Q Consensus       364 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~  439 (622)
                      |+++..+..+...+.+.|++++|...|++..+   .+...+..+...+...|++++|+..|++..+   ..|+ ...+..
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~   78 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVA---RTPRYLGGYMV   78 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCcHHHHHH
Confidence            55667777888888888888888888887654   3566788888899999999999999999988   6675 567888


Q ss_pred             HHHHHhcc-----------CchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhH
Q 006997          440 ILSACSHS-----------GMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVW  505 (622)
Q Consensus       440 ll~~~~~~-----------g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~  505 (622)
                      +..++...           |++++|+..+++..+.   .| +...+..+..+|...|++++|+..++++.  . .++..+
T Consensus        79 lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~  154 (217)
T 2pl2_A           79 LSEAYVALYRQAEDRERGKGYLEQALSVLKDAERV---NPRYAPLHLQRGLVYALLGERDKAEASLKQALALE-DTPEIR  154 (217)
T ss_dssp             HHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCHHHH
T ss_pred             HHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc-cchHHH
Confidence            88889888           9999999999999864   56 57888899999999999999999999886  4 778889


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 006997          506 APLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMD  563 (622)
Q Consensus       506 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (622)
                      ..++.++...|++++|+..++++++++|+++.++..++.++.+.|++++|.+.+++..
T Consensus       155 ~~la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          155 SALAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999999999998654

>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=99.71  E-value=3.3e-15  Score=143.37  Aligned_cols=227  Identities=11%  Similarity=0.052  Sum_probs=117.9

Q ss_pred             chHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHH
Q 006997          197 VSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMY  276 (622)
Q Consensus       197 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  276 (622)
                      ..|..+...+...|++++|..+|+++.+.. +.+...+..+...+...|++++|...++.+.+.. +.            
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~------------   87 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PK------------   87 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT------------
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cC------------
Confidence            345555666666666666666666665532 2234444444555555555555555555544432 22            


Q ss_pred             HhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH--------------HH-H
Q 006997          277 TKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATT--------------LS-A  341 (622)
Q Consensus       277 ~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l--------------l~-~  341 (622)
                                         +..++..+...+...|++++|...++++.+.... +...+..+              .. .
T Consensus        88 -------------------~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (327)
T 3cv0_A           88 -------------------DIAVHAALAVSHTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFF  147 (327)
T ss_dssp             -------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TTTC--------------------CC
T ss_pred             -------------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHH
Confidence                               3445555666666666666666666666654211 11111111              11 2


Q ss_pred             HhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHH
Q 006997          342 CAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQAL  418 (622)
Q Consensus       342 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~  418 (622)
                      +...|++++|...++.+.+.. +.+..++..+...|...|++++|.+.++++.+   .+...|..+...+...|++++|.
T Consensus       148 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  226 (327)
T 3cv0_A          148 FAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEAL  226 (327)
T ss_dssp             TTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHH
Confidence            556667777777777766654 33455555555555555555555555554431   23344555555555555555555


Q ss_pred             HHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhH
Q 006997          419 NLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQ  461 (622)
Q Consensus       419 ~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~  461 (622)
                      ..++++.+   ..|+ ..++..+..++...|++++|.+.++++.
T Consensus       227 ~~~~~a~~---~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~  267 (327)
T 3cv0_A          227 DAYNRALD---INPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAI  267 (327)
T ss_dssp             HHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHH---cCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            55555554   2232 3445555555555555555555555554

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.71  E-value=6.2e-16  Score=142.83  Aligned_cols=226  Identities=13%  Similarity=0.035  Sum_probs=165.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCC--CchhHHHHHHH
Q 006997          298 FLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLE--SNRQVQTSLIH  375 (622)
Q Consensus       298 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~  375 (622)
                      ..|..+...+...|++++|+..|++..+..  .+...+..+...+...|++++|...++.+.+....  ++..       
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~-------   76 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYK-------   76 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHH-------
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchH-------
Confidence            345555666666666666666666665554  45555555555555566666665555555432100  0000       


Q ss_pred             HHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHH
Q 006997          376 MFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLS  455 (622)
Q Consensus       376 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~  455 (622)
                                          .....|..+...+...|++++|...|+++.+   ..|+.       ..+...|++++|..
T Consensus        77 --------------------~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~---~~~~~-------~~~~~~~~~~~a~~  126 (258)
T 3uq3_A           77 --------------------VISKSFARIGNAYHKLGDLKKTIEYYQKSLT---EHRTA-------DILTKLRNAEKELK  126 (258)
T ss_dssp             --------------------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCCCH-------HHHHHHHHHHHHHH
T ss_pred             --------------------HHHHHHHHHHHHHHHcccHHHHHHHHHHHHh---cCchh-------HHHHHHhHHHHHHH
Confidence                                0035666777788888888888888888887   55663       34556678888999


Q ss_pred             HHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccC
Q 006997          456 FFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLN  532 (622)
Q Consensus       456 ~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  532 (622)
                      .++++...   .| +...+..+...+...|++++|+..++++.  .+.+...|..++..+...|++++|+..++++++.+
T Consensus       127 ~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  203 (258)
T 3uq3_A          127 KAEAEAYV---NPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD  203 (258)
T ss_dssp             HHHHHHHC---CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHc---CcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            98888743   44 46677788888999999999999998876  44557788999999999999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          533 PGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       533 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      |+++..+..++.+|.+.|++++|.+.+++..+.
T Consensus       204 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          204 PNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            999999999999999999999999999988764

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.69  E-value=1.5e-15  Score=140.14  Aligned_cols=235  Identities=11%  Similarity=0.027  Sum_probs=181.2

Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHHhhcCC--CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCC--CCC----HHHHHH
Q 006997          266 DPLDNLLVSMYTKCGDLELARRVFDAVLE--KSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSV--RPN----EATLAT  337 (622)
Q Consensus       266 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~--~~~----~~~~~~  337 (622)
                      ...+..+...+...|++++|...|+++.+  .+..+|..+...+...|++++|+..+++..+...  .++    ...+..
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            45678889999999999999999987632  6788999999999999999999999999887431  112    466777


Q ss_pred             HHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHH
Q 006997          338 TLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQA  417 (622)
Q Consensus       338 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  417 (622)
                      +...+...|++++|...++.+.+..  |+.                                      ..+...|++++|
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~~--~~~--------------------------------------~~~~~~~~~~~a  124 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTEH--RTA--------------------------------------DILTKLRNAEKE  124 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--CCH--------------------------------------HHHHHHHHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcC--chh--------------------------------------HHHHHHhHHHHH
Confidence            7777788888888888887776643  221                                      234455677778


Q ss_pred             HHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhC
Q 006997          418 LNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEM  496 (622)
Q Consensus       418 ~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  496 (622)
                      ...++++..   ..|+ ...+..+...+...|++++|...++++...  .+.+...+..+...|.+.|++++|+..++++
T Consensus       125 ~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  199 (258)
T 3uq3_A          125 LKKAEAEAY---VNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKA  199 (258)
T ss_dssp             HHHHHHHHH---CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHH---cCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            888887776   5554 456777777888888888888888888754  1335777888888888888888888888887


Q ss_pred             C--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccC------CCCCchHHHHHHH
Q 006997          497 P--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLN------PGSTGNYILMANL  545 (622)
Q Consensus       497 ~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~  545 (622)
                      .  .+.+...|..++.++...|++++|...+++++++.      |++..++..+..+
T Consensus       200 l~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~~  256 (258)
T 3uq3_A          200 IEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKA  256 (258)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHT
T ss_pred             HHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHHHh
Confidence            6  34457788889999999999999999999999988      7777666666544

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.68  E-value=4.1e-15  Score=138.79  Aligned_cols=241  Identities=8%  Similarity=-0.043  Sum_probs=180.2

Q ss_pred             hcCChHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHH
Q 006997          309 QLGYPSEAVNLFKRLLKTSVRP---NEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINK  385 (622)
Q Consensus       309 ~~~~~~~a~~~~~~m~~~~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  385 (622)
                      ..|++++|+..|+++.+.....   +...+..+...+...|++++|...++.+.+.. +.+..++..+..+|...|++++
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            3466777777777777653211   34456666777777777777777777777665 4466777778888888888888


Q ss_pred             HHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHH
Q 006997          386 AKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQS  462 (622)
Q Consensus       386 A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  462 (622)
                      |...|+++.+   .+...+..+...|...|++++|...|+++.+   ..|+.......+..+...|++++|...+++...
T Consensus        96 A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  172 (275)
T 1xnf_A           96 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQ---DDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  172 (275)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            8888877653   3567888888899999999999999999988   567655555555566777999999999988876


Q ss_pred             hcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-----HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCC
Q 006997          463 NFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-----AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGST  536 (622)
Q Consensus       463 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  536 (622)
                      .  .+++...+ .++..+...++.++|.+.++++. ..|.     ...|..++..+...|++++|...++++++++|++.
T Consensus       173 ~--~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~  249 (275)
T 1xnf_A          173 K--SDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNF  249 (275)
T ss_dssp             H--SCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTC
T ss_pred             c--CCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhH
Confidence            5  23344444 47777888888999999998876 2232     56788899999999999999999999999999765


Q ss_pred             chHHHHHHHHHhcCChHHHHHHH
Q 006997          537 GNYILMANLFTSAGMWKEAATAR  559 (622)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~  559 (622)
                      ..   .+.++...|++++|++.+
T Consensus       250 ~~---~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          250 VE---HRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HH---HHHHHHHHHHHHHC----
T ss_pred             HH---HHHHHHHHHHHHhhHHHH
Confidence            44   477888999999998876

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.66  E-value=1.7e-14  Score=144.15  Aligned_cols=376  Identities=11%  Similarity=0.020  Sum_probs=204.0

Q ss_pred             HHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCCh--
Q 006997          104 IISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKV--  181 (622)
Q Consensus       104 li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--  181 (622)
                      +...+.+.|++++|+++|++..+.|                                   +...+..|..+|...|+.  
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g-----------------------------------~~~A~~~Lg~~y~~~g~~~d   53 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG-----------------------------------YSEAQVGLADIQVGTRDPAQ   53 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT-----------------------------------CCTGGGTCC-----------
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC-----------------------------------CHHHHHHHHHHHHccCCCCC
Confidence            4556667788888888888776644                                   333444555566666777  


Q ss_pred             -HHHHHHHhhcCCCCcchHHHHHHHHHcCC-----ChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChH---HHHH
Q 006997          182 -NEARSIFDEIGETSIVSWTTIIGGYVNVG-----NVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLF---LALS  252 (622)
Q Consensus       182 -~~A~~~~~~~~~~~~~~~~~li~~~~~~~-----~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~---~a~~  252 (622)
                       ++|..+|++..+.+..++..+...+...+     ++++|+..|++..+.|...   .+..+...|...+..+   .+.+
T Consensus        54 ~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g~~~---A~~~Lg~~y~~~~~~~~~~~a~~  130 (452)
T 3e4b_A           54 IKQAEATYRAAADTSPRAQARLGRLLAAKPGATEAEHHEAESLLKKAFANGEGN---TLIPLAMLYLQYPHSFPNVNAQQ  130 (452)
T ss_dssp             -----------------CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTTCSS---CHHHHHHHHHHCGGGCTTCCHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCCCHH---HHHHHHHHHHhCCCCCCCHHHHH
Confidence             78888888777666667777777555554     6678888888877765322   4444555554443322   2333


Q ss_pred             HHHHHHHhCCCCCchhHHHHHHHHHhcC----CHHHHHHHHhhcCCCCHHHHHHHHHHHHhcC---ChHHHHHHHHHHHh
Q 006997          253 MHSLLLKSGYNNEDPLDNLLVSMYTKCG----DLELARRVFDAVLEKSVFLWTSMIGGYAQLG---YPSEAVNLFKRLLK  325 (622)
Q Consensus       253 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~m~~  325 (622)
                      .+......|   +......|...|...+    +.+.+..+++.....++.++..|...|...|   +.++|+..|++..+
T Consensus       131 ~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~  207 (452)
T 3e4b_A          131 QISQWQAAG---YPEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVS  207 (452)
T ss_dssp             HHHHHHHHT---CTTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHH
Confidence            333333333   2334444555555555    3344444455555555555555555555555   55556666555555


Q ss_pred             CCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHH
Q 006997          326 TSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMI  405 (622)
Q Consensus       326 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~  405 (622)
                      .| .++...+..+...|....                               ...+++++|.+.|++....++..+..+.
T Consensus       208 ~g-~~~a~~~~~Lg~~y~~g~-------------------------------~~~~d~~~A~~~~~~aa~g~~~a~~~Lg  255 (452)
T 3e4b_A          208 RG-TVTAQRVDSVARVLGDAT-------------------------------LGTPDEKTAQALLEKIAPGYPASWVSLA  255 (452)
T ss_dssp             TT-CSCHHHHHHHHHHHTCGG-------------------------------GSSCCHHHHHHHHHHHGGGSTHHHHHHH
T ss_pred             CC-CHHHHHHHHHHHHHhCCC-------------------------------CCCCCHHHHHHHHHHHcCCCHHHHHHHH
Confidence            54 223333233333332220                               0003444555555444422333444444


Q ss_pred             HH-H--HHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccC-----chHHHHHHHHHhHHhcCCCCChhHHHHHH
Q 006997          406 NG-Y--AIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSG-----MVDDGLSFFKSMQSNFGIEPSIEHYLCLV  477 (622)
Q Consensus       406 ~~-~--~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g-----~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  477 (622)
                      .. +  ...+++++|++.|++..+ .|   +...+..+...|. .|     ++++|...|++..     .-++.....|.
T Consensus       256 ~~~~~~~~~~d~~~A~~~~~~Aa~-~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg  325 (452)
T 3e4b_A          256 QLLYDFPELGDVEQMMKYLDNGRA-AD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-----GREVAADYYLG  325 (452)
T ss_dssp             HHHHHSGGGCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHH
T ss_pred             HHHHhCCCCCCHHHHHHHHHHHHH-CC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHH
Confidence            44 2  346788888888888776 44   4556666666666 44     8888888888765     33566677777


Q ss_pred             HHHHh----cCChHHHHHHHHhCCCCCcHHhHHHHHHHHHh----cCCHHHHHHHHHHHHccCCCCCchHHHHHHHH--H
Q 006997          478 DLLGR----AGRFDLALKTIHEMPVEVQAQVWAPLLSACMK----HHNVELGEYAAKNLLTLNPGSTGNYILMANLF--T  547 (622)
Q Consensus       478 ~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~--~  547 (622)
                      ..|..    ..++++|..+|++.....+......|...|..    ..|.++|...++++.+..+.  .....+..+.  .
T Consensus       326 ~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~--~a~~~l~~l~~~~  403 (452)
T 3e4b_A          326 QIYRRGYLGKVYPQKALDHLLTAARNGQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTP--EANDLATQLEAPL  403 (452)
T ss_dssp             HHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCH--HHHHHHHHHHTTC
T ss_pred             HHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCH--HHHHHHHHHHHhC
Confidence            77766    34888899888887645556667777777764    46899999999999887653  3444444443  3


Q ss_pred             hcCChHHHHHHHHHhhh
Q 006997          548 SAGMWKEAATARGLMDD  564 (622)
Q Consensus       548 ~~g~~~~A~~~~~~~~~  564 (622)
                      ..++..+|..+.++-.+
T Consensus       404 ~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          404 TPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             CHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHH
Confidence            34567777777776554

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.65  E-value=1.1e-14  Score=135.71  Aligned_cols=241  Identities=12%  Similarity=0.011  Sum_probs=135.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCc--hhHHHHHHHHHHhc
Q 006997          303 MIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESN--RQVQTSLIHMFSKC  380 (622)
Q Consensus       303 l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~  380 (622)
                      ....+...|++++|+..|++..+... .+...+..+...+...|++++|...++.+.+....++  ...+..+...|...
T Consensus         9 ~a~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~   87 (272)
T 3u4t_A            9 YADFLFKNNNYAEAIEVFNKLEAKKY-NSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKK   87 (272)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHHHTTC-CCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHc
Confidence            33444455555555555555544321 1222444444455555555555555555544211111  12244555555555


Q ss_pred             CChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHH
Q 006997          381 GRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSF  456 (622)
Q Consensus       381 ~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~  456 (622)
                      |++++|.+.|++..+   .+...|..+...|...|++++|++.|++..+   ..|+ ...+..+...+...+++++|...
T Consensus        88 ~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~---~~~~~~~~~~~l~~~~~~~~~~~~A~~~  164 (272)
T 3u4t_A           88 GQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIR---PTTTDPKVFYELGQAYYYNKEYVKADSS  164 (272)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCC---SSCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhh---cCCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555554432   2344566666666666666666666666665   3443 34455555233333477777777


Q ss_pred             HHHhHHhcCCCC-ChhHHHHHHHHHHhcCC---hHHHHHHHHhCC----CCCc------HHhHHHHHHHHHhcCCHHHHH
Q 006997          457 FKSMQSNFGIEP-SIEHYLCLVDLLGRAGR---FDLALKTIHEMP----VEVQ------AQVWAPLLSACMKHHNVELGE  522 (622)
Q Consensus       457 ~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~----~~~~------~~~~~~l~~~~~~~~~~~~a~  522 (622)
                      |+++.+.   .| +...+..+..++...|+   +++|...++++.    ..|+      ..++..++..+...|++++|.
T Consensus       165 ~~~a~~~---~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  241 (272)
T 3u4t_A          165 FVKVLEL---KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKAD  241 (272)
T ss_dssp             HHHHHHH---STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHh---CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            7776643   33 35555566666666666   666666666553    1133      246777888899999999999


Q ss_pred             HHHHHHHccCCCCCchHHHHHHHHHhcC
Q 006997          523 YAAKNLLTLNPGSTGNYILMANLFTSAG  550 (622)
Q Consensus       523 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g  550 (622)
                      ..++++++++|+++.++..+..+....+
T Consensus       242 ~~~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          242 AAWKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHC-------
T ss_pred             HHHHHHHhcCccHHHHHHHhhhhhcccc
Confidence            9999999999999988888877765544

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.63  E-value=2e-16  Score=162.73  Aligned_cols=126  Identities=10%  Similarity=0.081  Sum_probs=112.7

Q ss_pred             ChhhHhHHHHHHHhcCChHHHHHHHhhcC-------CCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHH
Q 006997          164 EIPLANSVMSMYAKFGKVNEARSIFDEIG-------ETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLN  236 (622)
Q Consensus       164 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  236 (622)
                      -..+|++||++|++.|++++|.++|++|.       .||+++||+||.+|++.|++++|.++|++|.+.|+.||..||++
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            34578999999999999999999997753       48999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccCCh-HHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHH
Q 006997          237 LILGCAQVGNL-FLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVF  289 (622)
Q Consensus       237 ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  289 (622)
                      +|.++++.|+. +.|.+++++|.+.|+.||..+|+.++..+.+.+-++.+.++.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~  259 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVK  259 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhC
Confidence            99999999985 789999999999999999999999988777665444444443

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.62  E-value=1e-13  Score=138.48  Aligned_cols=342  Identities=10%  Similarity=0.027  Sum_probs=165.8

Q ss_pred             HHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCCh---hHHHHHhccCCCCCCCcchHHHHHHHHHhCC
Q 006997           36 VLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDF---VSSRKVLDEMPVRLRSVVSWNSIISAHSRAC  112 (622)
Q Consensus        36 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~  112 (622)
                      +...+.+.|++++|.+.++...+.|   +...+..|...|...|+.   ++|...|+....  .++.++..+...+...+
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~--~~~~A~~~Lg~~~~~~~   83 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAAD--TSPRAQARLGRLLAAKP   83 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC------------------------------CHHHHHHHHHTC-
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHh--CCHHHHHHHHHHHHhCC
Confidence            4566677889999999999998876   445556677777778888   899999998874  37778888887666655


Q ss_pred             -----CchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHH---H
Q 006997          113 -----LNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNE---A  184 (622)
Q Consensus       113 -----~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---A  184 (622)
                           ++++|+..|++..+.|                                   +...+..|...|...+....   +
T Consensus        84 ~~~~~~~~~A~~~~~~Aa~~g-----------------------------------~~~A~~~Lg~~y~~~~~~~~~~~a  128 (452)
T 3e4b_A           84 GATEAEHHEAESLLKKAFANG-----------------------------------EGNTLIPLAMLYLQYPHSFPNVNA  128 (452)
T ss_dssp             -CCHHHHHHHHHHHHHHHHTT-----------------------------------CSSCHHHHHHHHHHCGGGCTTCCH
T ss_pred             CCCCcCHHHHHHHHHHHHHCC-----------------------------------CHHHHHHHHHHHHhCCCCCCCHHH
Confidence                 6789999999888755                                   22233444555544443222   2


Q ss_pred             HHHHhhcCC-CCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccC---ChHHHHHHHHHHHHh
Q 006997          185 RSIFDEIGE-TSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVG---NLFLALSMHSLLLKS  260 (622)
Q Consensus       185 ~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~  260 (622)
                      .+.+..... .+..++..+...|...+.++++......+.+.-...+...+..+...+...|   +.++|...|+...+.
T Consensus       129 ~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~  208 (452)
T 3e4b_A          129 QQQISQWQAAGYPEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSR  208 (452)
T ss_dssp             HHHHHHHHHHTCTTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHC
Confidence            222222221 3445555666666666655544444333322211222335555555666666   666666666666666


Q ss_pred             CCCCCchhHHHHHHHHHhc----CCHHHHHHHHhhcCCCCHHHHHHHHHH-H--HhcCChHHHHHHHHHHHhCCCCCCHH
Q 006997          261 GYNNEDPLDNLLVSMYTKC----GDLELARRVFDAVLEKSVFLWTSMIGG-Y--AQLGYPSEAVNLFKRLLKTSVRPNEA  333 (622)
Q Consensus       261 ~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~m~~~~~~~~~~  333 (622)
                      | +++...+..|...|...    +++++|...|++....++.++..|... +  ...+++++|+..|++..+.|   +..
T Consensus       209 g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~  284 (452)
T 3e4b_A          209 G-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPR  284 (452)
T ss_dssp             T-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHH
T ss_pred             C-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHH
Confidence            5 44444444455555443    466666666666552245555555554 2  34556666666666665544   333


Q ss_pred             HHHHHHHHHhccC-----ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh----cCChHHHHHHhccCCCC-ChhHHHH
Q 006997          334 TLATTLSACAELG-----SLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSK----CGRINKAKEVFERVPDK-DLAVWSA  403 (622)
Q Consensus       334 ~~~~ll~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~-~~~~~~~  403 (622)
                      .+..+...|. .|     ++++|...|+...    +.++.....|..+|..    ..++++|...|++..+. +......
T Consensus       285 A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~  359 (452)
T 3e4b_A          285 AELLLGKLYY-EGKWVPADAKAAEAHFEKAV----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADFA  359 (452)
T ss_dssp             HHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHH
T ss_pred             HHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHHH
Confidence            4444444443 23     5555555554444    2233444444444443    22444444444443321 2233333


Q ss_pred             HHHHHHH----cCCHHHHHHHHHHhHH
Q 006997          404 MINGYAI----HGMGDQALNLFYKMQH  426 (622)
Q Consensus       404 l~~~~~~----~~~~~~a~~~~~~~~~  426 (622)
                      +...|..    ..+..+|..+|+...+
T Consensus       360 Lg~~y~~G~g~~~d~~~A~~~~~~A~~  386 (452)
T 3e4b_A          360 IAQLFSQGKGTKPDPLNAYVFSQLAKA  386 (452)
T ss_dssp             HHHHHHSCTTBCCCHHHHHHHHHHHHT
T ss_pred             HHHHHHhCCCCCCCHHHHHHHHHHHHH
Confidence            3333332    2244444444444443

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.61  E-value=1e-15  Score=157.54  Aligned_cols=126  Identities=13%  Similarity=0.104  Sum_probs=94.7

Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHHhhc-------CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH
Q 006997          266 DPLDNLLVSMYTKCGDLELARRVFDAV-------LEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATT  338 (622)
Q Consensus       266 ~~~~~~l~~~~~~~~~~~~a~~~~~~~-------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  338 (622)
                      ..+|++||++|++.|++++|.++|++|       ..||+++||+||.+||+.|++++|.++|++|.+.|+.||..||+++
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            346777777777777777777777554       3568888888888888888888888888888888888888888888


Q ss_pred             HHHHhccCCh-HHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhc
Q 006997          339 LSACAELGSL-SKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFE  391 (622)
Q Consensus       339 l~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  391 (622)
                      |.++++.|+. +.|.+++++|.+.|+.||..+|++++....+.+-++.+.++..
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P  260 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKP  260 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCC
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCc
Confidence            8888888774 6778888888888888888888888776666544444444433

>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=3.5e-14  Score=132.18  Aligned_cols=227  Identities=8%  Similarity=-0.060  Sum_probs=188.1

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC--CChh----HHHHHHH
Q 006997          333 ATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD--KDLA----VWSAMIN  406 (622)
Q Consensus       333 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~----~~~~l~~  406 (622)
                      ..+......+...|+++.|...++.+.+.. +.+...+..+..+|...|++++|.+.|++..+  ++..    .|..+..
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGK   82 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            345566778889999999999999998876 45666888899999999999999999987764  2322    4888999


Q ss_pred             HHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcC
Q 006997          407 GYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAG  484 (622)
Q Consensus       407 ~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g  484 (622)
                      .+...|++++|++.|+++.+   ..|+ ...+..+..++...|++++|+..++++.+   ..| +...+..+...+...+
T Consensus        83 ~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~---~~~~~~~~~~~l~~~~~~~~  156 (272)
T 3u4t_A           83 ILMKKGQDSLAIQQYQAAVD---RDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIR---PTTTDPKVFYELGQAYYYNK  156 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH---HSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCC---SSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHcccHHHHHHHHHHHHh---cCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhh---cCCCcHHHHHHHHHHHHHHH
Confidence            99999999999999999998   5554 57899999999999999999999999884   355 5677777773444556


Q ss_pred             ChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCC---HHHHHHHHHHHHccC---CCC-----CchHHHHHHHHHhcCC
Q 006997          485 RFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHN---VELGEYAAKNLLTLN---PGS-----TGNYILMANLFTSAGM  551 (622)
Q Consensus       485 ~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~---p~~-----~~~~~~l~~~~~~~g~  551 (622)
                      ++++|++.++++.  .+.+...+..+..++...|+   +++|...+++++++.   |+.     ..++..++.+|...|+
T Consensus       157 ~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  236 (272)
T 3u4t_A          157 EYVKADSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRD  236 (272)
T ss_dssp             CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCC
Confidence            9999999999987  34447788888888888888   888999999999865   432     2578899999999999


Q ss_pred             hHHHHHHHHHhhhCC
Q 006997          552 WKEAATARGLMDDRR  566 (622)
Q Consensus       552 ~~~A~~~~~~~~~~~  566 (622)
                      +++|.+.++++.+..
T Consensus       237 ~~~A~~~~~~al~~~  251 (272)
T 3u4t_A          237 KVKADAAWKNILALD  251 (272)
T ss_dssp             HHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhcC
Confidence            999999999998743

>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=99.61  E-value=2.4e-13  Score=126.49  Aligned_cols=225  Identities=9%  Similarity=-0.087  Sum_probs=147.1

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHcCCCCchhHHH
Q 006997          296 SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAE----LGSLSKGKEIEEYIVLNGLESNRQVQT  371 (622)
Q Consensus       296 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  371 (622)
                      ++.++..+...+...|++++|+..|++..+.   -+...+..+...+..    .+++++|...++...+.+         
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---------   72 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---------   72 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---------
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---------
Confidence            4455566666666666666666666666652   233444445555555    555555555555554443         


Q ss_pred             HHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHH----cCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhc-
Q 006997          372 SLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAI----HGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSH-  446 (622)
Q Consensus       372 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~-  446 (622)
                                               +...+..+...|..    .+++++|++.|++..+ .+   +...+..+...|.. 
T Consensus        73 -------------------------~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~~~~~  123 (273)
T 1ouv_A           73 -------------------------YSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACD-LK---YAEGCASLGGIYHDG  123 (273)
T ss_dssp             -------------------------CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHC
T ss_pred             -------------------------CHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHH-cC---CccHHHHHHHHHHcC
Confidence                                     33344445555555    6667777777777666 32   55666666666766 


Q ss_pred             ---cCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh----cCChHHHHHHHHhCCCCCcHHhHHHHHHHHHh----c
Q 006997          447 ---SGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGR----AGRFDLALKTIHEMPVEVQAQVWAPLLSACMK----H  515 (622)
Q Consensus       447 ---~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~  515 (622)
                         .+++++|+..|++..+. +   +...+..+...|..    .+++++|+..+++.....+...+..+...+..    .
T Consensus       124 ~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~  199 (273)
T 1ouv_A          124 KVVTRDFKKAVEYFTKACDL-N---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGAT  199 (273)
T ss_dssp             SSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSC
T ss_pred             CCcccCHHHHHHHHHHHHhc-C---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCC
Confidence               77777777777777643 2   45566666677766    77777777777776533445667777777777    7


Q ss_pred             CCHHHHHHHHHHHHccCCCCCchHHHHHHHHHh----cCChHHHHHHHHHhhhCCC
Q 006997          516 HNVELGEYAAKNLLTLNPGSTGNYILMANLFTS----AGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       516 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  567 (622)
                      +++++|...++++++..|  +..+..++.+|..    .|++++|.+.|++..+.+.
T Consensus       200 ~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          200 KNFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             CCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             ccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCC
Confidence            888888888888887765  6677888888888    8888888888887776543

>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=99.61  E-value=8.4e-14  Score=134.56  Aligned_cols=245  Identities=11%  Similarity=0.063  Sum_probs=198.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCC-hHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006997          297 VFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGS-LSKGKEIEEYIVLNGLESNRQVQTSLIH  375 (622)
Q Consensus       297 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~  375 (622)
                      ..+|+.+...+...|++++|+..|++.++.. +-+...|..+...+...|+ +++|...++.+.+.. +.+..+|..+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHH
Confidence            4577888888889999999999999988864 2356677888888888896 999999999998876 557788888889


Q ss_pred             HHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhc-cCch
Q 006997          376 MFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSH-SGMV  450 (622)
Q Consensus       376 ~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~-~g~~  450 (622)
                      ++.+.|++++|...|+++.+   .+...|..+..++...|++++|+..|+++.+   +.|+ ...|..+..++.. .|..
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~---l~P~~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLK---EDVRNNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHhcCcc
Confidence            99999999999999988763   4667888888899999999999999999998   6675 6778888888888 5665


Q ss_pred             HHH-----HHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcC--ChHHHHHHHHhCCCCC-cHHhHHHHHHHHHhcC-----
Q 006997          451 DDG-----LSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAG--RFDLALKTIHEMPVEV-QAQVWAPLLSACMKHH-----  516 (622)
Q Consensus       451 ~~a-----~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~-~~~~~~~l~~~~~~~~-----  516 (622)
                      ++|     +..+++++..   .| +...|..+..+|...|  ++++|++.++++...| +...+..++..+.+.|     
T Consensus       252 ~eA~~~~el~~~~~Al~l---~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~  328 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKL---VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCD  328 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHH---STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCS
T ss_pred             hHHHHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhccccc
Confidence            777     5788888754   55 5778888888888888  6889999888875334 4667888888888764     


Q ss_pred             ---C-HHHHHHHHHHH-HccCCCCCchHHHHHHHHHhc
Q 006997          517 ---N-VELGEYAAKNL-LTLNPGSTGNYILMANLFTSA  549 (622)
Q Consensus       517 ---~-~~~a~~~~~~~-~~~~p~~~~~~~~l~~~~~~~  549 (622)
                         + .++|+++++++ .+++|.....|..++..+..+
T Consensus       329 ~~~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          329 NKEDILNKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence               2 58999999999 899999888888888776554

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.60  E-value=4.7e-14  Score=122.55  Aligned_cols=166  Identities=14%  Similarity=0.110  Sum_probs=146.6

Q ss_pred             ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHH
Q 006997          397 DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLC  475 (622)
Q Consensus       397 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~  475 (622)
                      +...|..+...|...|++++|++.|++..+   +.|+ ..++..+..++.+.|++++|...+..+...  .+.+...+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~   78 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLK---ADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYI   78 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHH
Confidence            556788899999999999999999999998   6675 678888999999999999999999998854  1335677778


Q ss_pred             HHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChH
Q 006997          476 LVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWK  553 (622)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  553 (622)
                      +...+...+++++|...+++..  .+.+...+..++..+...|++++|++.++++++++|+++.++..+|.+|.+.|+++
T Consensus        79 ~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           79 LGSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHH
Confidence            8889999999999999999876  45557789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhCCC
Q 006997          554 EAATARGLMDDRRL  567 (622)
Q Consensus       554 ~A~~~~~~~~~~~~  567 (622)
                      +|.+.|++..+..+
T Consensus       159 ~A~~~~~~al~~~p  172 (184)
T 3vtx_A          159 EAVKYFKKALEKEE  172 (184)
T ss_dssp             HHHHHHHHHHHTTH
T ss_pred             HHHHHHHHHHhCCc
Confidence            99999999987543

>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=99.60  E-value=4.4e-14  Score=136.54  Aligned_cols=225  Identities=9%  Similarity=0.047  Sum_probs=195.4

Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCC-hHHHHHHhccCCC---CChhHHHHHHHHH
Q 006997          333 ATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGR-INKAKEVFERVPD---KDLAVWSAMINGY  408 (622)
Q Consensus       333 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~A~~~~~~~~~---~~~~~~~~l~~~~  408 (622)
                      ..|..+...+...|++++|...++.+++.. +.+..+++.+..++...|+ +++|+..|+++..   .+...|..+..++
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            456677778889999999999999999887 5678899999999999997 9999999998874   4677899999999


Q ss_pred             HHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHh-cCC
Q 006997          409 AIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGR-AGR  485 (622)
Q Consensus       409 ~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~-~g~  485 (622)
                      ...|++++|+..|+++.+   +.|+ ...|..+..++...|++++|+..++++++.   .| +...|+.+..+|.+ .|.
T Consensus       177 ~~~g~~~eAl~~~~kal~---ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l---~P~~~~a~~~lg~~l~~l~~~  250 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILN---QDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE---DVRNNSVWNQRYFVISNTTGY  250 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCS
T ss_pred             HHccCHHHHHHHHHHHHH---hCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhcCc
Confidence            999999999999999998   6775 678999999999999999999999999965   55 68889999999999 666


Q ss_pred             hHHH-----HHHHHhCC--CCCcHHhHHHHHHHHHhcC--CHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcC------
Q 006997          486 FDLA-----LKTIHEMP--VEVQAQVWAPLLSACMKHH--NVELGEYAAKNLLTLNPGSTGNYILMANLFTSAG------  550 (622)
Q Consensus       486 ~~~A-----~~~~~~~~--~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g------  550 (622)
                      .++|     ++.++++.  .+.+...|..+...+...|  ++++|++.++++ +.+|+++.++..++++|.+.|      
T Consensus       251 ~~eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~  329 (382)
T 2h6f_A          251 NDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDN  329 (382)
T ss_dssp             CSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSS
T ss_pred             chHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccc
Confidence            6888     47787776  3445778999999998888  689999999998 999999999999999999985      


Q ss_pred             ---ChHHHHHHHHHh-hhC
Q 006997          551 ---MWKEAATARGLM-DDR  565 (622)
Q Consensus       551 ---~~~~A~~~~~~~-~~~  565 (622)
                         .+++|+++++++ .+.
T Consensus       330 ~~~~~~~A~~~~~~l~~~~  348 (382)
T 2h6f_A          330 KEDILNKALELCEILAKEK  348 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHHHHHHh
Confidence               359999999998 553

>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=99.59  E-value=8.5e-14  Score=127.91  Aligned_cols=196  Identities=10%  Similarity=-0.050  Sum_probs=154.5

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHH
Q 006997          367 RQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILS  442 (622)
Q Consensus       367 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~  442 (622)
                      ...+..+...+...|++++|.+.|+++.+   .+...+..+...+...|++++|.+.++++.+   ..| +...+..+..
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~la~  113 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALA---SDSRNARVLNNYGG  113 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---HCcCcHHHHHHHHH
Confidence            34556666677777777777777776542   3556777778888888888888888888877   344 4667788888


Q ss_pred             HHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHH
Q 006997          443 ACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVE  519 (622)
Q Consensus       443 ~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~  519 (622)
                      .+...|++++|.++++++.. .+..| +...+..++..|...|++++|.+.++++.  .+.+...+..++..+...|+++
T Consensus       114 ~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  192 (252)
T 2ho1_A          114 FLYEQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYV  192 (252)
T ss_dssp             HHHHTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHH
Confidence            88888999999999888875 12445 45677788888888999999999988875  3445777888888899999999


Q ss_pred             HHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          520 LGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       520 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      +|...++++++..|+++..+..++.++.+.|++++|.+.++++.+..
T Consensus       193 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          193 PARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            99999999999999888889999999999999999999999887643

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.58  E-value=1.2e-13  Score=124.25  Aligned_cols=196  Identities=14%  Similarity=0.120  Sum_probs=148.8

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHH
Q 006997          366 NRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSIL  441 (622)
Q Consensus       366 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll  441 (622)
                      +...+..+...+...|++++|.+.|+++.+   .+...+..+...+...|++++|.+.++++.+   ..| +..++..+.
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~l~   83 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALS---IKPDSAEINNNYG   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHH---hCCCChHHHHHHH
Confidence            344555566666666666666666665442   3455677777778888888888888888876   344 456777888


Q ss_pred             HHHhcc-CchHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCC
Q 006997          442 SACSHS-GMVDDGLSFFKSMQSNFGIEPS-IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHN  517 (622)
Q Consensus       442 ~~~~~~-g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~  517 (622)
                      ..+... |++++|...++++.+. +..|+ ...+..+...+...|++++|+..++++.  .+.+...+..++..+...|+
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A           84 WFLCGRLNRPAESMAYFDKALAD-PTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             HHHHTTTCCHHHHHHHHHHHHTS-TTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHhcCcHHHHHHHHHHHHcC-cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCC
Confidence            888888 8888888888888751 23443 5667778888888888888888888775  34447778888888888999


Q ss_pred             HHHHHHHHHHHHccCC-CCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          518 VELGEYAAKNLLTLNP-GSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       518 ~~~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      +++|...++++++..| +++..+..++.++...|+.++|..+++.+.+.
T Consensus       163 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          163 LGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            9999999999998888 88888888888888899999998888887654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.58  E-value=7.6e-14  Score=124.56  Aligned_cols=205  Identities=19%  Similarity=0.079  Sum_probs=113.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 006997          296 SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIH  375 (622)
Q Consensus       296 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  375 (622)
                      +...+..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...++.+.+.. |.+...+..+..
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~   81 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSE   81 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            45667777777888888888888888777653 3355666777777777788888887777777765 445566666666


Q ss_pred             HHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHH
Q 006997          376 MFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGL  454 (622)
Q Consensus       376 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~  454 (622)
                      ++.+.+..           ...         .+...|++++|+..|++..+   ..|+ ...+..+..++...|++++|+
T Consensus        82 ~~~~~~~~-----------~~~---------~~~~~g~~~~A~~~~~~al~---~~P~~~~~~~~lg~~~~~~g~~~~A~  138 (217)
T 2pl2_A           82 AYVALYRQ-----------AED---------RERGKGYLEQALSVLKDAER---VNPRYAPLHLQRGLVYALLGERDKAE  138 (217)
T ss_dssp             HHHHHHHT-----------CSS---------HHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHhhhh-----------hhh---------hcccccCHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHcCChHHHH
Confidence            66655000           000         00112555566666665555   4443 344555555555666666666


Q ss_pred             HHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 006997          455 SFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNL  528 (622)
Q Consensus       455 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  528 (622)
                      ..|+++.+. .  .++..+..+..+|...|++++|+..++++.  .+.+...+..+...+...|++++|+..++++
T Consensus       139 ~~~~~al~~-~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          139 ASLKQALAL-E--DTPEIRSALAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHHH-C--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHHhc-c--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            666665544 2  445555555666666666666666665554  2233445555555555666666666555543

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.58  E-value=3.9e-14  Score=129.34  Aligned_cols=142  Identities=13%  Similarity=0.065  Sum_probs=74.6

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHH
Q 006997          399 AVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLV  477 (622)
Q Consensus       399 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~  477 (622)
                      ..+..+...+...|++++|.+.++++.+   ..| +...+..+...+...|++++|...++++...  .+.+...+..+.
T Consensus        92 ~~~~~la~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~  166 (243)
T 2q7f_A           92 TAYYGAGNVYVVKEMYKEAKDMFEKALR---AGMENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL--NENDTEARFQFG  166 (243)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH---HTCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCccHHHHHHHH
Confidence            3444444455555555555555555554   222 3444555555555555666666655555533  122344555555


Q ss_pred             HHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHH
Q 006997          478 DLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANL  545 (622)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  545 (622)
                      ..+.+.|++++|++.++++.  .+.+..++..++..+...|++++|...++++++++|+++.++..++.+
T Consensus       167 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l  236 (243)
T 2q7f_A          167 MCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHMLALHAKKLL  236 (243)
T ss_dssp             HHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHHHHHHHTC-
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHHHHHHHHHH
Confidence            55555555555555555543  223344555555556666666666666666666666555555544443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.58  E-value=3.1e-14  Score=130.00  Aligned_cols=196  Identities=13%  Similarity=0.082  Sum_probs=154.8

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHH
Q 006997          366 NRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSIL  441 (622)
Q Consensus       366 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll  441 (622)
                      ....+..+...+...|++++|...|+++.+   .+...+..+...+...|++++|+..++++.+   ..| +...+..+.
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~la   98 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALE---LDSSAATAYYGAG   98 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---cCCcchHHHHHHH
Confidence            445566677777788888888888777653   3566788888899999999999999999987   445 467888899


Q ss_pred             HHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHH
Q 006997          442 SACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVE  519 (622)
Q Consensus       442 ~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~  519 (622)
                      ..+...|++++|.+.++++.+.  .+.+...+..++..+.+.|++++|.+.++++.  .+.+...+..++..+...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHH
Confidence            9999999999999999999865  23467888899999999999999999999886  4556788999999999999999


Q ss_pred             HHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          520 LGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       520 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      +|+..++++++..|+++.++..++.+|.+.|++++|.+.++++.+..
T Consensus       177 ~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          177 EALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            99999999999999999999999999999999999999999998743

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.57  E-value=8.8e-13  Score=122.67  Aligned_cols=226  Identities=12%  Similarity=-0.068  Sum_probs=169.1

Q ss_pred             CCchhHHHHHHHHHhcCCHHHHHHHHhhcCCC-CHHHHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHH
Q 006997          264 NEDPLDNLLVSMYTKCGDLELARRVFDAVLEK-SVFLWTSMIGGYAQ----LGYPSEAVNLFKRLLKTSVRPNEATLATT  338 (622)
Q Consensus       264 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~l  338 (622)
                      .+...+..+...|...|++++|...|++..++ +..++..+...|..    .+++++|+..|++..+.+   +...+..+
T Consensus         4 ~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l   80 (273)
T 1ouv_A            4 QDPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLL   80 (273)
T ss_dssp             -CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHH
Confidence            45677888999999999999999999988655 66788899999999    999999999999999876   67778888


Q ss_pred             HHHHhc----cCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHH----
Q 006997          339 LSACAE----LGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAI----  410 (622)
Q Consensus       339 l~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~----  410 (622)
                      ...+..    .+++++|...++...+.+   +...+..+..+                               |..    
T Consensus        81 g~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~-------------------------------~~~~~~~  126 (273)
T 1ouv_A           81 GNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGI-------------------------------YHDGKVV  126 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH-------------------------------HHHCSSS
T ss_pred             HHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHH-------------------------------HHcCCCc
Confidence            888888    888888888888887654   34444444444                               444    


Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhc----cCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh----
Q 006997          411 HGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSH----SGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGR----  482 (622)
Q Consensus       411 ~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----  482 (622)
                      .+++++|++.|++..+ .+   +...+..+...|..    .+++++|...|++..+.    .+...+..+...|..    
T Consensus       127 ~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~  198 (273)
T 1ouv_A          127 TRDFKKAVEYFTKACD-LN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGA  198 (273)
T ss_dssp             CCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSS
T ss_pred             ccCHHHHHHHHHHHHh-cC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCC
Confidence            5666666666666665 33   34555566666665    77777777777777643    245666677777777    


Q ss_pred             cCChHHHHHHHHhCCCCCcHHhHHHHHHHHHh----cCCHHHHHHHHHHHHccCCC
Q 006997          483 AGRFDLALKTIHEMPVEVQAQVWAPLLSACMK----HHNVELGEYAAKNLLTLNPG  534 (622)
Q Consensus       483 ~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~  534 (622)
                      .+++++|++.+++.....+...+..+...+..    .+++++|...+++++++.|+
T Consensus       199 ~~~~~~A~~~~~~a~~~~~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~  254 (273)
T 1ouv_A          199 TKNFKEALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  254 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             CccHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCH
Confidence            77888888888776522336667777778877    88888888888888888874

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.57  E-value=5e-14  Score=141.70  Aligned_cols=208  Identities=10%  Similarity=-0.004  Sum_probs=169.4

Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCh-HHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHh
Q 006997          349 SKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRI-NKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKM  424 (622)
Q Consensus       349 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  424 (622)
                      +.+...++...... +.+...+..+...|...|++ ++|.+.|++..+   .+...|..+..+|...|++++|++.|++.
T Consensus        85 ~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~a  163 (474)
T 4abn_A           85 EKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGA  163 (474)
T ss_dssp             HHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33444444333322 34555666666666666777 777776666542   34567888888999999999999999999


Q ss_pred             HHhcCCCCCHHHHHHHHHHHhcc---------CchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhc--------CCh
Q 006997          425 QHVEGLKPDAVVYTSILSACSHS---------GMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRA--------GRF  486 (622)
Q Consensus       425 ~~~~~~~p~~~~~~~ll~~~~~~---------g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~--------g~~  486 (622)
                      .+   ..|+...+..+..++...         |++++|+..++++.+.   .| +...|..+..+|...        |++
T Consensus       164 l~---~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~~~~g~~  237 (474)
T 4abn_A          164 LT---HCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM---DVLDGRSWYILGNAYLSLYFNTGQNPKIS  237 (474)
T ss_dssp             HT---TCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             Hh---hCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHHHhhccccchH
Confidence            88   678888888999999999         9999999999999865   45 578889999999998        999


Q ss_pred             HHHHHHHHhCC-CCC----cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHH
Q 006997          487 DLALKTIHEMP-VEV----QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGL  561 (622)
Q Consensus       487 ~~A~~~~~~~~-~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  561 (622)
                      ++|++.|+++. ..|    +...|..++.++...|++++|.+.++++++++|+++.++..++.++...|++++|.+.+.+
T Consensus       238 ~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          238 QQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            99999999987 345    6888999999999999999999999999999999999999999999999999999987665


Q ss_pred             hh
Q 006997          562 MD  563 (622)
Q Consensus       562 ~~  563 (622)
                      +.
T Consensus       318 ~~  319 (474)
T 4abn_A          318 TK  319 (474)
T ss_dssp             CC
T ss_pred             cc
Confidence            53

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.57  E-value=3e-14  Score=141.51  Aligned_cols=262  Identities=13%  Similarity=0.027  Sum_probs=175.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHhccCChHHHHHHHHHHHHc----C-CCCchhHHHH
Q 006997          302 SMIGGYAQLGYPSEAVNLFKRLLKTSVRPNE----ATLATTLSACAELGSLSKGKEIEEYIVLN----G-LESNRQVQTS  372 (622)
Q Consensus       302 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~  372 (622)
                      .+...+...|++++|+..|+++.+.+.. +.    ..+..+...+...|+++.|...++++.+.    + .+....++..
T Consensus        53 ~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  131 (411)
T 4a1s_A           53 LEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGN  131 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHH
Confidence            3445556666666666666666654211 22    24555555666666666666666655432    1 1222355566


Q ss_pred             HHHHHHhcCChHHHHHHhccCCCC---------ChhHHHHHHHHHHHcCC-----------------HHHHHHHHHHhHH
Q 006997          373 LIHMFSKCGRINKAKEVFERVPDK---------DLAVWSAMINGYAIHGM-----------------GDQALNLFYKMQH  426 (622)
Q Consensus       373 l~~~~~~~~~~~~A~~~~~~~~~~---------~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~~~~~  426 (622)
                      +...|...|++++|...|++...-         ...++..+...|...|+                 +++|++.+++..+
T Consensus       132 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~  211 (411)
T 4a1s_A          132 LGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLK  211 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHH
Confidence            666666777777776666654421         22356667777777787                 7888888777654


Q ss_pred             h---cCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC-
Q 006997          427 V---EGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS----IEHYLCLVDLLGRAGRFDLALKTIHEMP-  497 (622)
Q Consensus       427 ~---~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-  497 (622)
                      .   .+..|. ..++..+...+...|++++|...+++......-.++    ...+..+...|...|++++|...++++. 
T Consensus       212 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  291 (411)
T 4a1s_A          212 LMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLA  291 (411)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            1   111122 346777888888999999999999887653211112    2367788888999999999999998764 


Q ss_pred             CC-------CcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC------CchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          498 VE-------VQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS------TGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       498 ~~-------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ..       ....++..+...+...|++++|...+++++++.+..      ..++..++.+|.+.|++++|.+.+++..+
T Consensus       292 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          292 LAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            11       114567788889999999999999999998875533      34888999999999999999999998865

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.57  E-value=6.8e-14  Score=138.65  Aligned_cols=271  Identities=11%  Similarity=0.035  Sum_probs=125.9

Q ss_pred             CchhHHHHHHHHHhcCCHHHHHHHHhhcCC--C-C----HHHHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCC-CH
Q 006997          265 EDPLDNLLVSMYTKCGDLELARRVFDAVLE--K-S----VFLWTSMIGGYAQLGYPSEAVNLFKRLLKT----SVRP-NE  332 (622)
Q Consensus       265 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~  332 (622)
                      ....+......+...|++++|...|+++..  + +    ..++..+...+...|++++|...+++....    +-.| ..
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   87 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   87 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHH
Confidence            344455566666677777777777766532  1 2    235566666666777777777776665432    1111 12


Q ss_pred             HHHHHHHHHHhccCChHHHHHHHHHHHHcCC----C-CchhHHHHHHHHHHhcCC--------------------hHHHH
Q 006997          333 ATLATTLSACAELGSLSKGKEIEEYIVLNGL----E-SNRQVQTSLIHMFSKCGR--------------------INKAK  387 (622)
Q Consensus       333 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----~-~~~~~~~~l~~~~~~~~~--------------------~~~A~  387 (622)
                      ..+..+...+...|+++.|...++.+.+...    + ....++..+...|...|+                    +++|.
T Consensus        88 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~  167 (406)
T 3sf4_A           88 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAV  167 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHH
Confidence            3445555566666666666666665543310    0 012344455555555555                    55554


Q ss_pred             HHhccCCC-----C----ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC----HHHHHHHHHHHhccCchHHHH
Q 006997          388 EVFERVPD-----K----DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD----AVVYTSILSACSHSGMVDDGL  454 (622)
Q Consensus       388 ~~~~~~~~-----~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----~~~~~~ll~~~~~~g~~~~a~  454 (622)
                      +.+++...     .    ...++..+...|...|++++|...+++..+...-.++    ..++..+..++...|++++|.
T Consensus       168 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  247 (406)
T 3sf4_A          168 DFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  247 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHH
Confidence            44443321     0    1123444444445555555555555544431111111    113444444444555555555


Q ss_pred             HHHHHhHHhcCCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC----CCCc----HHhHHHHHHHHHhcCCHHHHH
Q 006997          455 SFFKSMQSNFGIEPS----IEHYLCLVDLLGRAGRFDLALKTIHEMP----VEVQ----AQVWAPLLSACMKHHNVELGE  522 (622)
Q Consensus       455 ~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~----~~~~~~l~~~~~~~~~~~~a~  522 (622)
                      ..+++......-.++    ..++..+...|...|++++|...++++.    ..++    ..++..+...+...|++++|.
T Consensus       248 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  327 (406)
T 3sf4_A          248 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAM  327 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            555444322100011    2333444444444555555544444432    0000    223444444444445555555


Q ss_pred             HHHHHHHccCCCC
Q 006997          523 YAAKNLLTLNPGS  535 (622)
Q Consensus       523 ~~~~~~~~~~p~~  535 (622)
                      ..+++++++.+..
T Consensus       328 ~~~~~al~~~~~~  340 (406)
T 3sf4_A          328 HFAEKHLEISREV  340 (406)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHh
Confidence            5555554444433

>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=99.56  E-value=5.9e-13  Score=122.24  Aligned_cols=208  Identities=12%  Similarity=0.034  Sum_probs=143.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 006997          297 VFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHM  376 (622)
Q Consensus       297 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  376 (622)
                      ...|..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|...++.+.+.. +.           
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~-----------  103 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SR-----------  103 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT-----------
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cC-----------
Confidence            4567777777788888888888888777653 2345566666666666677777766666665543 22           


Q ss_pred             HHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHH
Q 006997          377 FSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLS  455 (622)
Q Consensus       377 ~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~  455 (622)
                                          +...+..+...|...|++++|.+.++++.+ .+..|+ ...+..+..++...|++++|..
T Consensus       104 --------------------~~~~~~~la~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~  162 (252)
T 2ho1_A          104 --------------------NARVLNNYGGFLYEQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKE  162 (252)
T ss_dssp             --------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             --------------------cHHHHHHHHHHHHHHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHH
Confidence                                233445555566666666777777766654 334453 4566667777777788888888


Q ss_pred             HHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCC
Q 006997          456 FFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNP  533 (622)
Q Consensus       456 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  533 (622)
                      .++++... . +.+...+..++..|...|++++|...++++.  .+.+...+..+...+...|+.++|.+.+++++++.|
T Consensus       163 ~~~~~~~~-~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p  240 (252)
T 2ho1_A          163 YFEKSLRL-N-RNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYP  240 (252)
T ss_dssp             HHHHHHHH-C-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHhc-C-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC
Confidence            88777754 1 2346677777888888888888888887764  334566777888888889999999999999999999


Q ss_pred             CCCchHH
Q 006997          534 GSTGNYI  540 (622)
Q Consensus       534 ~~~~~~~  540 (622)
                      +++....
T Consensus       241 ~~~~~~~  247 (252)
T 2ho1_A          241 GSLEYQE  247 (252)
T ss_dssp             TSHHHHH
T ss_pred             CCHHHHH
Confidence            8776554

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.55  E-value=6.1e-14  Score=134.96  Aligned_cols=263  Identities=14%  Similarity=0.043  Sum_probs=176.7

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHhccCChHHHHHHHHHHHHc----CC-CCchhHHHH
Q 006997          302 SMIGGYAQLGYPSEAVNLFKRLLKTSVRPN----EATLATTLSACAELGSLSKGKEIEEYIVLN----GL-ESNRQVQTS  372 (622)
Q Consensus       302 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~~~~  372 (622)
                      .....+...|++++|+..|+++.+.... +    ...+..+...+...|+++.|...++.+.+.    +. +....++..
T Consensus        10 ~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~   88 (338)
T 3ro2_A           10 LEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGN   88 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHH
Confidence            3444555666666666666666554211 2    234555555666666666666666554332    11 112345566


Q ss_pred             HHHHHHhcCChHHHHHHhccCCC-----CC----hhHHHHHHHHHHHcCC--------------------HHHHHHHHHH
Q 006997          373 LIHMFSKCGRINKAKEVFERVPD-----KD----LAVWSAMINGYAIHGM--------------------GDQALNLFYK  423 (622)
Q Consensus       373 l~~~~~~~~~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~  423 (622)
                      +...|...|++++|...+++..+     ++    ..++..+...+...|+                    +++|.+.+++
T Consensus        89 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~  168 (338)
T 3ro2_A           89 LGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEE  168 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHH
Confidence            66667777777777766665432     11    2356666777777777                    8888888877


Q ss_pred             hHHh---cCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHHhcCChHHHHHHHHh
Q 006997          424 MQHV---EGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS----IEHYLCLVDLLGRAGRFDLALKTIHE  495 (622)
Q Consensus       424 ~~~~---~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~  495 (622)
                      ..+.   .+..|. ...+..+...+...|++++|...+++......-.++    ...+..+...+...|++++|...+++
T Consensus       169 a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  248 (338)
T 3ro2_A          169 NLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKK  248 (338)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            6541   111122 346777888888999999999999887643111122    33677888899999999999999987


Q ss_pred             CC-C---CCc----HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC------CchHHHHHHHHHhcCChHHHHHHHHH
Q 006997          496 MP-V---EVQ----AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS------TGNYILMANLFTSAGMWKEAATARGL  561 (622)
Q Consensus       496 ~~-~---~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~~  561 (622)
                      .. .   .++    ..++..+...+...|++++|...+++++++.|..      ..++..++.+|.+.|++++|.+.+++
T Consensus       249 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  328 (338)
T 3ro2_A          249 TLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEK  328 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            64 1   111    4567788889999999999999999998875543      34788999999999999999999999


Q ss_pred             hhhC
Q 006997          562 MDDR  565 (622)
Q Consensus       562 ~~~~  565 (622)
                      ..+.
T Consensus       329 a~~~  332 (338)
T 3ro2_A          329 HLEI  332 (338)
T ss_dssp             HHHC
T ss_pred             HHHH
Confidence            8763

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.55  E-value=1.3e-13  Score=128.47  Aligned_cols=236  Identities=12%  Similarity=-0.024  Sum_probs=145.8

Q ss_pred             CCHHHHHHHHhhcCCC-------CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHH
Q 006997          280 GDLELARRVFDAVLEK-------SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGK  352 (622)
Q Consensus       280 ~~~~~a~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  352 (622)
                      |++++|...|+++.+.       +..+|..+...+...|++++|+..|+++.+.. +.+...+..+...+...|++++|.
T Consensus        19 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~   97 (275)
T 1xnf_A           19 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAY   97 (275)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             chHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHHHH
Confidence            4445555555444321       23455566666666666666666666666543 224556666666666666777777


Q ss_pred             HHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC--CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCC
Q 006997          353 EIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD--KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGL  430 (622)
Q Consensus       353 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  430 (622)
                      ..++.+.+.. +.+..++..+..+|.+.|++++|...|+++.+  |+..........+...|++++|...+++... . .
T Consensus        98 ~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~-~-~  174 (275)
T 1xnf_A           98 EAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE-K-S  174 (275)
T ss_dssp             HHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH-H-S
T ss_pred             HHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHh-c-C
Confidence            6666666654 33456666677777777777777777766652  3333333344445666888888888877776 2 2


Q ss_pred             CCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC-----hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCcHHh
Q 006997          431 KPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS-----IEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQAQV  504 (622)
Q Consensus       431 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~  504 (622)
                      +++...+ .++..+...++.++|...++++..   ..|+     ...+..+...|.+.|++++|...++++. ..|+.  
T Consensus       175 ~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~--  248 (275)
T 1xnf_A          175 DKEQWGW-NIVEFYLGNISEQTLMERLKADAT---DNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHN--  248 (275)
T ss_dssp             CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCC---SHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTT--
T ss_pred             CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhc---ccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchh--
Confidence            2333333 466677777788888888887763   2332     4677788888888899999999888876 34432  


Q ss_pred             HHHHHHHHHhcCCHHHHHHHH
Q 006997          505 WAPLLSACMKHHNVELGEYAA  525 (622)
Q Consensus       505 ~~~l~~~~~~~~~~~~a~~~~  525 (622)
                      +.....++...|++++|++.+
T Consensus       249 ~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          249 FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             CHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHHHHHHhhHHHH
Confidence            333455666777888877766

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.54  E-value=1.2e-12  Score=117.71  Aligned_cols=209  Identities=13%  Similarity=-0.008  Sum_probs=139.6

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 006997          297 VFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHM  376 (622)
Q Consensus       297 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  376 (622)
                      +..|..+...+...|++++|+..|+++.+.. +.+...+..+...+...|++++|...++.+.+..              
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--------------   72 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK--------------   72 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--------------
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC--------------
Confidence            3445555555556666666666665555432 2233444444444555555555555554444332              


Q ss_pred             HHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHc-CCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHH
Q 006997          377 FSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIH-GMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGL  454 (622)
Q Consensus       377 ~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~  454 (622)
                                        ..+..++..+...+... |++++|...++++.+ .+..|+ ...+..+..++...|++++|.
T Consensus        73 ------------------~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~  133 (225)
T 2vq2_A           73 ------------------PDSAEINNNYGWFLCGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAE  133 (225)
T ss_dssp             ------------------TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ------------------CCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHH
Confidence                              12344556666677777 778888888877775 444444 466777778888888888888


Q ss_pred             HHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CC-CcHHhHHHHHHHHHhcCCHHHHHHHHHHHHc
Q 006997          455 SFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VE-VQAQVWAPLLSACMKHHNVELGEYAAKNLLT  530 (622)
Q Consensus       455 ~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  530 (622)
                      ..++++.+.   .| +...+..++..+.+.|++++|...++++.  .+ .+...+..+...+...|+.+.|...++.+.+
T Consensus       134 ~~~~~~~~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  210 (225)
T 2vq2_A          134 AYLKRSLAA---QPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQA  210 (225)
T ss_dssp             HHHHHHHHH---STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHh---CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            888888754   34 46777788888888888888888888775  23 4566677777778889999999999999999


Q ss_pred             cCCCCCchHHHH
Q 006997          531 LNPGSTGNYILM  542 (622)
Q Consensus       531 ~~p~~~~~~~~l  542 (622)
                      ..|+++.....+
T Consensus       211 ~~p~~~~~~~~l  222 (225)
T 2vq2_A          211 NFPYSEELQTVL  222 (225)
T ss_dssp             HCTTCHHHHHHH
T ss_pred             hCCCCHHHHHHh
Confidence            999887766544

>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=99.53  E-value=2.3e-10  Score=118.13  Aligned_cols=217  Identities=9%  Similarity=-0.073  Sum_probs=154.9

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHH-HHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccC
Q 006997          315 EAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGK-EIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERV  393 (622)
Q Consensus       315 ~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  393 (622)
                      .+..+|++.+..- +-....|...+..+...|+.+.|. .+++.+.... |.+...+...+....+.|++++|.++|+++
T Consensus       327 Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~-P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~  404 (679)
T 4e6h_A          327 RMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSAVLAFSLSEQYELNTKIPEIETTILSC  404 (679)
T ss_dssp             HHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            3455666666542 335556666666666667777775 7777776543 455566666777777777777777777765


Q ss_pred             CC-------------C------------ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhcc-
Q 006997          394 PD-------------K------------DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHS-  447 (622)
Q Consensus       394 ~~-------------~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~-  447 (622)
                      ..             |            ....|...+....+.|+.+.|..+|.++.+ .-..+....|...+..-.+. 
T Consensus       405 l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~-~~~~~~~~lyi~~A~lE~~~~  483 (679)
T 4e6h_A          405 IDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRR-LKKLVTPDIYLENAYIEYHIS  483 (679)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHH-TGGGSCTHHHHHHHHHHHTTT
T ss_pred             HHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-hcCCCChHHHHHHHHHHHHhC
Confidence            43             2            123677778888888999999999999987 30111233443333333333 


Q ss_pred             CchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC----cHHhHHHHHHHHHhcCCHHHHH
Q 006997          448 GMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEV----QAQVWAPLLSACMKHHNVELGE  522 (622)
Q Consensus       448 g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~----~~~~~~~l~~~~~~~~~~~~a~  522 (622)
                      ++.+.|..+|+...+.+  +.+...+...++.....|+.+.|..+|++.. ..|    ....|...+..-...|+.+.+.
T Consensus       484 ~d~e~Ar~ife~~Lk~~--p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~  561 (679)
T 4e6h_A          484 KDTKTACKVLELGLKYF--ATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVR  561 (679)
T ss_dssp             SCCHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHH
T ss_pred             CCHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            56999999999999763  3456677788898889999999999999987 233    3567888998889999999999


Q ss_pred             HHHHHHHccCCCCC
Q 006997          523 YAAKNLLTLNPGST  536 (622)
Q Consensus       523 ~~~~~~~~~~p~~~  536 (622)
                      .+.+++.+..|+++
T Consensus       562 ~v~~R~~~~~P~~~  575 (679)
T 4e6h_A          562 TLEKRFFEKFPEVN  575 (679)
T ss_dssp             HHHHHHHHHSTTCC
T ss_pred             HHHHHHHHhCCCCc
Confidence            99999999999764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.52  E-value=2.5e-13  Score=134.55  Aligned_cols=268  Identities=14%  Similarity=0.039  Sum_probs=171.4

Q ss_pred             CCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCC----chhHHHHHHHHHhcCCHHHHHHHHhhcCC-----C---
Q 006997          228 TPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNE----DPLDNLLVSMYTKCGDLELARRVFDAVLE-----K---  295 (622)
Q Consensus       228 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~---  295 (622)
                      .+....+......+...|++++|...++.+.+.+ +.+    ..++..+...|...|++++|...|++...     .   
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            3444555666667777788888888888777764 223    24566777777788888888777766521     1   


Q ss_pred             -CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHhccCC--------------------hH
Q 006997          296 -SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSV-RPN----EATLATTLSACAELGS--------------------LS  349 (622)
Q Consensus       296 -~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~ll~~~~~~~~--------------------~~  349 (622)
                       ...++..+...|...|++++|+..+++..+... .++    ..++..+...+...|+                    ++
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~  164 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQ  164 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHH
Confidence             234666777777778888888887777654210 011    2356666677777777                    77


Q ss_pred             HHHHHHHHHHHc----CC-CCchhHHHHHHHHHHhcCChHHHHHHhccCCC-----CC----hhHHHHHHHHHHHcCCHH
Q 006997          350 KGKEIEEYIVLN----GL-ESNRQVQTSLIHMFSKCGRINKAKEVFERVPD-----KD----LAVWSAMINGYAIHGMGD  415 (622)
Q Consensus       350 ~a~~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~  415 (622)
                      .|...++...+.    +. +....++..+...|...|++++|...|++..+     ++    ..++..+...|...|+++
T Consensus       165 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  244 (406)
T 3sf4_A          165 AAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFE  244 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChH
Confidence            777777666443    11 11234566677777778888888777776542     11    125666777777788888


Q ss_pred             HHHHHHHHhHHhcCCCCC----HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHHhcCChH
Q 006997          416 QALNLFYKMQHVEGLKPD----AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS----IEHYLCLVDLLGRAGRFD  487 (622)
Q Consensus       416 ~a~~~~~~~~~~~~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~  487 (622)
                      +|...+++..+...-.++    ..++..+...+...|++++|...+++......-.++    ..++..+...|...|+++
T Consensus       245 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  324 (406)
T 3sf4_A          245 TASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHD  324 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            888888776651111111    345666777777788888888887776643111112    445667777777888888


Q ss_pred             HHHHHHHhC
Q 006997          488 LALKTIHEM  496 (622)
Q Consensus       488 ~A~~~~~~~  496 (622)
                      +|.+.+++.
T Consensus       325 ~A~~~~~~a  333 (406)
T 3sf4_A          325 QAMHFAEKH  333 (406)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            887777764

>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=99.49  E-value=5.7e-13  Score=139.16  Aligned_cols=161  Identities=16%  Similarity=0.169  Sum_probs=145.7

Q ss_pred             hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHH
Q 006997          398 LAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLC  475 (622)
Q Consensus       398 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~  475 (622)
                      ..+|+.+...|.+.|++++|++.|++..+   +.|+ ..++..+..+|.+.|++++|+..|+++.+.   .| +...|..
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~---l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l---~P~~~~a~~n   82 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALE---VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI---SPTFADAYSN   82 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHH
Confidence            45788889999999999999999999998   6776 678899999999999999999999999854   56 4788999


Q ss_pred             HHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChH
Q 006997          476 LVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWK  553 (622)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  553 (622)
                      +..+|.+.|++++|++.++++.  .+.+...|..++.++...|++++|++.|+++++++|+++.++..++.+|...|+++
T Consensus        83 Lg~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           83 MGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHH
Confidence            9999999999999999999886  34457889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhh
Q 006997          554 EAATARGLMDD  564 (622)
Q Consensus       554 ~A~~~~~~~~~  564 (622)
                      +|.+.++++.+
T Consensus       163 ~A~~~~~kal~  173 (723)
T 4gyw_A          163 DYDERMKKLVS  173 (723)
T ss_dssp             THHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998865

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.46  E-value=1e-12  Score=129.01  Aligned_cols=196  Identities=12%  Similarity=0.067  Sum_probs=127.4

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHhccCCC-----C-----ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC----
Q 006997          368 QVQTSLIHMFSKCGRINKAKEVFERVPD-----K-----DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD----  433 (622)
Q Consensus       368 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----  433 (622)
                      .++..+...|...|++++|...+.+..+     +     ...+++.+...|...|++++|+..+++..+...-.++    
T Consensus       144 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  223 (383)
T 3ulq_A          144 EFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLM  223 (383)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHH
Confidence            3444455555555555555554443331     1     1235666677777778888888777776651111122    


Q ss_pred             HHHHHHHHHHHhccCchHHHHHHHHHhHHhc---CCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC------CCCc-H
Q 006997          434 AVVYTSILSACSHSGMVDDGLSFFKSMQSNF---GIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP------VEVQ-A  502 (622)
Q Consensus       434 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~------~~~~-~  502 (622)
                      ..++..+..+|...|++++|+..+++.....   +..| ...++..+...|.+.|++++|...+++..      ..|. .
T Consensus       224 ~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  303 (383)
T 3ulq_A          224 GRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYL  303 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            2367777888888888888888888776411   1113 35567778888888888888888888764      1222 2


Q ss_pred             HhHHHHHHHHHhcCC---HHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          503 QVWAPLLSACMKHHN---VELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       503 ~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ..+..+...+...|+   +++|...+++. ...|.....+..++.+|.+.|++++|.+.+++..+
T Consensus       304 ~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          304 SEFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            234566777777788   77777777766 33344556788889999999999999999988865

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.46  E-value=1.9e-12  Score=112.27  Aligned_cols=166  Identities=12%  Similarity=0.053  Sum_probs=133.2

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHH
Q 006997          366 NRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSIL  441 (622)
Q Consensus       366 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll  441 (622)
                      +..+|..+...|.+.|++++|.+.|++..+   .+..+|..+..+|...|++++|+..+.+...   ..|+ ...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVV---LDTTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCchhHHHHHHHH
Confidence            455667777777777777777777776652   3556777788888888999999999888877   4454 56677777


Q ss_pred             HHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHH
Q 006997          442 SACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVE  519 (622)
Q Consensus       442 ~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~  519 (622)
                      ..+...++++.+...+.+....  .+.+...+..+..+|.+.|++++|++.++++.  .+.+..+|..++.++...|+++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHH
Confidence            8888899999999999988854  13357788889999999999999999999876  4455778999999999999999


Q ss_pred             HHHHHHHHHHccCCCCC
Q 006997          520 LGEYAAKNLLTLNPGST  536 (622)
Q Consensus       520 ~a~~~~~~~~~~~p~~~  536 (622)
                      +|+..++++++++|+++
T Consensus       159 ~A~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          159 EAVKYFKKALEKEEKKA  175 (184)
T ss_dssp             HHHHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHHHhCCccCH
Confidence            99999999999999653

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.45  E-value=4.1e-13  Score=133.33  Aligned_cols=272  Identities=14%  Similarity=0.051  Sum_probs=170.7

Q ss_pred             HHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCc----hhHHHHHHHHHhcCCHHHHHHHHhhcCCC---------CHHH
Q 006997          233 VFLNLILGCAQVGNLFLALSMHSLLLKSGYNNED----PLDNLLVSMYTKCGDLELARRVFDAVLEK---------SVFL  299 (622)
Q Consensus       233 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~~~  299 (622)
                      .+..+...+...|++++|...++.+.+.+ +.+.    .++..+...|...|++++|...|++....         ...+
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  128 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKS  128 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHH
Confidence            34455566677778888888887777763 2222    35666666677777777777766654221         2245


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCC----C-CCCHHHHHHHHHHHhccCC----------hHHHHHHHHHHHHcCCC
Q 006997          300 WTSMIGGYAQLGYPSEAVNLFKRLLKTS----V-RPNEATLATTLSACAELGS----------LSKGKEIEEYIVLNGLE  364 (622)
Q Consensus       300 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~----~-~~~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~  364 (622)
                      +..+...|...|++++|...+++..+..    - .....++..+...+...|+          .+.+...          
T Consensus       129 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~----------  198 (411)
T 4a1s_A          129 SGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEA----------  198 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHH----------
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHH----------
Confidence            5556666666666666666666654321    0 0111233344444444444          1111110          


Q ss_pred             CchhHHHHHHHHHHhcCChHHHHHHhccCCC-------C--ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC--
Q 006997          365 SNRQVQTSLIHMFSKCGRINKAKEVFERVPD-------K--DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD--  433 (622)
Q Consensus       365 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-------~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~--  433 (622)
                                        +++|.+.+++..+       +  ...++..+...|...|++++|+..+++..+...-.++  
T Consensus       199 ------------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  260 (411)
T 4a1s_A          199 ------------------LTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRA  260 (411)
T ss_dssp             ------------------HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             ------------------HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcH
Confidence                              4444444433221       0  1235666777788888888888888887651111112  


Q ss_pred             --HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC-C------CC
Q 006997          434 --AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS----IEHYLCLVDLLGRAGRFDLALKTIHEMP-V------EV  500 (622)
Q Consensus       434 --~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~------~~  500 (622)
                        ...+..+..++...|++++|...++++.....-..+    ...+..+...|...|++++|...+++.. .      .+
T Consensus       261 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  340 (411)
T 4a1s_A          261 AERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRI  340 (411)
T ss_dssp             HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChH
Confidence              236778888899999999999999887753211111    4667788899999999999999998875 1      11


Q ss_pred             -cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCC
Q 006997          501 -QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNP  533 (622)
Q Consensus       501 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  533 (622)
                       ...++..+...+...|++++|...+++++++.+
T Consensus       341 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  374 (411)
T 4a1s_A          341 GEARACWSLGNAHSAIGGHERALKYAEQHLQLAX  374 (411)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHh
Confidence             134677888899999999999999999999876

>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=99.44  E-value=2.6e-10  Score=117.70  Aligned_cols=401  Identities=7%  Similarity=0.013  Sum_probs=267.9

Q ss_pred             ChhhHhHHHHHHHhcCChHHHHHHHhhcCC---CCcchHHHHHHHHHcCCC---hhHHHHHHHHHHHCC-CCCCHhHHHH
Q 006997          164 EIPLANSVMSMYAKFGKVNEARSIFDEIGE---TSIVSWTTIIGGYVNVGN---VNEAFGLCNQMRRMS-VTPDLVVFLN  236 (622)
Q Consensus       164 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~-~~p~~~~~~~  236 (622)
                      |...|..++..+.+.+.++.+..+|+++..   .+...|...+..-.+.++   ++.+..+|++..... ..|+...|..
T Consensus        65 d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW~~  144 (679)
T 4e6h_A           65 DIFLYVKLLKHHVSLKQWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLWLS  144 (679)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHHHH
T ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHHHH
Confidence            777888888888888888888888888765   344567777777778888   888888888887753 1367777666


Q ss_pred             HHHHHhccCCh--------HHHHHHHHHHHH-hCC-CC-CchhHHHHHHHHHh---------cCCHHHHHHHHhhcCCC-
Q 006997          237 LILGCAQVGNL--------FLALSMHSLLLK-SGY-NN-EDPLDNLLVSMYTK---------CGDLELARRVFDAVLEK-  295 (622)
Q Consensus       237 ll~~~~~~~~~--------~~a~~~~~~~~~-~~~-~~-~~~~~~~l~~~~~~---------~~~~~~a~~~~~~~~~~-  295 (622)
                      -+......++.        +...++|+..+. .|. .+ +...|...+.....         .++++.+..+|+++..- 
T Consensus       145 Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~iP  224 (679)
T 4e6h_A          145 YITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLCQP  224 (679)
T ss_dssp             HHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHhCc
Confidence            66555444433        334466766655 355 44 34577776665432         33567788888877642 


Q ss_pred             --CH-HHHH---HHHHHH----------HhcCChHHHHHHHHHHHh--CCCC---------------C-----CH---HH
Q 006997          296 --SV-FLWT---SMIGGY----------AQLGYPSEAVNLFKRLLK--TSVR---------------P-----NE---AT  334 (622)
Q Consensus       296 --~~-~~~~---~l~~~~----------~~~~~~~~a~~~~~~m~~--~~~~---------------~-----~~---~~  334 (622)
                        +. ..|.   .+....          -...+++.|...+.++..  .++.               |     +.   ..
T Consensus       225 ~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~l  304 (679)
T 4e6h_A          225 MDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLI  304 (679)
T ss_dssp             CSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHH
Confidence              11 2232   222111          001123344455544321  1110               1     00   22


Q ss_pred             HHHHHHHHhccC-------ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHH-HHhccCCC--C-ChhHHHH
Q 006997          335 LATTLSACAELG-------SLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAK-EVFERVPD--K-DLAVWSA  403 (622)
Q Consensus       335 ~~~ll~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~-~~~~~~~~--~-~~~~~~~  403 (622)
                      |...+.--...+       ..+.+..+|++++... +....+|-..+..+...|+.++|. ++|++...  | +...|..
T Consensus       305 W~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lwl~  383 (679)
T 4e6h_A          305 WLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLAFS  383 (679)
T ss_dssp             HHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            333332222211       1234566788887764 567888888888888899999996 99987763  3 4556777


Q ss_pred             HHHHHHHcCCHHHHHHHHHHhHHhcC---------CCCC------------HHHHHHHHHHHhccCchHHHHHHHHHhHH
Q 006997          404 MINGYAIHGMGDQALNLFYKMQHVEG---------LKPD------------AVVYTSILSACSHSGMVDDGLSFFKSMQS  462 (622)
Q Consensus       404 l~~~~~~~~~~~~a~~~~~~~~~~~~---------~~p~------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  462 (622)
                      .+...-..|++++|.++|+++.+ ..         -.|+            ...|...+....+.|+.+.|..+|.++.+
T Consensus       384 ~a~~ee~~~~~e~aR~iyek~l~-~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~  462 (679)
T 4e6h_A          384 LSEQYELNTKIPEIETTILSCID-RIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRR  462 (679)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH-HHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHH-HHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            88888899999999999999886 21         0132            23577778888888999999999999985


Q ss_pred             hcCCCCChhHHHHHHHHHHhcC-ChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC---CC
Q 006997          463 NFGIEPSIEHYLCLVDLLGRAG-RFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG---ST  536 (622)
Q Consensus       463 ~~~~~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~---~~  536 (622)
                      .. ..+....|...+..-.+.| +.+.|.++|+...  .+.+...|..++......|+.+.|..+|++++...|+   ..
T Consensus       463 ~~-~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~  541 (679)
T 4e6h_A          463 LK-KLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLK  541 (679)
T ss_dssp             TG-GGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHH
T ss_pred             hc-CCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHH
Confidence            31 1223445554444444544 5899999999876  4556777888888888899999999999999998873   45


Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          537 GNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ..|..+...-.+.|+.+.+.++.+++.+..+
T Consensus       542 ~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P  572 (679)
T 4e6h_A          542 MIFQKVIFFESKVGSLNSVRTLEKRFFEKFP  572 (679)
T ss_dssp             HHHHHHHHHHHHTCCSHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            6788888888999999999999999987543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.44  E-value=7.1e-12  Score=118.62  Aligned_cols=217  Identities=12%  Similarity=0.048  Sum_probs=115.9

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc-------cCCh-------HHHHHHHHHHHHcCCCCchhHHHHHHHHHHh
Q 006997          314 SEAVNLFKRLLKTSVRPNEATLATTLSACAE-------LGSL-------SKGKEIEEYIVLNGLESNRQVQTSLIHMFSK  379 (622)
Q Consensus       314 ~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-------~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  379 (622)
                      ++|..+|++.+... +-+...|..+...+..       .|++       ++|..+++++.+.-.+.+...+..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            56667777776642 2344555555555432       3554       6666666666653113344556666666666


Q ss_pred             cCChHHHHHHhccCCC--C-Chh-HHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHH-hccCchHHH
Q 006997          380 CGRINKAKEVFERVPD--K-DLA-VWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSAC-SHSGMVDDG  453 (622)
Q Consensus       380 ~~~~~~A~~~~~~~~~--~-~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~-~~~g~~~~a  453 (622)
                      .|++++|.++|+++.+  | +.. .|..++..+.+.|++++|..+|+++.+   ..|+ ...|....... ...|++++|
T Consensus       112 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~---~~p~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARE---DARTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHT---STTCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             cCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHh---cCCCCHHHHHHHHHHHHHHcCCHHHH
Confidence            6666666666665543  2 222 555556666666666666666666655   2232 23333222221 124666666


Q ss_pred             HHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCC----CC--cHHhHHHHHHHHHhcCCHHHHHHHHHH
Q 006997          454 LSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPV----EV--QAQVWAPLLSACMKHHNVELGEYAAKN  527 (622)
Q Consensus       454 ~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~  527 (622)
                      ..+|+++.+..  +-+...|..++..+.+.|++++|..+|+++..    +|  ....|..++......|+.+.|..++++
T Consensus       189 ~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~  266 (308)
T 2ond_A          189 FKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            66666655431  22345555555556666666666666655531    22  233555555555556666666666666


Q ss_pred             HHccCCCCC
Q 006997          528 LLTLNPGST  536 (622)
Q Consensus       528 ~~~~~p~~~  536 (622)
                      +++..|+++
T Consensus       267 a~~~~p~~~  275 (308)
T 2ond_A          267 RFTAFREEY  275 (308)
T ss_dssp             HHHHTTTTT
T ss_pred             HHHHccccc
Confidence            666666543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.44  E-value=3.8e-11  Score=113.55  Aligned_cols=213  Identities=10%  Similarity=0.044  Sum_probs=160.8

Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHHH-------hcCCh-------HHHHHHhccCCC---C-ChhHHHHHHHHHHH
Q 006997          349 SKGKEIEEYIVLNGLESNRQVQTSLIHMFS-------KCGRI-------NKAKEVFERVPD---K-DLAVWSAMINGYAI  410 (622)
Q Consensus       349 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~~~~-------~~A~~~~~~~~~---~-~~~~~~~l~~~~~~  410 (622)
                      +.|..+|+++.+.. +.++..|..++..+.       +.|++       ++|..+|++...   | +...|..++..+..
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            56777888877764 566777777777765       34775       888888887654   2 44578888888888


Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCCH-H-HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHH-hcCCh
Q 006997          411 HGMGDQALNLFYKMQHVEGLKPDA-V-VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLG-RAGRF  486 (622)
Q Consensus       411 ~~~~~~a~~~~~~~~~~~~~~p~~-~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~-~~g~~  486 (622)
                      .|++++|..+|+++.+   +.|+. . .|..++..+.+.|++++|..+|+++.+.   .| +...|...+.... ..|++
T Consensus       112 ~~~~~~A~~~~~~al~---~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~---~p~~~~~~~~~a~~~~~~~~~~  185 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLA---IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED---ARTRHHVYVTAALMEYYCSKDK  185 (308)
T ss_dssp             TTCHHHHHHHHHHHHT---SSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS---TTCCTHHHHHHHHHHHHTSCCH
T ss_pred             cCCHHHHHHHHHHHHh---ccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHHHHHcCCH
Confidence            8999999999999887   66753 3 7888888888888999999999888843   33 4455544433322 36889


Q ss_pred             HHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHcc---CCC-CCchHHHHHHHHHhcCChHHHHHHHH
Q 006997          487 DLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTL---NPG-STGNYILMANLFTSAGMWKEAATARG  560 (622)
Q Consensus       487 ~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~  560 (622)
                      ++|.++|+++.  .+.+...|..++..+...|++++|..+|+++++.   .|+ ....|..++..+.+.|+.++|..+++
T Consensus       186 ~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~  265 (308)
T 2ond_A          186 SVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEK  265 (308)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999998875  3445778888888888889999999999999885   453 56678888888888899999999988


Q ss_pred             HhhhCCCc
Q 006997          561 LMDDRRLT  568 (622)
Q Consensus       561 ~~~~~~~~  568 (622)
                      ++.+..+.
T Consensus       266 ~a~~~~p~  273 (308)
T 2ond_A          266 RRFTAFRE  273 (308)
T ss_dssp             HHHHHTTT
T ss_pred             HHHHHccc
Confidence            88776554

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.43  E-value=2.2e-12  Score=129.70  Aligned_cols=179  Identities=12%  Similarity=0.025  Sum_probs=157.5

Q ss_pred             hHHHHHHhccCC---CCChhHHHHHHHHHHHcCCH-HHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHH
Q 006997          383 INKAKEVFERVP---DKDLAVWSAMINGYAIHGMG-DQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFF  457 (622)
Q Consensus       383 ~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~  457 (622)
                      ++++...++...   ..+...+..+...+...|++ ++|++.|+++.+   ..|+ ...+..+..+|...|++++|.+.|
T Consensus        84 ~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~---~~p~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVK---LEPELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHh---hCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            455555555443   23667888889999999999 999999999998   5675 678999999999999999999999


Q ss_pred             HHhHHhcCCCCChhHHHHHHHHHHhc---------CChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhc--------CCH
Q 006997          458 KSMQSNFGIEPSIEHYLCLVDLLGRA---------GRFDLALKTIHEMP--VEVQAQVWAPLLSACMKH--------HNV  518 (622)
Q Consensus       458 ~~~~~~~~~~p~~~~~~~l~~~~~~~---------g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~--------~~~  518 (622)
                      +++.   .+.|+...+..+..+|...         |++++|++.++++.  .+.+...|..++.++...        |++
T Consensus       161 ~~al---~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~  237 (474)
T 4abn_A          161 SGAL---THCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKIS  237 (474)
T ss_dssp             HHHH---TTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHH---hhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchH
Confidence            9999   4578888899999999999         99999999999986  445588899999999998        999


Q ss_pred             HHHHHHHHHHHccCC---CCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          519 ELGEYAAKNLLTLNP---GSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       519 ~~a~~~~~~~~~~~p---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ++|+..++++++++|   +++.++..++.+|...|++++|.+.|++..+..+
T Consensus       238 ~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p  289 (474)
T 4abn_A          238 QQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDP  289 (474)
T ss_dssp             HHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            999999999999999   9999999999999999999999999999987543

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.42  E-value=3e-13  Score=128.60  Aligned_cols=237  Identities=14%  Similarity=0.096  Sum_probs=127.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhC-------CCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHc------C-
Q 006997          297 VFLWTSMIGGYAQLGYPSEAVNLFKRLLKT-------SVRPNEATLATTLSACAELGSLSKGKEIEEYIVLN------G-  362 (622)
Q Consensus       297 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~-  362 (622)
                      ..++..+...+...|++++|...|+++.+.       ........+..+...+...|++++|...++.+.+.      + 
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            456777888888888888888888887762       11223345666666777777777777777766543      1 


Q ss_pred             CCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhc-----CCCCC-HHH
Q 006997          363 LESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVE-----GLKPD-AVV  436 (622)
Q Consensus       363 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~~~p~-~~~  436 (622)
                      .+....++..+...|...                               |++++|...++++.+..     +..|+ ...
T Consensus       107 ~~~~~~~~~~l~~~~~~~-------------------------------g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  155 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKR-------------------------------GKYKEAEPLCKRALEIREKVLGKDHPDVAKQ  155 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTT-------------------------------TCHHHHHHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHc-------------------------------CcHHHHHHHHHHHHHHHHHhcCCCChHHHHH
Confidence            111233444444444444                               44444444444444310     11122 234


Q ss_pred             HHHHHHHHhccCchHHHHHHHHHhHHhc-----CCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-C---------CC
Q 006997          437 YTSILSACSHSGMVDDGLSFFKSMQSNF-----GIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-V---------EV  500 (622)
Q Consensus       437 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~-----~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~---------~~  500 (622)
                      +..+...+...|++++|+.+++++....     +..| ....+..+..+|...|++++|.+.++++. .         .+
T Consensus       156 ~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  235 (311)
T 3nf1_A          156 LNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDD  235 (311)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCc
Confidence            5555556666666666666666554320     0011 23345555666666666666666665543 0         01


Q ss_pred             c-------HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          501 Q-------AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       501 ~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      .       ...+..+...+...+.+.++...++++....|..+.++..++.+|.+.|++++|.+.+++..+
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          236 ENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             --CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            1       111122222333445666666777777777777788888888888888888888888887765

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.42  E-value=3.7e-12  Score=122.39  Aligned_cols=135  Identities=11%  Similarity=0.024  Sum_probs=87.2

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC----HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC----hh
Q 006997          400 VWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD----AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS----IE  471 (622)
Q Consensus       400 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~  471 (622)
                      .+..+...+...|++++|...+++..+...-.++    ..++..+...+...|++++|...+++......-.++    ..
T Consensus       185 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  264 (338)
T 3ro2_A          185 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ  264 (338)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHH
Confidence            4455556666667777777666665541111111    235666777777778888888877776543111111    45


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC-C-----CC--cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC
Q 006997          472 HYLCLVDLLGRAGRFDLALKTIHEMP-V-----EV--QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG  534 (622)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~-----~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  534 (622)
                      .+..+...|...|++++|...++++. .     .+  ...++..+...+...|++++|...+++++++.+.
T Consensus       265 ~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  335 (338)
T 3ro2_A          265 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE  335 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            66777788888888888888887764 1     11  1346777888899999999999999999987764

>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=99.42  E-value=5e-12  Score=113.99  Aligned_cols=163  Identities=12%  Similarity=-0.012  Sum_probs=88.8

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHH
Q 006997          399 AVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLV  477 (622)
Q Consensus       399 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~  477 (622)
                      ..+......+...|++++|+..|++..+ ..-.++...+..+..++...|++++|+..+++....   .| +...+..+.
T Consensus         8 ~~~~~~g~~~~~~~~~~~A~~~~~~al~-~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~l~   83 (228)
T 4i17_A            8 NQLKNEGNDALNAKNYAVAFEKYSEYLK-LTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKK---NYNLANAYIGKS   83 (228)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH-HTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHh-ccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHh---CcchHHHHHHHH
Confidence            3444444555555555555555555554 221134444444555555555555555555555522   33 234455555


Q ss_pred             HHHHhcCChHHHHHHHHhCC-CCC-cH-------HhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC--CCchHHHHHHHH
Q 006997          478 DLLGRAGRFDLALKTIHEMP-VEV-QA-------QVWAPLLSACMKHHNVELGEYAAKNLLTLNPG--STGNYILMANLF  546 (622)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~-~~~-~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~  546 (622)
                      .+|...|++++|++.+++.. ..| +.       ..|..++..+...|++++|+..++++++++|+  ++.++..++.+|
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~  163 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVLF  163 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHHH
Confidence            55555555555555555543 122 22       23445555555556666666666666666665  555566666666


Q ss_pred             HhcCCh---------------------------HHHHHHHHHhhhC
Q 006997          547 TSAGMW---------------------------KEAATARGLMDDR  565 (622)
Q Consensus       547 ~~~g~~---------------------------~~A~~~~~~~~~~  565 (622)
                      ...|+.                           ++|...+++..+.
T Consensus       164 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~l  209 (228)
T 4i17_A          164 YNNGADVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGEAVTL  209 (228)
T ss_dssp             HHHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            555555                           8999999988774

>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=99.42  E-value=9.2e-12  Score=107.98  Aligned_cols=162  Identities=17%  Similarity=0.085  Sum_probs=123.2

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 006997          400 VWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVD  478 (622)
Q Consensus       400 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  478 (622)
                      .+..+...+...|++++|...++++.+   ..| +...+..+...+...|++++|...++++.+.  .+.+...+..++.
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~   84 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYD---ADAFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGL   84 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCC---TTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHH---hCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHH
Confidence            344555666677777777777777665   333 3556667777777777777777777777654  1335666777777


Q ss_pred             HHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHH
Q 006997          479 LLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAA  556 (622)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  556 (622)
                      .+...|++++|.+.++++.  .+.+...+..++..+...|++++|...++++++..|+++.++..++.++...|++++|.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           85 TYVQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHH
Confidence            7888888888888887765  34556778888888889999999999999999999988999999999999999999999


Q ss_pred             HHHHHhhhCC
Q 006997          557 TARGLMDDRR  566 (622)
Q Consensus       557 ~~~~~~~~~~  566 (622)
                      +.++++.+..
T Consensus       165 ~~~~~~~~~~  174 (186)
T 3as5_A          165 PHFKKANELD  174 (186)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHcC
Confidence            9999887643

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.41  E-value=1.1e-10  Score=113.90  Aligned_cols=261  Identities=13%  Similarity=0.010  Sum_probs=168.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHH----HHHHHHHHHhccCChHHHHHHHHHHHHcCCC-Cc----hhHHHHH
Q 006997          303 MIGGYAQLGYPSEAVNLFKRLLKTSVRPNEA----TLATTLSACAELGSLSKGKEIEEYIVLNGLE-SN----RQVQTSL  373 (622)
Q Consensus       303 l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~l  373 (622)
                      ....+...|++++|...+++........+..    .+..+...+...|+++.|...+++....... .+    ..++..+
T Consensus        20 ~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   99 (373)
T 1hz4_A           20 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   99 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            3344556677777777776666543222221    3344445566667777777776666543100 11    1234556


Q ss_pred             HHHHHhcCChHHHHHHhccCCC-------C----ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCC--C--CHHHHH
Q 006997          374 IHMFSKCGRINKAKEVFERVPD-------K----DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLK--P--DAVVYT  438 (622)
Q Consensus       374 ~~~~~~~~~~~~A~~~~~~~~~-------~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--p--~~~~~~  438 (622)
                      ...+...|++++|...+++...       +    ....+..+...+...|++++|...+++..+ ....  +  ...++.
T Consensus       100 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~-~~~~~~~~~~~~~~~  178 (373)
T 1hz4_A          100 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIE-VLSSYQPQQQLQCLA  178 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-HTTTSCGGGGHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH-HhhccCcHHHHHHHH
Confidence            6677777777777777765432       1    123455567778888999999988888776 2211  1  124567


Q ss_pred             HHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHH-----HHHHHHHhcCChHHHHHHHHhCC-CCCc-----HHhHHH
Q 006997          439 SILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYL-----CLVDLLGRAGRFDLALKTIHEMP-VEVQ-----AQVWAP  507 (622)
Q Consensus       439 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~~-~~~~-----~~~~~~  507 (622)
                      .+...+...|++++|...+++......-......+.     ..+..+...|++++|...+++.. ..|.     ...+..
T Consensus       179 ~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~  258 (373)
T 1hz4_A          179 MLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRN  258 (373)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHH
Confidence            777888889999999999988765421111111222     23345778899999999998876 2221     224567


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHccCCCC------CchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          508 LLSACMKHHNVELGEYAAKNLLTLNPGS------TGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       508 l~~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      +...+...|++++|...++++++..+..      ..++..++.++...|+.++|...+++...
T Consensus       259 la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          259 IARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            7788888999999999999988754321      23677788999999999999999998865

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.40  E-value=2e-11  Score=119.68  Aligned_cols=231  Identities=9%  Similarity=-0.025  Sum_probs=166.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcC--CC----CchhHHH
Q 006997          303 MIGGYAQLGYPSEAVNLFKRLLKT----SVRP-NEATLATTLSACAELGSLSKGKEIEEYIVLNG--LE----SNRQVQT  371 (622)
Q Consensus       303 l~~~~~~~~~~~~a~~~~~~m~~~----~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~----~~~~~~~  371 (622)
                      ....+...|++++|+..|++..+.    +-.+ ...++..+...+...|+++.|...++.+.+..  ..    ....+++
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            455666777777777777777653    1111 22456666777777788888877777765531  11    1235667


Q ss_pred             HHHHHHHhcCChHHHHHHhccCCC-----CC----hhHHHHHHHHHHHcCCHHHHHHHHHHhHHh---cCCCCC-HHHHH
Q 006997          372 SLIHMFSKCGRINKAKEVFERVPD-----KD----LAVWSAMINGYAIHGMGDQALNLFYKMQHV---EGLKPD-AVVYT  438 (622)
Q Consensus       372 ~l~~~~~~~~~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~p~-~~~~~  438 (622)
                      .+..+|...|++++|.+.|++..+     ++    ..++..+...|...|++++|++.+++..+.   .+..|+ ..++.
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            777888888888888888876652     11    136777888999999999999999988751   133243 56788


Q ss_pred             HHHHHHhccCchHHHHHHHHHhHHhcCCCCC---hhHHHHHHHHHHhcCC---hHHHHHHHHhCCCCCc-HHhHHHHHHH
Q 006997          439 SILSACSHSGMVDDGLSFFKSMQSNFGIEPS---IEHYLCLVDLLGRAGR---FDLALKTIHEMPVEVQ-AQVWAPLLSA  511 (622)
Q Consensus       439 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~-~~~~~~l~~~  511 (622)
                      .+..++...|++++|...+++......-..+   ...+..+...|...|+   +++|+.++++....|+ ...+..++..
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~  348 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDVAKY  348 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            8999999999999999999987753111112   2335678888999999   9999999999874444 4467789999


Q ss_pred             HHhcCCHHHHHHHHHHHHccCC
Q 006997          512 CMKHHNVELGEYAAKNLLTLNP  533 (622)
Q Consensus       512 ~~~~~~~~~a~~~~~~~~~~~p  533 (622)
                      +...|++++|...+++++++..
T Consensus       349 y~~~g~~~~A~~~~~~al~~~~  370 (383)
T 3ulq_A          349 YHERKNFQKASAYFLKVEQVRQ  370 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHT
T ss_pred             HHHCCCHHHHHHHHHHHHHHHH
Confidence            9999999999999999987543

>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=99.38  E-value=1.8e-11  Score=110.23  Aligned_cols=205  Identities=9%  Similarity=0.023  Sum_probs=152.4

Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC--C-ChhHHHHHHH
Q 006997          330 PNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD--K-DLAVWSAMIN  406 (622)
Q Consensus       330 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~  406 (622)
                      .++..+......+...|++++|...|+.+.+...+++...+..+..++...|++++|.+.|++..+  | +...|..+..
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            456777788888889999999999999998887546677777788888899999999998887763  2 4567778888


Q ss_pred             HHHHcCCHHHHHHHHHHhHHhcCCCCC-H-------HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC---hhHHHH
Q 006997          407 GYAIHGMGDQALNLFYKMQHVEGLKPD-A-------VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS---IEHYLC  475 (622)
Q Consensus       407 ~~~~~~~~~~a~~~~~~~~~~~~~~p~-~-------~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~  475 (622)
                      .|...|++++|+..+++..+   ..|+ .       ..|..+...+...|++++|+..|+++.   .+.|+   ...+..
T Consensus        85 ~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al---~~~p~~~~~~~~~~  158 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIK---AVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHAT---DVTSKKWKTDALYS  158 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSSCHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHH---HCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHH---hcCCCcccHHHHHH
Confidence            88899999999999998887   5554 3       346777778888899999999998887   34564   466777


Q ss_pred             HHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHH
Q 006997          476 LVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFT  547 (622)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (622)
                      +..+|...|+.     +++++.  ...+...+....  ....+.+++|+..++++++++|+++.+...+..+..
T Consensus       159 l~~~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~~  225 (228)
T 4i17_A          159 LGVLFYNNGAD-----VLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVKA  225 (228)
T ss_dssp             HHHHHHHHHHH-----HHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHH-----HHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHH
Confidence            77777665543     222222  122233333322  334567899999999999999999988888877654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.38  E-value=2.1e-12  Score=122.68  Aligned_cols=240  Identities=12%  Similarity=0.046  Sum_probs=155.9

Q ss_pred             CCchhHHHHHHHHHhcCCHHHHHHHHhhcCC--------C---CHHHHHHHHHHHHhcCChHHHHHHHHHHHhC------
Q 006997          264 NEDPLDNLLVSMYTKCGDLELARRVFDAVLE--------K---SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKT------  326 (622)
Q Consensus       264 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~------  326 (622)
                      ....++..+...+...|++++|..+|+++.+        .   ...++..+...|...|++++|...+++....      
T Consensus        25 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  104 (311)
T 3nf1_A           25 ARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLG  104 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhC
Confidence            3456788899999999999999999988754        2   2457888999999999999999999998764      


Q ss_pred             CCCC-CHHHHHHHHHHHhccCChHHHHHHHHHHHHcC------CCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChh
Q 006997          327 SVRP-NEATLATTLSACAELGSLSKGKEIEEYIVLNG------LESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLA  399 (622)
Q Consensus       327 ~~~~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  399 (622)
                      +-.| ....+..+...+...|++++|...++.+.+..      ..+.                              ...
T Consensus       105 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~------------------------------~~~  154 (311)
T 3nf1_A          105 KDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPD------------------------------VAK  154 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHH------------------------------HHH
T ss_pred             CCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChH------------------------------HHH
Confidence            2222 34577888889999999999999998886541      1111                              122


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhHHhc------CCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhc------CC
Q 006997          400 VWSAMINGYAIHGMGDQALNLFYKMQHVE------GLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNF------GI  466 (622)
Q Consensus       400 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~------~~  466 (622)
                      .+..+...+...|++++|++.++++.+ .      +..|+ ..++..+..++...|++++|...++++....      ..
T Consensus       155 ~~~~la~~~~~~~~~~~A~~~~~~a~~-~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  233 (311)
T 3nf1_A          155 QLNNLALLCQNQGKYEEVEYYYQRALE-IYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSV  233 (311)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHH-HHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH-HHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCC
Confidence            344445555555666666666665554 1      11232 3456667777777788888877777766420      11


Q ss_pred             CCC-------hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC
Q 006997          467 EPS-------IEHYLCLVDLLGRAGRFDLALKTIHEMP-VEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG  534 (622)
Q Consensus       467 ~p~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  534 (622)
                      .+.       ...+..+...+...+.+.+|...++... ..| ...++..++.++...|++++|...+++++++.|+
T Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          234 DDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             ----CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             CcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            111       1122233334455666777777777765 333 3667889999999999999999999999998774

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.35  E-value=5.3e-11  Score=109.71  Aligned_cols=203  Identities=9%  Similarity=-0.003  Sum_probs=122.6

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHhccCCC--C-C---hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC---C-HH
Q 006997          366 NRQVQTSLIHMFSKCGRINKAKEVFERVPD--K-D---LAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP---D-AV  435 (622)
Q Consensus       366 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p---~-~~  435 (622)
                      +...+..+...+.+.|++++|...|+++.+  | +   ...+..+..+|...|++++|+..|++..+   ..|   . ..
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~---~~p~~~~~~~   90 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQ---IYQIDPRVPQ   90 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCTTHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHH---HCCCCchhHH
Confidence            344444455555555666666666555542  2 1   23444555555555666666666665555   222   1 22


Q ss_pred             HHHHHHHHHhc--------cCchHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHH
Q 006997          436 VYTSILSACSH--------SGMVDDGLSFFKSMQSNFGIEPS-IEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWA  506 (622)
Q Consensus       436 ~~~~ll~~~~~--------~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  506 (622)
                      .+..+..++..        .|++++|+..|+++...   .|+ ......+.......++.               ...+.
T Consensus        91 a~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~p~~~~~~~a~~~~~~~~~~~---------------~~~~~  152 (261)
T 3qky_A           91 AEYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR---YPNHELVDDATQKIRELRAKL---------------ARKQY  152 (261)
T ss_dssp             HHHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH---CTTCTTHHHHHHHHHHHHHHH---------------HHHHH
T ss_pred             HHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH---CcCchhHHHHHHHHHHHHHHH---------------HHHHH
Confidence            34444445555        55555566555555543   232 11221111111000000               11236


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHccCCCCC---chHHHHHHHHHhc----------CChHHHHHHHHHhhhCCCccCCCc
Q 006997          507 PLLSACMKHHNVELGEYAAKNLLTLNPGST---GNYILMANLFTSA----------GMWKEAATARGLMDDRRLTKEPGW  573 (622)
Q Consensus       507 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~~~~~~~  573 (622)
                      .++..+...|++++|+..++++++..|+++   ..+..++.+|...          |++++|...++++.+..+      
T Consensus       153 ~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p------  226 (261)
T 3qky_A          153 EAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFP------  226 (261)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCT------
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCC------
Confidence            678889999999999999999999999854   5789999999977          999999999999987543      


Q ss_pred             eEEEECCeEEEEEecCCCCcchHHHHHHHHHHHHHHHHc
Q 006997          574 SQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLLEA  612 (622)
Q Consensus       574 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  612 (622)
                                       .+|...++...+..+...+.+.
T Consensus       227 -----------------~~~~~~~a~~~l~~~~~~~~~~  248 (261)
T 3qky_A          227 -----------------DSPLLRTAEELYTRARQRLTEL  248 (261)
T ss_dssp             -----------------TCTHHHHHHHHHHHHHHHHHHH
T ss_pred             -----------------CChHHHHHHHHHHHHHHHHHHh
Confidence                             2566777887787877777653

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.34  E-value=3.7e-11  Score=117.49  Aligned_cols=195  Identities=12%  Similarity=0.025  Sum_probs=116.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHhccCCC-----C-----ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC----H
Q 006997          369 VQTSLIHMFSKCGRINKAKEVFERVPD-----K-----DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD----A  434 (622)
Q Consensus       369 ~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----~  434 (622)
                      ++..+...|...|+++.|...+.+..+     +     ...+++.+...|...|++++|++.|++..+...-.++    .
T Consensus       143 ~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  222 (378)
T 3q15_A          143 FHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIA  222 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            344444455555555544444443321     1     1234555666677777777777777666541111112    2


Q ss_pred             HHHHHHHHHHhccCchHHHHHHHHHhHHhcC--CCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC------CCCc-HHh
Q 006997          435 VVYTSILSACSHSGMVDDGLSFFKSMQSNFG--IEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP------VEVQ-AQV  504 (622)
Q Consensus       435 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~--~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~------~~~~-~~~  504 (622)
                      .++..+..+|...|++++|+..+++......  ..| ...++..+...|.+.|++++|...+++..      ..|. ...
T Consensus       223 ~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  302 (378)
T 3q15_A          223 ISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKEL  302 (378)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            3566677777778888888888777764100  122 25566677777888888888888877653      1222 233


Q ss_pred             HHHHHHHHHhcCC---HHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          505 WAPLLSACMKHHN---VELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       505 ~~~l~~~~~~~~~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      +..+...+...++   +++|...+++. ...|.....+..++.+|.+.|++++|...|++..+
T Consensus       303 ~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          303 FLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4455555556666   66676666652 22333455677888888888888888888887754

>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=99.31  E-value=1.3e-10  Score=100.67  Aligned_cols=167  Identities=17%  Similarity=0.105  Sum_probs=143.2

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHH
Q 006997          367 RQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILS  442 (622)
Q Consensus       367 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~  442 (622)
                      ...+..+...+...|++++|...|+++.+   .+...+..+...+...|++++|...++++.+   ..| +...+..+..
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~~a~   84 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLA---DAPDNVKVATVLGL   84 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCCCHHHHHHHHH
Confidence            34566778888899999999999998875   3567788888999999999999999999987   345 4678888899


Q ss_pred             HHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHH
Q 006997          443 ACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVEL  520 (622)
Q Consensus       443 ~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~  520 (622)
                      .+...|++++|.+.++++...  .+.+...+..+...+...|++++|.+.++++.  .+.+...+..++..+...|++++
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  162 (186)
T 3as5_A           85 TYVQVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEE  162 (186)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHH
Confidence            999999999999999999865  24467888889999999999999999999876  44557789999999999999999


Q ss_pred             HHHHHHHHHccCCCCCch
Q 006997          521 GEYAAKNLLTLNPGSTGN  538 (622)
Q Consensus       521 a~~~~~~~~~~~p~~~~~  538 (622)
                      |...++++++..|+++..
T Consensus       163 A~~~~~~~~~~~~~~~~~  180 (186)
T 3as5_A          163 ALPHFKKANELDEGASVE  180 (186)
T ss_dssp             HHHHHHHHHHHHHCCCGG
T ss_pred             HHHHHHHHHHcCCCchhh
Confidence            999999999999876644

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.29  E-value=1.1e-09  Score=107.07  Aligned_cols=230  Identities=10%  Similarity=-0.014  Sum_probs=165.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHhccCChHHHHHHHHHHHHcC--CC----CchhHH
Q 006997          302 SMIGGYAQLGYPSEAVNLFKRLLKTSV-RPN----EATLATTLSACAELGSLSKGKEIEEYIVLNG--LE----SNRQVQ  370 (622)
Q Consensus       302 ~l~~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~----~~~~~~  370 (622)
                      .....+...|++++|+..|++..+... .++    ..++..+...+...|+++.|...++.+.+..  ..    ....++
T Consensus       106 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  185 (378)
T 3q15_A          106 FRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSL  185 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHH
Confidence            344556677888888888887765311 122    2456667777788888888888877775531  11    124566


Q ss_pred             HHHHHHHHhcCChHHHHHHhccCCC-----CC----hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhc---CCCCCHHHHH
Q 006997          371 TSLIHMFSKCGRINKAKEVFERVPD-----KD----LAVWSAMINGYAIHGMGDQALNLFYKMQHVE---GLKPDAVVYT  438 (622)
Q Consensus       371 ~~l~~~~~~~~~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~p~~~~~~  438 (622)
                      +.+..+|...|++++|.+.|++..+     ++    ..++..+..+|...|++++|+..+++..+..   +.+....++.
T Consensus       186 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  265 (378)
T 3q15_A          186 FVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLF  265 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHH
Confidence            7778888888888888888876552     12    2467778888999999999999999877511   2222356788


Q ss_pred             HHHHHHhccCchHHHHHHHHHhHHhcCCCCC---hhHHHHHHHHHHhcCC---hHHHHHHHHhCCCCCc-HHhHHHHHHH
Q 006997          439 SILSACSHSGMVDDGLSFFKSMQSNFGIEPS---IEHYLCLVDLLGRAGR---FDLALKTIHEMPVEVQ-AQVWAPLLSA  511 (622)
Q Consensus       439 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~~-~~~~~~l~~~  511 (622)
                      .+..++.+.|++++|...+++......-.++   ...+..+...|...|+   +.+|+..+++....|+ ...+..++..
T Consensus       266 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~  345 (378)
T 3q15_A          266 GLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAV  345 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHH
Confidence            8889999999999999999998865222122   3445666777788888   9999999998764443 4466788889


Q ss_pred             HHhcCCHHHHHHHHHHHHcc
Q 006997          512 CMKHHNVELGEYAAKNLLTL  531 (622)
Q Consensus       512 ~~~~~~~~~a~~~~~~~~~~  531 (622)
                      |...|++++|...++++++.
T Consensus       346 y~~~g~~~~A~~~~~~al~~  365 (378)
T 3q15_A          346 FESSCHFEQAAAFYRKVLKA  365 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH
Confidence            99999999999999998764

>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=99.24  E-value=1.2e-11  Score=102.69  Aligned_cols=140  Identities=11%  Similarity=-0.008  Sum_probs=108.3

Q ss_pred             HHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhc
Q 006997          406 NGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRA  483 (622)
Q Consensus       406 ~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~  483 (622)
                      ..+...|++++|+..+++...   ..|+ ...+..+...|.+.|++++|++.|+++.+.   .| +...|..+..+|.+.
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~---~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~~~~   78 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTP---SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV---QERDPKAHRFLGLLYELE   78 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSC---SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHcChHHHHHHHHHHhcc---cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHc
Confidence            344556777888888877765   4454 345667788888888888888888888854   45 577888888888888


Q ss_pred             CChHHHHHHHHhCC-C-CCcHHhHHHHHHHHHhcCCHHHHHHH-HHHHHccCCCCCchHHHHHHHHHhcCC
Q 006997          484 GRFDLALKTIHEMP-V-EVQAQVWAPLLSACMKHHNVELGEYA-AKNLLTLNPGSTGNYILMANLFTSAGM  551 (622)
Q Consensus       484 g~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~a~~~-~~~~~~~~p~~~~~~~~l~~~~~~~g~  551 (622)
                      |++++|+..|+++. . +.+...|..++..+...|++++|.+. ++++++++|+++.+|...+.++...|+
T Consensus        79 ~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           79 ENTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             CchHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            88888888888876 3 34577888888889899988766554 589999999999999999999888885

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.23  E-value=1.1e-10  Score=109.48  Aligned_cols=203  Identities=7%  Similarity=0.043  Sum_probs=147.1

Q ss_pred             ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC-----CC----hhHHHHHHHHHHHcCCHHHH
Q 006997          347 SLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD-----KD----LAVWSAMINGYAIHGMGDQA  417 (622)
Q Consensus       347 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a  417 (622)
                      ++++|...+..+               ...|...|++++|.+.|.+...     .+    ..+|+.+..+|...|++++|
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               3457778888888888876542     11    35788888999999999999


Q ss_pred             HHHHHHhHHhcCCCCC----HHHHHHHHHHHhcc-CchHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHHhcCChHH
Q 006997          418 LNLFYKMQHVEGLKPD----AVVYTSILSACSHS-GMVDDGLSFFKSMQSNFGIEPS----IEHYLCLVDLLGRAGRFDL  488 (622)
Q Consensus       418 ~~~~~~~~~~~~~~p~----~~~~~~ll~~~~~~-g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~  488 (622)
                      +..+++..+...-..+    ..++..+..+|... |++++|+..|++......-..+    ..++..+...|.+.|++++
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            9999988762111112    34688888999996 9999999999998754211111    3568889999999999999


Q ss_pred             HHHHHHhCC-CCCcH--------HhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCch-----HHHHHHHHH--hcCCh
Q 006997          489 ALKTIHEMP-VEVQA--------QVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGN-----YILMANLFT--SAGMW  552 (622)
Q Consensus       489 A~~~~~~~~-~~~~~--------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~-----~~~l~~~~~--~~g~~  552 (622)
                      |+..++++. ..|+.        ..+..++.++...|++++|+..++++++++|+.+..     +..++..+.  ..+++
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            999999875 33321        156778888999999999999999999999976653     344566664  46789


Q ss_pred             HHHHHHHHHhhh
Q 006997          553 KEAATARGLMDD  564 (622)
Q Consensus       553 ~~A~~~~~~~~~  564 (622)
                      ++|+..|+++..
T Consensus       257 ~~A~~~~~~~~~  268 (292)
T 1qqe_A          257 SEHCKEFDNFMR  268 (292)
T ss_dssp             HHHHHHHTTSSC
T ss_pred             HHHHHHhccCCc
Confidence            999999876644

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.23  E-value=4.1e-10  Score=100.94  Aligned_cols=181  Identities=13%  Similarity=0.010  Sum_probs=108.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHhccCCC--CC----hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCH----HHHH
Q 006997          369 VQTSLIHMFSKCGRINKAKEVFERVPD--KD----LAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDA----VVYT  438 (622)
Q Consensus       369 ~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~----~~~~  438 (622)
                      .+..+...+.+.|++++|...|+++.+  |+    ...+..+..+|...|++++|+..|+++.+   ..|+.    ..+.
T Consensus         6 ~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~---~~P~~~~~~~a~~   82 (225)
T 2yhc_A            6 EIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIR---LNPTHPNIDYVMY   82 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---HCcCCCcHHHHHH
Confidence            344455556666666666666666542  22    13455555666666666666666666665   33432    1233


Q ss_pred             HHHHHHhc------------------cCchHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCCCC
Q 006997          439 SILSACSH------------------SGMVDDGLSFFKSMQSNFGIEPS-IEHYLCLVDLLGRAGRFDLALKTIHEMPVE  499 (622)
Q Consensus       439 ~ll~~~~~------------------~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  499 (622)
                      .+..++..                  .|++++|...|+++.+.   .|+ ...+.+......-.+..             
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~P~~~~a~~a~~~l~~~~~~~-------------  146 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG---YPNSQYTTDATKRLVFLKDRL-------------  146 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT---CTTCTTHHHHHHHHHHHHHHH-------------
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH---CcCChhHHHHHHHHHHHHHHH-------------
Confidence            33333332                  34555555555555532   332 11111111100000000             


Q ss_pred             CcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCC---chHHHHHHHHHhcCChHHHHHHHHHhhhCCCccC
Q 006997          500 VQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGST---GNYILMANLFTSAGMWKEAATARGLMDDRRLTKE  570 (622)
Q Consensus       500 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  570 (622)
                        ......++..+...|++++|+..++++++..|+++   .++..++.+|.+.|++++|.+.++.+...++...
T Consensus       147 --~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~  218 (225)
T 2yhc_A          147 --AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTL  218 (225)
T ss_dssp             --HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCC
T ss_pred             --HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCch
Confidence              01113456678899999999999999999999876   5799999999999999999999999988766443

>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=99.22  E-value=7.8e-11  Score=123.15  Aligned_cols=163  Identities=13%  Similarity=0.146  Sum_probs=130.3

Q ss_pred             CchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHH
Q 006997          365 SNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSI  440 (622)
Q Consensus       365 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~l  440 (622)
                      .+..+++.|..+|.+.|++++|++.|++..+   .+..+|..+..+|.+.|++++|++.|++..+   +.|+ ...|..+
T Consensus         7 ~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~---l~P~~~~a~~nL   83 (723)
T 4gyw_A            7 THADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR---ISPTFADAYSNM   83 (723)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHH
Confidence            3456677777777777777777777776653   3456788888888888888889888888887   6676 5778888


Q ss_pred             HHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-cHHhHHHHHHHHHhcCC
Q 006997          441 LSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEV-QAQVWAPLLSACMKHHN  517 (622)
Q Consensus       441 l~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~  517 (622)
                      ..++...|++++|++.|+++.+.   .| +...+..+..+|.+.|++++|++.|+++. ..| +...+..++.++...|+
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l---~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~  160 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQI---NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCD  160 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhccc
Confidence            88899999999999999888854   55 47788888899999999999999998876 344 47788889999999999


Q ss_pred             HHHHHHHHHHHHccCC
Q 006997          518 VELGEYAAKNLLTLNP  533 (622)
Q Consensus       518 ~~~a~~~~~~~~~~~p  533 (622)
                      +++|.+.+++++++.|
T Consensus       161 ~~~A~~~~~kal~l~~  176 (723)
T 4gyw_A          161 WTDYDERMKKLVSIVA  176 (723)
T ss_dssp             CTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCh
Confidence            9999999998887654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.22  E-value=1.4e-09  Score=99.42  Aligned_cols=243  Identities=10%  Similarity=0.023  Sum_probs=164.8

Q ss_pred             HHHhcCCHHHHHHHHhhcCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHH
Q 006997          275 MYTKCGDLELARRVFDAVLEKSV-FLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKE  353 (622)
Q Consensus       275 ~~~~~~~~~~a~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  353 (622)
                      -..-.|++..++.-...+...+. ..-.-+.++|...|++...         ..-.|....+..+...+ ..+    +..
T Consensus        22 n~fy~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~----a~~   87 (310)
T 3mv2_B           22 QNYYTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK----NIE   87 (310)
T ss_dssp             HHHTTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT----CCH
T ss_pred             HHHHhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc----HHH
Confidence            35556888888776555543332 2333355788888887642         12234443444444433 222    566


Q ss_pred             HHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCC-----ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhc
Q 006997          354 IEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDK-----DLAVWSAMINGYAIHGMGDQALNLFYKMQHVE  428 (622)
Q Consensus       354 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  428 (622)
                      .+++....+ +++......+..++...|++++|++++.+...+     +...+..++..+.+.|+.+.|.+.+++|.+  
T Consensus        88 ~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~--  164 (310)
T 3mv2_B           88 ELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN--  164 (310)
T ss_dssp             HHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--
T ss_pred             HHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--
Confidence            677666554 445555567888888999999999999887432     345677788899999999999999999988  


Q ss_pred             CCCC-----CHHHHHHHHHH--HhccC--chHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCC-
Q 006997          429 GLKP-----DAVVYTSILSA--CSHSG--MVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPV-  498 (622)
Q Consensus       429 ~~~p-----~~~~~~~ll~~--~~~~g--~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  498 (622)
                       ..|     +..+...+..+  ....|  ++.+|..+|+++...   .|+..+-..+..++.+.|++++|.+.++.+.. 
T Consensus       165 -~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~  240 (310)
T 3mv2_B          165 -AIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSD  240 (310)
T ss_dssp             -HSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSH
T ss_pred             -cCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence             677     35566666655  33334  899999999998754   56533434455588899999999999886541 


Q ss_pred             -----------CCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHH
Q 006997          499 -----------EVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYI  540 (622)
Q Consensus       499 -----------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  540 (622)
                                 +.++.++..++......|+  .|.++++++.+..|++|.+..
T Consensus       241 ~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i~d  291 (310)
T 3mv2_B          241 YYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFIKH  291 (310)
T ss_dssp             HHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHHHH
T ss_pred             cccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHHHH
Confidence                       3356667667666666777  888999999999998875543

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.21  E-value=1.2e-10  Score=108.69  Aligned_cols=222  Identities=13%  Similarity=0.130  Sum_probs=153.1

Q ss_pred             hccCChHHHHHHHHHHHHc-------CCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC-------C----ChhHHHHH
Q 006997          343 AELGSLSKGKEIEEYIVLN-------GLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD-------K----DLAVWSAM  404 (622)
Q Consensus       343 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-------~----~~~~~~~l  404 (622)
                      ...|+++.|...+++..+.       ..+....++..+...|...|++++|...|+++.+       +    ...++..+
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            4567777777777766542       2233467788889999999999999999887652       1    23467788


Q ss_pred             HHHHHHcCCHHHHHHHHHHhHHhc-----CCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhc----C-CCC-ChhH
Q 006997          405 INGYAIHGMGDQALNLFYKMQHVE-----GLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNF----G-IEP-SIEH  472 (622)
Q Consensus       405 ~~~~~~~~~~~~a~~~~~~~~~~~-----~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~----~-~~p-~~~~  472 (622)
                      ...|...|++++|...++++.+..     .-.|+ ..++..+...+...|++++|...++++....    + -.| ....
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            889999999999999999987711     11233 4678888889999999999999999887531    1 122 3566


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC----------CCCc-HHhHHHHHHHHHhcC------CHHHHHHHHHHHHccCCCC
Q 006997          473 YLCLVDLLGRAGRFDLALKTIHEMP----------VEVQ-AQVWAPLLSACMKHH------NVELGEYAAKNLLTLNPGS  535 (622)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~----------~~~~-~~~~~~l~~~~~~~~------~~~~a~~~~~~~~~~~p~~  535 (622)
                      +..+..+|...|++++|...++++.          ..+. ...|..+.......+      .+..+...++......|..
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            7788899999999999999998764          1222 233444444433322      2334444444444445666


Q ss_pred             CchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          536 TGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       536 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      +.++..++.+|...|++++|.+.+++..+
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            77899999999999999999999998875

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.20  E-value=8.6e-09  Score=100.48  Aligned_cols=157  Identities=14%  Similarity=-0.040  Sum_probs=72.4

Q ss_pred             HHHHcCCChhHHHHHHHHHHHCCCCCCHh----HHHHHHHHHhccCChHHHHHHHHHHHHhCC-CCC----chhHHHHHH
Q 006997          204 GGYVNVGNVNEAFGLCNQMRRMSVTPDLV----VFLNLILGCAQVGNLFLALSMHSLLLKSGY-NNE----DPLDNLLVS  274 (622)
Q Consensus       204 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~----~~~~~~l~~  274 (622)
                      ..+...|++++|...+++........+..    .+..+...+...|+++.|...+++.....- ..+    ..++..+..
T Consensus        22 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  101 (373)
T 1hz4_A           22 QVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE  101 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            34445666666666666655532111111    233444445555666666666555543210 011    112333444


Q ss_pred             HHHhcCCHHHHHHHHhhcCC----------C-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCC--C--CHHHHHHHH
Q 006997          275 MYTKCGDLELARRVFDAVLE----------K-SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVR--P--NEATLATTL  339 (622)
Q Consensus       275 ~~~~~~~~~~a~~~~~~~~~----------~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~--~--~~~~~~~ll  339 (622)
                      .+...|++++|...+++...          + ....+..+...+...|++++|...+++.......  +  ...++..+.
T Consensus       102 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  181 (373)
T 1hz4_A          102 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  181 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHH
Confidence            45555555555555544321          0 1123444555555556666666655555432111  0  122344444


Q ss_pred             HHHhccCChHHHHHHHHHHHH
Q 006997          340 SACAELGSLSKGKEIEEYIVL  360 (622)
Q Consensus       340 ~~~~~~~~~~~a~~~~~~~~~  360 (622)
                      ..+...|++++|...++....
T Consensus       182 ~~~~~~g~~~~A~~~l~~a~~  202 (373)
T 1hz4_A          182 QCSLARGDLDNARSQLNRLEN  202 (373)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            455555555555555555543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.19  E-value=2.3e-10  Score=107.12  Aligned_cols=222  Identities=9%  Similarity=-0.028  Sum_probs=140.3

Q ss_pred             CHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHhccCChHHHHHHH
Q 006997          281 DLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKT----SVRPN-EATLATTLSACAELGSLSKGKEIE  355 (622)
Q Consensus       281 ~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~  355 (622)
                      ++++|...|.+.           +..|...|++++|+..|.+..+.    |-.++ ..+|..+...|...|++++|...+
T Consensus        32 ~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~  100 (292)
T 1qqe_A           32 KFEEAADLCVQA-----------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (292)
T ss_dssp             HHHHHHHHHHHH-----------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            478887776653           66788888999888888877653    21111 346666777777777777777777


Q ss_pred             HHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHc-CCHHHHHHHHHHhHHhcCCCCC-
Q 006997          356 EYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIH-GMGDQALNLFYKMQHVEGLKPD-  433 (622)
Q Consensus       356 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~p~-  433 (622)
                      +.+.+.               +...|+...+           ..+++.+...|... |++++|+..|++..+   +.|+ 
T Consensus       101 ~~Al~l---------------~~~~g~~~~~-----------a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~---~~~~~  151 (292)
T 1qqe_A          101 ENAIQI---------------FTHRGQFRRG-----------ANFKFELGEILENDLHDYAKAIDCYELAGE---WYAQD  151 (292)
T ss_dssp             HHHHHH---------------HHHTTCHHHH-----------HHHHHHHHHHHHHTTCCHHHHHHHHHHHHH---HHHHT
T ss_pred             HHHHHH---------------HHHcCCHHHH-----------HHHHHHHHHHHHHhhcCHHHHHHHHHHHHH---HHHhC
Confidence            666542               1122222222           12455666777775 888888888887766   2221 


Q ss_pred             ------HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCCh-----hHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc
Q 006997          434 ------AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSI-----EHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ  501 (622)
Q Consensus       434 ------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~  501 (622)
                            ..++..+...+...|++++|+..|+++.....-.+..     ..+..+..++...|++++|+..+++.. ..|+
T Consensus       152 ~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~  231 (292)
T 1qqe_A          152 QSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPN  231 (292)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---
T ss_pred             CChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence                  2457777888888888888888888887541111111     146667778888888888888888875 3443


Q ss_pred             HH------hHHHHHHHHH--hcCCHHHHHHHHHHHHccCCCCCchHHHH
Q 006997          502 AQ------VWAPLLSACM--KHHNVELGEYAAKNLLTLNPGSTGNYILM  542 (622)
Q Consensus       502 ~~------~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  542 (622)
                      ..      .+..++.++.  ..+++++|+..|++++.++|.....+..+
T Consensus       232 ~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~~~~~~~  280 (292)
T 1qqe_A          232 FADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKITILNKI  280 (292)
T ss_dssp             ------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHHHHHHHH
Confidence            21      2344555554  34678888888888888888554444433

>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=99.18  E-value=5.5e-11  Score=98.67  Aligned_cols=122  Identities=15%  Similarity=0.039  Sum_probs=103.6

Q ss_pred             HHHHHhccCchHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcC
Q 006997          440 ILSACSHSGMVDDGLSFFKSMQSNFGIEPS-IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHH  516 (622)
Q Consensus       440 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~  516 (622)
                      |...+...|++++|+..++...   ...|+ ...+..+...|.+.|++++|++.|+++.  .+.+..+|..++.++...|
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~---~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGST---PSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHS---CSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHcChHHHHHHHHHHhc---ccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            4556778899999999999877   33553 5556678999999999999999999987  4556889999999999999


Q ss_pred             CHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHH-HHHhhh
Q 006997          517 NVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATA-RGLMDD  564 (622)
Q Consensus       517 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~  564 (622)
                      ++++|+..|+++++++|+++.++..++.+|.+.|++++|.+. +++..+
T Consensus        80 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~  128 (150)
T 4ga2_A           80 NTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK  128 (150)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999887765 587766

>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=99.17  E-value=1.5e-10  Score=121.91  Aligned_cols=167  Identities=11%  Similarity=-0.067  Sum_probs=115.9

Q ss_pred             HhcCChHHHHHHhccCC-----------CCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHh
Q 006997          378 SKCGRINKAKEVFERVP-----------DKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACS  445 (622)
Q Consensus       378 ~~~~~~~~A~~~~~~~~-----------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~  445 (622)
                      ...|++++|.+.|++..           ..+...+..+...+...|++++|+..|+++.+   ..|+ ...+..+..++.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~---~~p~~~~a~~~lg~~~~  478 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAE---RVGWRWRLVWYRAVAEL  478 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HHCCCHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhc---cCcchHHHHHHHHHHHH
Confidence            55677777777776654           23445666677777777777777777777776   4454 456777777777


Q ss_pred             ccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHH
Q 006997          446 HSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGE  522 (622)
Q Consensus       446 ~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~  522 (622)
                      ..|++++|+..|+++.+.   .| +...+..+..+|.+.|++++ ++.|+++.  .+.+...|..++.++...|++++|+
T Consensus       479 ~~g~~~~A~~~~~~al~l---~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~  554 (681)
T 2pzi_A          479 LTGDYDSATKHFTEVLDT---FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAV  554 (681)
T ss_dssp             HHTCHHHHHHHHHHHHHH---STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHH
Confidence            777777777777777744   44 46667777777777777777 77777765  3334667777777777778888888


Q ss_pred             HHHHHHHccCCCCCchHHHHHHHHHhcCC
Q 006997          523 YAAKNLLTLNPGSTGNYILMANLFTSAGM  551 (622)
Q Consensus       523 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  551 (622)
                      ..|+++++++|+++.++..++.++...|+
T Consensus       555 ~~~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          555 RTLDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HHHHhhcccCcccHHHHHHHHHHHHccCC
Confidence            88888777777777777777777766544

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.17  E-value=3.6e-10  Score=105.36  Aligned_cols=173  Identities=8%  Similarity=-0.047  Sum_probs=139.9

Q ss_pred             HHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhc
Q 006997          386 AKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNF  464 (622)
Q Consensus       386 A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  464 (622)
                      ....+......+...+..+...+...|++++|...|+++.+   ..|+ ...+..+..++...|++++|...++++... 
T Consensus       105 l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~-  180 (287)
T 3qou_A          105 IRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQ---LSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ-  180 (287)
T ss_dssp             HHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG-
T ss_pred             HHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHH---hCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh-
Confidence            33444444444555666777888899999999999999988   6675 567888899999999999999999988744 


Q ss_pred             CCCCChhHHHHH-HHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC--CchH
Q 006997          465 GIEPSIEHYLCL-VDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS--TGNY  539 (622)
Q Consensus       465 ~~~p~~~~~~~l-~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~--~~~~  539 (622)
                        .|+....... ...+.+.++.++|+..+++..  .+.+...+..+...+...|++++|+..++++++.+|++  +.++
T Consensus       181 --~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~  258 (287)
T 3qou_A          181 --DQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTR  258 (287)
T ss_dssp             --GCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHH
T ss_pred             --hcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHH
Confidence              5665443333 334677788888999998876  45568889999999999999999999999999999987  8899


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          540 ILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       540 ~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ..++.+|...|+.++|...+++...
T Consensus       259 ~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          259 XTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            9999999999999999999987654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.17  E-value=2.3e-09  Score=97.93  Aligned_cols=240  Identities=11%  Similarity=0.022  Sum_probs=167.4

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChH
Q 006997          305 GGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRIN  384 (622)
Q Consensus       305 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  384 (622)
                      +-..-.|++..++.-..++..   ........-+.+++...|++...         ....|....+..+.. |...+   
T Consensus        21 kn~fy~G~yq~~i~e~~~~~~---~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~-~~~~~---   84 (310)
T 3mv2_B           21 KQNYYTGNFVQCLQEIEKFSK---VTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQ-FLDTK---   84 (310)
T ss_dssp             HHHHTTTCHHHHTHHHHTSSC---CCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHH-HHTTT---
T ss_pred             HHHHHhhHHHHHHHHHHhcCc---cchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHH-Hhccc---
Confidence            445567888888874433221   22223333455777777776531         112233334444433 33333   


Q ss_pred             HHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHh
Q 006997          385 KAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSM  460 (622)
Q Consensus       385 ~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~  460 (622)
                       |...|++...   ++..++..+..++...|++++|++++.+... .+-.++ ...+..++..+.+.|+.+.|.+.+++|
T Consensus        85 -a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~-~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 -NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGID-NDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             -CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT-SSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             -HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhc-cCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence             6677776553   4555666788899999999999999999876 332223 567888899999999999999999999


Q ss_pred             HHhcCCCC-----ChhHHHHHHHH--HHhcC--ChHHHHHHHHhCC-CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHc
Q 006997          461 QSNFGIEP-----SIEHYLCLVDL--LGRAG--RFDLALKTIHEMP-VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLT  530 (622)
Q Consensus       461 ~~~~~~~p-----~~~~~~~l~~~--~~~~g--~~~~A~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  530 (622)
                      .+.   .|     +..+...|+.+  ....|  ++.+|..+|+++. ..|+..+...++.++.+.|++++|++.++.+.+
T Consensus       163 ~~~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          163 TNA---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HHH---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             Hhc---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            854   67     34555556555  33334  9999999999987 445533334445588899999999999998887


Q ss_pred             c----------CCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          531 L----------NPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       531 ~----------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      +          +|+++.++..++.+....|+  +|.++++++.+..+
T Consensus       240 ~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P  284 (310)
T 3mv2_B          240 DYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDH  284 (310)
T ss_dssp             HHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTC
T ss_pred             hcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCC
Confidence            6          58899999888888888897  89999999987543

>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=99.17  E-value=7.1e-10  Score=90.07  Aligned_cols=128  Identities=17%  Similarity=0.217  Sum_probs=89.6

Q ss_pred             HHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHh
Q 006997          437 YTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMK  514 (622)
Q Consensus       437 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~  514 (622)
                      +..+...+...|++++|..+++++... . +.+...+..++..+...|++++|..+++++.  .+.+...+..++..+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALEL-D-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHc-C-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHH
Confidence            444555556666666666666666543 1 2245555566666666666666666666654  23345567777778888


Q ss_pred             cCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          515 HHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       515 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      .|++++|...++++++..|+++..+..++.++.+.|++++|.+.++++.+.+
T Consensus        82 ~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             hcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            8888888888888888888888888888888888888888888888876643

>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=99.16  E-value=2.4e-10  Score=97.95  Aligned_cols=158  Identities=11%  Similarity=0.008  Sum_probs=111.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHH
Q 006997          401 WSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDL  479 (622)
Q Consensus       401 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  479 (622)
                      +......+...|++++|+..|++..+   ..|+ ...+..+..++...|++++|+..++++...   .|++..+..+...
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~~~~   82 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSD---ELQSRGDVKLAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLIAKL   82 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCH---HHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH---HCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHHHHH
Confidence            34445566677777777777777665   4454 456666777777777777777777776643   3333332222211


Q ss_pred             -HHhcCChHHHHHHHHhCC-C-CCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC--CchHHHHHHHHHhcCChHH
Q 006997          480 -LGRAGRFDLALKTIHEMP-V-EVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS--TGNYILMANLFTSAGMWKE  554 (622)
Q Consensus       480 -~~~~g~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~  554 (622)
                       +...+...+|+..+++.. . +.+...+..+..++...|++++|+..++++++.+|+.  +.++..++.++...|+.++
T Consensus        83 ~~~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~  162 (176)
T 2r5s_A           83 ELHQQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNA  162 (176)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCH
T ss_pred             HHHhhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCc
Confidence             122233345677777665 3 3457888999999999999999999999999999875  5589999999999999999


Q ss_pred             HHHHHHHhhh
Q 006997          555 AATARGLMDD  564 (622)
Q Consensus       555 A~~~~~~~~~  564 (622)
                      |...|++...
T Consensus       163 A~~~y~~al~  172 (176)
T 2r5s_A          163 IASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998764

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.16  E-value=4.3e-11  Score=98.64  Aligned_cols=102  Identities=8%  Similarity=-0.086  Sum_probs=91.9

Q ss_pred             CCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHH
Q 006997          465 GIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYIL  541 (622)
Q Consensus       465 ~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  541 (622)
                      .+.| +...+..+...+.+.|++++|+..|+++.  .+.+...|..++.++...|++++|+..|+++++++|+++.+|..
T Consensus        30 ~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~  109 (151)
T 3gyz_A           30 AIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFH  109 (151)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHH
Confidence            4456 46677788899999999999999999987  45568899999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          542 MANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       542 l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      ++.+|.+.|++++|...|++..+..
T Consensus       110 lg~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          110 TGQCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999999998743

>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=99.15  E-value=1.6e-10  Score=95.52  Aligned_cols=107  Identities=11%  Similarity=0.041  Sum_probs=91.5

Q ss_pred             HHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccC
Q 006997          456 FFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLN  532 (622)
Q Consensus       456 ~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  532 (622)
                      .++++.   .+.| +...+..+...+.+.|++++|+..|+++.  .+.+...|..++.++...|++++|+..++++++++
T Consensus         9 ~~~~al---~~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~   85 (148)
T 2vgx_A            9 TIAMLN---EISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD   85 (148)
T ss_dssp             SHHHHT---TCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             hHHHHH---cCCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            344444   3455 45667778888999999999999998876  45568889999999999999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          533 PGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       533 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      |+++.++..++.+|...|++++|.+.|++..+.
T Consensus        86 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           86 IXEPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999999999999999999998774

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.15  E-value=8e-10  Score=101.72  Aligned_cols=203  Identities=11%  Similarity=0.027  Sum_probs=146.4

Q ss_pred             CCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCc---hhHHHHHHHHHHhcCChHHHHHHhccCCC--CC----hhH
Q 006997          330 PNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESN---RQVQTSLIHMFSKCGRINKAKEVFERVPD--KD----LAV  400 (622)
Q Consensus       330 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~----~~~  400 (622)
                      .+...+..+...+...|++++|...|+.+.+.. |.+   ...+..+..+|.+.|++++|...|++..+  |+    ...
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            456677778888999999999999999998875 333   67788899999999999999999998864  32    345


Q ss_pred             HHHHHHHHHH--------cCCHHHHHHHHHHhHHhcCCCCCHH-HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChh
Q 006997          401 WSAMINGYAI--------HGMGDQALNLFYKMQHVEGLKPDAV-VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIE  471 (622)
Q Consensus       401 ~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~  471 (622)
                      +..+..++..        .|++++|+..|+++.+   ..|+.. ....+              ..+..+...     ...
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~---~~p~~~~~~~a~--------------~~~~~~~~~-----~~~  149 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFID---RYPNHELVDDAT--------------QKIRELRAK-----LAR  149 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHH---HCTTCTTHHHHH--------------HHHHHHHHH-----HHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHH---HCcCchhHHHHH--------------HHHHHHHHH-----HHH
Confidence            6677788888        9999999999999998   556532 22111              111111110     012


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC-CCCc----HHhHHHHHHHHHhc----------CCHHHHHHHHHHHHccCCCCC
Q 006997          472 HYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ----AQVWAPLLSACMKH----------HNVELGEYAAKNLLTLNPGST  536 (622)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~----------~~~~~a~~~~~~~~~~~p~~~  536 (622)
                      .+..+...|.+.|++++|+..++++. ..|+    ...+..++.++...          |++++|+..++++++..|+++
T Consensus       150 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~  229 (261)
T 3qky_A          150 KQYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSP  229 (261)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCT
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCCh
Confidence            24557778888888888888888765 2232    44677777777755          899999999999999999886


Q ss_pred             c---hHHHHHHHHHhcCChHHH
Q 006997          537 G---NYILMANLFTSAGMWKEA  555 (622)
Q Consensus       537 ~---~~~~l~~~~~~~g~~~~A  555 (622)
                      .   +...+..++.+.|+++++
T Consensus       230 ~~~~a~~~l~~~~~~~~~~~~~  251 (261)
T 3qky_A          230 LLRTAEELYTRARQRLTELEGD  251 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHHHhhhh
Confidence            4   445556666666665543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.12  E-value=3.5e-10  Score=90.42  Aligned_cols=94  Identities=13%  Similarity=0.074  Sum_probs=57.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHh
Q 006997          471 EHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTS  548 (622)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (622)
                      ..+......|.+.|++++|++.|+++.  .+.+...|..++.++...|++++|+..++++++++|+++.+|..+|.+|..
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~   93 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHH
Confidence            344455555556666666666665554  233455566666666666666666666666666666666666666666666


Q ss_pred             cCChHHHHHHHHHhhh
Q 006997          549 AGMWKEAATARGLMDD  564 (622)
Q Consensus       549 ~g~~~~A~~~~~~~~~  564 (622)
                      .|++++|.+.|++..+
T Consensus        94 ~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           94 MREWSKAQRAYEDALQ  109 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            6666666666666654

>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=99.11  E-value=1.5e-09  Score=101.11  Aligned_cols=132  Identities=7%  Similarity=0.006  Sum_probs=81.6

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhHHhc------CCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhc------C
Q 006997          399 AVWSAMINGYAIHGMGDQALNLFYKMQHVE------GLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNF------G  465 (622)
Q Consensus       399 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~------~  465 (622)
                      .++..+...|...|++++|...++++.+ .      +..|+ ..++..+..++...|++++|...++++....      .
T Consensus       128 ~~~~~la~~~~~~g~~~~A~~~~~~al~-~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~  206 (283)
T 3edt_B          128 KQLNNLALLCQNQGKAEEVEYYYRRALE-IYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGS  206 (283)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHH-HHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH-HHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCC
Confidence            3556666677777777777777777766 2      11333 3567778888888899999988888876431      1


Q ss_pred             CCC-ChhHHHHHHHHHHhcC------ChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHcc
Q 006997          466 IEP-SIEHYLCLVDLLGRAG------RFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTL  531 (622)
Q Consensus       466 ~~p-~~~~~~~l~~~~~~~g------~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  531 (622)
                      ..+ ....+..+...+...+      .+.++...++... ..|+ ..++..++..+...|++++|...++++++.
T Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          207 VNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             CCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             cchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            122 2334444444443333      3445555555554 2233 557888999999999999999999999875

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.09  E-value=2.2e-09  Score=94.65  Aligned_cols=121  Identities=11%  Similarity=-0.033  Sum_probs=53.9

Q ss_pred             HHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcC
Q 006997          440 ILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHH  516 (622)
Q Consensus       440 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~  516 (622)
                      +..++...|++++|+..|++..+.   .| +...+..+..+|...|++++|+..|+++.  .+.+...|..++.++...|
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~  136 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQK---APNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTA  136 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHh
Confidence            444555555555555555555432   23 34444555555555555555555555543  2223444544544443332


Q ss_pred             --CHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          517 --NVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       517 --~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                        +.+.+...++++....| ....+..++.++...|++++|+..|++..+
T Consensus       137 ~~~~~~~~~~~~~~~~~~~-~~~a~~~~g~~~~~~~~~~~A~~~~~~al~  185 (208)
T 3urz_A          137 EQEKKKLETDYKKLSSPTK-MQYARYRDGLSKLFTTRYEKARNSLQKVIL  185 (208)
T ss_dssp             HHHHHHHHHHHC---CCCH-HHHHHHHHHHHHHHHHTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHhCCCc-hhHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence              22333344444332222 112334444555555555555555555543

>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=99.08  E-value=1.3e-09  Score=112.86  Aligned_cols=158  Identities=10%  Similarity=0.078  Sum_probs=125.1

Q ss_pred             cCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHH
Q 006997          380 CGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLS  455 (622)
Q Consensus       380 ~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~  455 (622)
                      .|++++|.+.|++..+   .+...|..+...+...|++++|.+.+++..+   ..|+ ...+..+..++...|++++|.+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLA---LHPGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT---TSTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            4788999999998874   3567888899999999999999999999988   6665 6788889999999999999999


Q ss_pred             HHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhc---CCHHHHHHHHHHHH
Q 006997          456 FFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKH---HNVELGEYAAKNLL  529 (622)
Q Consensus       456 ~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~  529 (622)
                      .+++..+.   .| +...+..+..+|.+.|++++|.+.++++.  .+.+...+..+...+...   |+.++|.+.+++++
T Consensus        79 ~~~~al~~---~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al  155 (568)
T 2vsy_A           79 LLQQASDA---APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAV  155 (568)
T ss_dssp             HHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHH
T ss_pred             HHHHHHhc---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHH
Confidence            99999865   45 57888899999999999999999999886  344577888999999999   99999999999999


Q ss_pred             ccCCCCCchHHHHH
Q 006997          530 TLNPGSTGNYILMA  543 (622)
Q Consensus       530 ~~~p~~~~~~~~l~  543 (622)
                      +.+|++...+..++
T Consensus       156 ~~~p~~~~~~~~l~  169 (568)
T 2vsy_A          156 AQGVGAVEPFAFLS  169 (568)
T ss_dssp             HHTCCCSCHHHHTT
T ss_pred             hcCCcccChHHHhC
Confidence            99999988888776

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.07  E-value=1.3e-09  Score=87.14  Aligned_cols=114  Identities=11%  Similarity=0.087  Sum_probs=99.2

Q ss_pred             CCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhH
Q 006997          430 LKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVW  505 (622)
Q Consensus       430 ~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~  505 (622)
                      +.|+ ...+......|.+.|++++|++.|++..+.   .| +...|..+..+|.+.|++++|+..++++.  .+.+...|
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~   84 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKR---DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGY   84 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHH
Confidence            5665 356778888999999999999999998854   45 67888899999999999999999999886  45557889


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHH
Q 006997          506 APLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLF  546 (622)
Q Consensus       506 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (622)
                      ..++.++...|++++|++.|+++++++|+++.++..++.++
T Consensus        85 ~~lg~~~~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~l  125 (126)
T 4gco_A           85 IRKAACLVAMREWSKAQRAYEDALQVDPSNEEAREGVRNCL  125 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHC
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHhc
Confidence            99999999999999999999999999999999998888764

>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=99.06  E-value=1e-08  Score=90.63  Aligned_cols=162  Identities=10%  Similarity=-0.050  Sum_probs=133.4

Q ss_pred             CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccC----chHHHHHHHHHhHHhcCCCCChh
Q 006997          396 KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSG----MVDDGLSFFKSMQSNFGIEPSIE  471 (622)
Q Consensus       396 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g----~~~~a~~~~~~~~~~~~~~p~~~  471 (622)
                      .++..+..+...|...+++++|++.|++..+ .|   +...+..+...|.. +    ++++|.++|++....    -++.
T Consensus        16 g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~-~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~----g~~~   86 (212)
T 3rjv_A           16 GDRRAQYYLADTWVSSGDYQKAEYWAQKAAA-QG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEA----GSKS   86 (212)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH-TT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHT----TCHH
T ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHH-cC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHC----CCHH
Confidence            4566677777778888899999999999887 43   56677777778877 6    899999999998743    3677


Q ss_pred             HHHHHHHHHHh----cCChHHHHHHHHhCC-CCCc---HHhHHHHHHHHHh----cCCHHHHHHHHHHHHccCCCCCchH
Q 006997          472 HYLCLVDLLGR----AGRFDLALKTIHEMP-VEVQ---AQVWAPLLSACMK----HHNVELGEYAAKNLLTLNPGSTGNY  539 (622)
Q Consensus       472 ~~~~l~~~~~~----~g~~~~A~~~~~~~~-~~~~---~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~  539 (622)
                      .+..|...|..    .+++++|++++++.. ..|.   +..+..|...|..    .++.++|...++++.++ |+++..+
T Consensus        87 a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~a~  165 (212)
T 3rjv_A           87 GEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL-SRTGYAE  165 (212)
T ss_dssp             HHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT-SCTTHHH
T ss_pred             HHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc-CCCHHHH
Confidence            78888888877    889999999999887 3332   7888899999988    88999999999999998 6688899


Q ss_pred             HHHHHHHHhc-C-----ChHHHHHHHHHhhhCCC
Q 006997          540 ILMANLFTSA-G-----MWKEAATARGLMDDRRL  567 (622)
Q Consensus       540 ~~l~~~~~~~-g-----~~~~A~~~~~~~~~~~~  567 (622)
                      ..|+.+|... |     ++++|...|++..+.|.
T Consensus       166 ~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          166 YWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            9999999864 4     99999999999987543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=99.05  E-value=1.4e-09  Score=89.30  Aligned_cols=100  Identities=13%  Similarity=-0.028  Sum_probs=86.7

Q ss_pred             CCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHH
Q 006997          466 IEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILM  542 (622)
Q Consensus       466 ~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  542 (622)
                      +.| +...+..+...+.+.|++++|+..|+++.  .+.+...|..++.++...|++++|+..++++++++|+++..+..+
T Consensus        13 ~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l   92 (142)
T 2xcb_A           13 LSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHA   92 (142)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHH
Confidence            344 34556667788888999999999998876  445677899999999999999999999999999999999999999


Q ss_pred             HHHHHhcCChHHHHHHHHHhhhC
Q 006997          543 ANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       543 ~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      +.+|...|++++|.+.|++..+.
T Consensus        93 g~~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           93 AECHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh
Confidence            99999999999999999998764

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.05  E-value=3.6e-09  Score=93.33  Aligned_cols=178  Identities=8%  Similarity=0.036  Sum_probs=123.5

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCH
Q 006997          335 LATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMG  414 (622)
Q Consensus       335 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~  414 (622)
                      +......+...|++++|...|+.+.+.. |.+...+..     ......          ..........+..+|...|++
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~-----~~~~~~----------~~~~~~~~~~lg~~~~~~g~~   70 (208)
T 3urz_A            7 MLQKVSAAIEAGQNGQAVSYFRQTIALN-IDRTEMYYW-----TNVDKN----------SEISSKLATELALAYKKNRNY   70 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-HHHHHHHHH-----HHSCTT----------SHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHH-----hhhcch----------hhhhHHHHHHHHHHHHHCCCH
Confidence            3344455667778888888887777654 112221111     000000          000122334478889999999


Q ss_pred             HHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCC--hHHHH
Q 006997          415 DQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGR--FDLAL  490 (622)
Q Consensus       415 ~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~--~~~A~  490 (622)
                      ++|+..|++..+   ..|+ ...+..+..++...|++++|+..|+++.+.   .| +...+..+..+|...|.  .+.+.
T Consensus        71 ~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~~~~~~~~~~~  144 (208)
T 3urz_A           71 DKAYLFYKELLQ---KAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQL---EADNLAANIFLGNYYYLTAEQEKKKLE  144 (208)
T ss_dssp             HHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHHhHHHHHHHH
Confidence            999999999998   6675 678899999999999999999999999965   56 57888888888876654  45667


Q ss_pred             HHHHhCC-CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC
Q 006997          491 KTIHEMP-VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG  534 (622)
Q Consensus       491 ~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  534 (622)
                      ..++... ..|....+...+.++...|++++|+..|+++++++|+
T Consensus       145 ~~~~~~~~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~  189 (208)
T 3urz_A          145 TDYKKLSSPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPS  189 (208)
T ss_dssp             HHHC---CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCC
T ss_pred             HHHHHHhCCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            7777766 2233334556677777889999999999999999995

>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=99.03  E-value=9.1e-09  Score=83.38  Aligned_cols=130  Identities=21%  Similarity=0.308  Sum_probs=107.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 006997          400 VWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVD  478 (622)
Q Consensus       400 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  478 (622)
                      .|..+...+...|++++|..+++++.+   ..| +...+..+...+...|++++|...++++... . +.+...+..+..
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~l~~   77 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALE---LDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL-D-PRSAEAWYNLGN   77 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHH---cCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH-C-CCchHHHHHHHH
Confidence            466777888889999999999999887   334 4667788888888999999999999998854 1 345677888889


Q ss_pred             HHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC
Q 006997          479 LLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG  534 (622)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  534 (622)
                      .+...|++++|.++++++.  .+.+...+..++..+...|++++|...++++++.+|+
T Consensus        78 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           78 AYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            9999999999999998876  3445778888999999999999999999999998885

>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=99.02  E-value=2.3e-09  Score=101.14  Aligned_cols=219  Identities=11%  Similarity=0.036  Sum_probs=145.6

Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc-cCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHH
Q 006997          310 LGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAE-LGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKE  388 (622)
Q Consensus       310 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  388 (622)
                      .|++++|.+++++..+...  .         .+.. .++++.|...|..+               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k~~~--~---------~~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLK--T---------SFMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHC--C---------CSSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcc--c---------cccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            4566777777776654311  1         1222 46667666666544               456777888888888


Q ss_pred             HhccCCC-----CC----hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCC--CCC--HHHHHHHHHHHhccCchHHHHH
Q 006997          389 VFERVPD-----KD----LAVWSAMINGYAIHGMGDQALNLFYKMQHVEGL--KPD--AVVYTSILSACSHSGMVDDGLS  455 (622)
Q Consensus       389 ~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~p~--~~~~~~ll~~~~~~g~~~~a~~  455 (622)
                      .|.+...     .+    ..+|+.+...|...|++++|+..|++..+...-  .|.  ..++..+..+|.. |++++|+.
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            8876542     11    246777888888889999999999887762111  111  2467777888888 99999999


Q ss_pred             HHHHhHHhcCCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC-C---CCc----HHhHHHHHHHHHhcCCHHHHHH
Q 006997          456 FFKSMQSNFGIEPS----IEHYLCLVDLLGRAGRFDLALKTIHEMP-V---EVQ----AQVWAPLLSACMKHHNVELGEY  523 (622)
Q Consensus       456 ~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~---~~~----~~~~~~l~~~~~~~~~~~~a~~  523 (622)
                      .|++....+.-..+    ..++..+...|.+.|++++|+..++++. .   .++    ...+..++.++...|++++|..
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~  216 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQK  216 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            99887753211111    4567778888889999999999888775 1   111    2255666667777899999999


Q ss_pred             HHHHHHccCCCCCchH-----HHHHHHHHhcCChHHHHH
Q 006997          524 AAKNLLTLNPGSTGNY-----ILMANLFTSAGMWKEAAT  557 (622)
Q Consensus       524 ~~~~~~~~~p~~~~~~-----~~l~~~~~~~g~~~~A~~  557 (622)
                      .+++++ +.|......     ..++..+ ..|+.+++.+
T Consensus       217 ~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          217 CVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            999998 888766542     2334444 5677766665

>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=99.01  E-value=6.4e-09  Score=92.25  Aligned_cols=124  Identities=14%  Similarity=0.020  Sum_probs=58.9

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh
Q 006997          403 AMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGR  482 (622)
Q Consensus       403 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  482 (622)
                      .+...+...|++++|+..|++.     +.|+...+..+..++...|++++|+..+++.....  +.+...+..+..+|..
T Consensus        11 ~~g~~~~~~~~~~~A~~~~~~a-----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~~lg~~~~~   83 (213)
T 1hh8_A           11 NEGVLAADKKDWKGALDAFSAV-----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD--KHLAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTS-----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHH-----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHH
Confidence            3344445555555555555433     23444455555555555555555555555554320  1234444445555555


Q ss_pred             cCChHHHHHHHHhCC-CCC-c----------------HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCC
Q 006997          483 AGRFDLALKTIHEMP-VEV-Q----------------AQVWAPLLSACMKHHNVELGEYAAKNLLTLNP  533 (622)
Q Consensus       483 ~g~~~~A~~~~~~~~-~~~-~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  533 (622)
                      .|++++|++.++++. ..| +                ...+..++.++...|++++|...+++++++.|
T Consensus        84 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             cccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            555555555554442 111 1                13444444455555555555555555555544

>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=99.01  E-value=2.2e-09  Score=101.21  Aligned_cols=218  Identities=10%  Similarity=-0.015  Sum_probs=143.6

Q ss_pred             cCCHHHHHHHHhhcCCCCHHHHHHHHHHHHh-cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHH
Q 006997          279 CGDLELARRVFDAVLEKSVFLWTSMIGGYAQ-LGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEY  357 (622)
Q Consensus       279 ~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  357 (622)
                      .|++++|.+++++..+...       ..+.+ .++++.|...|.+.               ...|...|++++|...+..
T Consensus         4 ~~~~~eA~~~~~~a~k~~~-------~~~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~   61 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLK-------TSFMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKDAYLQ   61 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-------CCSSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcc-------ccccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHH
Confidence            4667777777776532110       01222 56777777777764               3456778889999888887


Q ss_pred             HHHcCC---C--CchhHHHHHHHHHHhcCChHHHHHHhccCCC-----CC----hhHHHHHHHHHHHcCCHHHHHHHHHH
Q 006997          358 IVLNGL---E--SNRQVQTSLIHMFSKCGRINKAKEVFERVPD-----KD----LAVWSAMINGYAIHGMGDQALNLFYK  423 (622)
Q Consensus       358 ~~~~~~---~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~~  423 (622)
                      +.+...   .  ....+++.+..+|.+.|++++|...|++..+     .+    ..++..+...|.. |++++|+..|++
T Consensus        62 al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~  140 (307)
T 2ifu_A           62 EAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQ  140 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHH
Confidence            765421   1  1135777788888888999999999887652     12    2466777778877 999999999988


Q ss_pred             hHHhcCCCC---C----HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHHhcCChHHHHHH
Q 006997          424 MQHVEGLKP---D----AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS----IEHYLCLVDLLGRAGRFDLALKT  492 (622)
Q Consensus       424 ~~~~~~~~p---~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~  492 (622)
                      ..+   +.|   +    ..++..+...+...|++++|+..|++......-.++    ...+..++.++...|++++|...
T Consensus       141 Al~---~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~  217 (307)
T 2ifu_A          141 AAA---VFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKC  217 (307)
T ss_dssp             HHH---HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHH---HHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            876   222   1    346777888888999999999999888754211111    23556667777888999999999


Q ss_pred             HHhCCCCCc------HHhHHHHHHHHHhcCCHHHHHH
Q 006997          493 IHEMPVEVQ------AQVWAPLLSACMKHHNVELGEY  523 (622)
Q Consensus       493 ~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~  523 (622)
                      +++....|+      ...+..++.++ ..|+.+....
T Consensus       218 ~~~al~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          218 VRESYSIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHTTSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHhCCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            987653332      11234444444 4566655544

>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=99.00  E-value=3.3e-08  Score=92.54  Aligned_cols=161  Identities=8%  Similarity=-0.033  Sum_probs=123.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHH----HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC----hhHHHH
Q 006997          404 MINGYAIHGMGDQALNLFYKMQHVEGLKPDAV----VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS----IEHYLC  475 (622)
Q Consensus       404 l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~----~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~  475 (622)
                      .+..+...|++++|.+++++..+.....|+..    .+..+...+...|++++|+..++++.....-.++    ..+++.
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            46677889999999999999887222223321    2334666777888999999999998863111223    336888


Q ss_pred             HHHHHHhcCChHHHHHHHHhCC-----C---CCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC------CchHH
Q 006997          476 LVDLLGRAGRFDLALKTIHEMP-----V---EVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS------TGNYI  540 (622)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~-----~---~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~  540 (622)
                      +...|...|++++|+..++++.     .   .+. ..++..++..|...|++++|...+++++++.+..      +.++.
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            9999999999999999998875     1   111 3477889999999999999999999999865433      56899


Q ss_pred             HHHHHHHhcCC-hHHHHHHHHHhhh
Q 006997          541 LMANLFTSAGM-WKEAATARGLMDD  564 (622)
Q Consensus       541 ~l~~~~~~~g~-~~~A~~~~~~~~~  564 (622)
                      .+|.+|.+.|+ +++|.+.+++...
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            99999999995 6999999998864

>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=98.97  E-value=2e-08  Score=105.59  Aligned_cols=189  Identities=13%  Similarity=0.106  Sum_probs=147.8

Q ss_pred             hccCChHHHHHHHHHHH--------HcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHc
Q 006997          343 AELGSLSKGKEIEEYIV--------LNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIH  411 (622)
Q Consensus       343 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~  411 (622)
                      ...|++++|.+.++.+.        +.. +.+...+..+...|...|++++|.+.|+++.+   .+...|..+..++...
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            67788999999888887        332 55667888888899999999999999988774   4667888899999999


Q ss_pred             CCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHH
Q 006997          412 GMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLA  489 (622)
Q Consensus       412 ~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A  489 (622)
                      |++++|++.|+++.+   ..|+ ...+..+..++.+.|++++ ++.|+++.+.   .| +...+..+..+|.+.|++++|
T Consensus       481 g~~~~A~~~~~~al~---l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~---~P~~~~a~~~lg~~~~~~g~~~~A  553 (681)
T 2pzi_A          481 GDYDSATKHFTEVLD---TFPGELAPKLALAATAELAGNTDE-HKFYQTVWST---NDGVISAAFGLARARSAEGDRVGA  553 (681)
T ss_dssp             TCHHHHHHHHHHHHH---HSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             CCHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHh---CCchHHHHHHHHHHHHHcCCHHHH
Confidence            999999999999998   6675 5778889999999999999 9999999854   55 578889999999999999999


Q ss_pred             HHHHHhCC-CCCc-HHhHHHHHHHHHhcCC-----HHHHHHHHHHHHccCCCCCchH
Q 006997          490 LKTIHEMP-VEVQ-AQVWAPLLSACMKHHN-----VELGEYAAKNLLTLNPGSTGNY  539 (622)
Q Consensus       490 ~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~-----~~~a~~~~~~~~~~~p~~~~~~  539 (622)
                      ++.++++. ..|+ ...|..+..++...++     .+...+..+....+.++++...
T Consensus       554 ~~~~~~al~l~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~~~~~~~~~  610 (681)
T 2pzi_A          554 VRTLDEVPPTSRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEALPPTEPRVL  610 (681)
T ss_dssp             HHHHHTSCTTSTTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHTSCTTSTTHH
T ss_pred             HHHHHhhcccCcccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhCCCCcHHHH
Confidence            99999987 5555 6678788887766554     3344444444445555555543

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.96  E-value=1.8e-08  Score=93.73  Aligned_cols=133  Identities=13%  Similarity=-0.002  Sum_probs=113.3

Q ss_pred             CC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCcHHhHHH-
Q 006997          432 PD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQAQVWAP-  507 (622)
Q Consensus       432 p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~~-  507 (622)
                      |+ ...+..+...+...|++++|...|+++...   .| +...+..+...|.+.|++++|...++++. ..|+...... 
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQL---SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh---CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHH
Confidence            44 466778888899999999999999999865   55 57888899999999999999999999997 5566443333 


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          508 LLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       508 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ....+...++.+.|+..++++++.+|+++..+..++.+|...|++++|.+.++++.+..+
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p  250 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDL  250 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhccc
Confidence            333466778888999999999999999999999999999999999999999999988544

>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=98.95  E-value=1.4e-08  Score=104.98  Aligned_cols=147  Identities=13%  Similarity=-0.020  Sum_probs=64.7

Q ss_pred             CCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHH
Q 006997          412 GMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLA  489 (622)
Q Consensus       412 ~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A  489 (622)
                      |++++|++.++++.+   ..|+ ...+..+...+...|++++|.+.+++..+   ..| +...+..+..+|...|++++|
T Consensus         3 g~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A   76 (568)
T 2vsy_A            3 ADGPRELLQLRAAVR---HRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLA---LHPGHPEAVARLGRVRWTQQRHAEA   76 (568)
T ss_dssp             ---------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT---TSTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             ccHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            444555555555444   3333 34444455555555555555555555542   233 244444555555555555555


Q ss_pred             HHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhc---CChHHHHHHHHHhhh
Q 006997          490 LKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSA---GMWKEAATARGLMDD  564 (622)
Q Consensus       490 ~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~  564 (622)
                      .+.+++..  .+.+...+..++.++...|++++|.+.++++++++|+++..+..++.++...   |++++|.+.+++..+
T Consensus        77 ~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           77 AVLLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            55555443  2223444555555555555555555555555555555555555555555555   555555555554433

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.93  E-value=1.9e-07  Score=86.37  Aligned_cols=148  Identities=14%  Similarity=0.124  Sum_probs=99.7

Q ss_pred             CCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCchH--HHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCC---
Q 006997          412 GMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGMVD--DGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGR---  485 (622)
Q Consensus       412 ~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~--~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~---  485 (622)
                      +++++++.+++++.+   ..| |..+|..-..++.+.|.++  ++++.++++.+. . +-|...|+.-..++.+.|.   
T Consensus       124 ~~~~~EL~~~~~~l~---~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~-d-~~N~sAW~~R~~ll~~l~~~~~  198 (306)
T 3dra_A          124 FDPYREFDILEAMLS---SDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT-D-LKNNSAWSHRFFLLFSKKHLAT  198 (306)
T ss_dssp             CCTHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHSSGGGCC
T ss_pred             CCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh-C-CCCHHHHHHHHHHHHhccccch
Confidence            566777777777776   444 3556666666666666666  777777777754 1 2255666665556655555   


Q ss_pred             ---hHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCH-HHHHHHHHHHHccC---CCCCchHHHHHHHHHhcCChHHHH
Q 006997          486 ---FDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNV-ELGEYAAKNLLTLN---PGSTGNYILMANLFTSAGMWKEAA  556 (622)
Q Consensus       486 ---~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~A~  556 (622)
                         ++++++.++++.  .+.|...|+.+...+.+.|.. +.....++++++++   |.++.++..++++|.+.|+.++|.
T Consensus       199 ~~~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~  278 (306)
T 3dra_A          199 DNTIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESR  278 (306)
T ss_dssp             HHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hhhHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHH
Confidence               677777777665  445567777777777776663 44556777776665   667777888888888888888888


Q ss_pred             HHHHHhhh
Q 006997          557 TARGLMDD  564 (622)
Q Consensus       557 ~~~~~~~~  564 (622)
                      ++++.+.+
T Consensus       279 ~~~~~l~~  286 (306)
T 3dra_A          279 TVYDLLKS  286 (306)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            88887765

>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=98.91  E-value=1.9e-08  Score=85.98  Aligned_cols=156  Identities=13%  Similarity=0.038  Sum_probs=108.2

Q ss_pred             HHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHH-H
Q 006997          369 VQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSA-C  444 (622)
Q Consensus       369 ~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~-~  444 (622)
                      ....+...+.+.|++++|...|++..+   .+...+..+...+...|++++|+..++++.+   ..|+.......... +
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~---~~p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPL---EYQDNSYKSLIAKLEL   84 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCG---GGCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhh---ccCChHHHHHHHHHHH
Confidence            344566677778888888888887774   3556777777888888888888888888776   44443322222111 1


Q ss_pred             hccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc---HHhHHHHHHHHHhcCCHH
Q 006997          445 SHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ---AQVWAPLLSACMKHHNVE  519 (622)
Q Consensus       445 ~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~---~~~~~~l~~~~~~~~~~~  519 (622)
                      ...+....|+..+++..+.   .| +...+..+..++...|++++|+..++++. ..|+   ...+..++..+...|+.+
T Consensus        85 ~~~~~~~~a~~~~~~al~~---~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~  161 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAA---NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGN  161 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSC
T ss_pred             HhhcccchHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCC
Confidence            1222233467778877754   45 47778888888888888888888888765 4443   457888888888888888


Q ss_pred             HHHHHHHHHHc
Q 006997          520 LGEYAAKNLLT  530 (622)
Q Consensus       520 ~a~~~~~~~~~  530 (622)
                      +|...|++++.
T Consensus       162 ~A~~~y~~al~  172 (176)
T 2r5s_A          162 AIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHHH
T ss_pred             cHHHHHHHHHH
Confidence            88888887764

>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=98.90  E-value=9.6e-09  Score=82.23  Aligned_cols=96  Identities=14%  Similarity=0.024  Sum_probs=82.6

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHH
Q 006997          470 IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFT  547 (622)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (622)
                      ...+..+...+.+.|++++|+..|++..  .+.+...|..++.++...|++++|+..++++++++|+++.++..++.+|.
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            3456667778888888888888888775  34457788889999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHhhhC
Q 006997          548 SAGMWKEAATARGLMDDR  565 (622)
Q Consensus       548 ~~g~~~~A~~~~~~~~~~  565 (622)
                      ..|++++|.+.|++..+.
T Consensus        84 ~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           84 AVKEYASALETLDAARTK  101 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHh
Confidence            999999999999988774

>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=98.89  E-value=2.6e-08  Score=84.16  Aligned_cols=128  Identities=6%  Similarity=-0.018  Sum_probs=103.0

Q ss_pred             HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHH
Q 006997          435 VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSAC  512 (622)
Q Consensus       435 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~  512 (622)
                      ..+..+...+...|++++|...|++....  .+.+...+..+..++...|++++|+..+++..  .+.+...|..++.++
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            34566677777888888888888887754  13357777788888888888888888888775  344577888999999


Q ss_pred             HhcCCHHHHHHHHHHHHccCCCCCchHHHHHH--HHHhcCChHHHHHHHHHhhh
Q 006997          513 MKHHNVELGEYAAKNLLTLNPGSTGNYILMAN--LFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       513 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~--~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ...|++++|...+++++++.|+++..+..++.  .+.+.|++++|.+.+++...
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            99999999999999999999999888855544  48889999999999987754

>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=98.88  E-value=1.1e-08  Score=87.57  Aligned_cols=121  Identities=11%  Similarity=0.058  Sum_probs=91.3

Q ss_pred             hccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHH-HHhcCCH--H
Q 006997          445 SHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSA-CMKHHNV--E  519 (622)
Q Consensus       445 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~-~~~~~~~--~  519 (622)
                      ...|++++|...+++....  -+.+...+..+...|...|++++|+..++++.  .+.+...+..++.+ +...|++  +
T Consensus        21 ~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             C-----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hhccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchH
Confidence            4567777787788777654  13356777778888888888888888888765  33456677777777 7788888  9


Q ss_pred             HHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          520 LGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       520 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      +|+..++++++.+|+++.++..++.+|...|++++|...++++.+..+
T Consensus        99 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  146 (177)
T 2e2e_A           99 QTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNS  146 (177)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCC
Confidence            999999999999998888999999999999999999999998877543

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.87  E-value=3.7e-06  Score=84.27  Aligned_cols=338  Identities=10%  Similarity=-0.022  Sum_probs=195.6

Q ss_pred             CChHHHHHHHhhcCC--CCcchHHHHHHHHHcCCC-hhHHHHHHHHHHHC-CCCC-CHhHHHHHHHHHhc----cCChHH
Q 006997          179 GKVNEARSIFDEIGE--TSIVSWTTIIGGYVNVGN-VNEAFGLCNQMRRM-SVTP-DLVVFLNLILGCAQ----VGNLFL  249 (622)
Q Consensus       179 g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~-~~~p-~~~~~~~ll~~~~~----~~~~~~  249 (622)
                      |+++.+..+|++...  |++..|...+....+.++ .+....+|+..... |..| +...|...+..+..    .++.+.
T Consensus        28 ~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~  107 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEK  107 (493)
T ss_dssp             TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHH
T ss_pred             CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHH
Confidence            789999999998876  788888888877766653 45566777776654 4333 55666666655432    356788


Q ss_pred             HHHHHHHHHHhCCCCCchhHHHHHHHHHh-------------cCCHHHHHHHHhhcC----CCCHHHHHHHHHHHHhcC-
Q 006997          250 ALSMHSLLLKSGYNNEDPLDNLLVSMYTK-------------CGDLELARRVFDAVL----EKSVFLWTSMIGGYAQLG-  311 (622)
Q Consensus       250 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------------~~~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~~-  311 (622)
                      +.++|+..+......-..+|......-..             .+.+..|..+++.+.    ..+...|...+.--...+ 
T Consensus       108 vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~  187 (493)
T 2uy1_A          108 IRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGM  187 (493)
T ss_dssp             HHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTT
T ss_pred             HHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCc
Confidence            88899988874221111222222111110             011222333333221    113345655554432221 


Q ss_pred             -C-----hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHH
Q 006997          312 -Y-----PSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINK  385 (622)
Q Consensus       312 -~-----~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  385 (622)
                       -     .+.+..+|++++... +.+...|...+..+...|+.+.|..+++.+...  |.+...+..    |....+.++
T Consensus       188 ~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~  260 (493)
T 2uy1_A          188 KLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEA  260 (493)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTH
T ss_pred             cCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhH
Confidence             1     345677888887753 345667777777778889999999999999887  444433322    222211111


Q ss_pred             H-HHHhccCC------------CCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhc-cCchH
Q 006997          386 A-KEVFERVP------------DKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSH-SGMVD  451 (622)
Q Consensus       386 A-~~~~~~~~------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~-~g~~~  451 (622)
                      . ..+.+...            ......|...+....+.++.+.|..+|+++ . .. ..+...|......-.. .++.+
T Consensus       261 ~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~-~~-~~~~~v~i~~A~lE~~~~~d~~  337 (493)
T 2uy1_A          261 VYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-G-NE-GVGPHVFIYCAFIEYYATGSRA  337 (493)
T ss_dssp             HHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-T-TS-CCCHHHHHHHHHHHHHHHCCSH
T ss_pred             HHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-h-CC-CCChHHHHHHHHHHHHHCCChH
Confidence            1 11111110            001234556666666677788888888887 3 11 1233344322222122 23688


Q ss_pred             HHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHc
Q 006997          452 DGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLT  530 (622)
Q Consensus       452 ~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  530 (622)
                      .|..+|+...+.++  -++..+...++...+.|+.+.|..+|+++.  .....|...+..-...|+.+.+..+++++.+
T Consensus       338 ~ar~ife~al~~~~--~~~~~~~~yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          338 TPYNIFSSGLLKHP--DSTLLKEEFFLFLLRIGDEENARALFKRLE--KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            88888888876532  234455666777777888888888888874  2466777777777777888888887777764

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.87  E-value=4.4e-08  Score=91.67  Aligned_cols=164  Identities=6%  Similarity=-0.050  Sum_probs=122.2

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCC-CCH----HHHHHHHHHHhccCchHHHHHHHHHhHHhcCC--CCC--h
Q 006997          400 VWSAMINGYAIHGMGDQALNLFYKMQHVEGLK-PDA----VVYTSILSACSHSGMVDDGLSFFKSMQSNFGI--EPS--I  470 (622)
Q Consensus       400 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~--~p~--~  470 (622)
                      .+...+..+...|++++|.+.+++..+ .... ++.    ..+..+...+...|++++|+..+++......-  .+.  .
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELK-KEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH-TCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhc-cccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            344456677888999999999988876 2211 111    12344556677889999999999988743111  111  4


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCC----CCCc-----HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC------C
Q 006997          471 EHYLCLVDLLGRAGRFDLALKTIHEMP----VEVQ-----AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG------S  535 (622)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~------~  535 (622)
                      .+++.+...|...|++++|+..++++.    ..|+     ..++..++..|...|++++|...+++++++.++      -
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~  235 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALI  235 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHH
Confidence            578888999999999999999998764    1122     257889999999999999999999999886542      1


Q ss_pred             CchHHHHHHHHHhcCChHHH-HHHHHHhhh
Q 006997          536 TGNYILMANLFTSAGMWKEA-ATARGLMDD  564 (622)
Q Consensus       536 ~~~~~~l~~~~~~~g~~~~A-~~~~~~~~~  564 (622)
                      +.++..+|.+|.+.|++++| ...+++...
T Consensus       236 ~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            56789999999999999999 787887764

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.87  E-value=2.2e-08  Score=80.83  Aligned_cols=115  Identities=12%  Similarity=0.062  Sum_probs=91.7

Q ss_pred             HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHH
Q 006997          434 AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLS  510 (622)
Q Consensus       434 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~  510 (622)
                      ...+..+...+...|++++|...|+++..   ..| +...+..+..+|...|++++|++.++++.  .+.+...+..++.
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~---~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   92 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIK---RNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHT---TCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            45677777777888888888888887773   244 56777777888888888888888887765  3445677888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCC
Q 006997          511 ACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGM  551 (622)
Q Consensus       511 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  551 (622)
                      ++...|++++|...++++++++|++...+..++.++.+.|+
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            89999999999999999999999888999999999888774

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.87  E-value=5.8e-08  Score=86.78  Aligned_cols=186  Identities=12%  Similarity=0.018  Sum_probs=133.8

Q ss_pred             CHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCC--chhHHHHHHHHHHhcCChHHHHHHhccCCC--CCh-h---HHH
Q 006997          331 NEATLATTLSACAELGSLSKGKEIEEYIVLNGLES--NRQVQTSLIHMFSKCGRINKAKEVFERVPD--KDL-A---VWS  402 (622)
Q Consensus       331 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~-~---~~~  402 (622)
                      +...+..+...+...|++++|...|+.+.+.....  ....+..+..+|.+.|++++|...|+++.+  |+. .   .+.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            34556667778899999999999999998865321  235778889999999999999999998763  332 1   444


Q ss_pred             HHHHHHHH------------------cCCHHHHHHHHHHhHHhcCCCCCHH-HHHHHHHHHhccCchHHHHHHHHHhHHh
Q 006997          403 AMINGYAI------------------HGMGDQALNLFYKMQHVEGLKPDAV-VYTSILSACSHSGMVDDGLSFFKSMQSN  463 (622)
Q Consensus       403 ~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~  463 (622)
                      .+..++..                  .|++++|+..|+++.+   ..|+.. .......          ...+...+.  
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~---~~P~~~~a~~a~~~----------l~~~~~~~~--  147 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVR---GYPNSQYTTDATKR----------LVFLKDRLA--  147 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHT---TCTTCTTHHHHHHH----------HHHHHHHHH--
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHH---HCcCChhHHHHHHH----------HHHHHHHHH--
Confidence            45555554                  5789999999999998   667643 2221111          001111111  


Q ss_pred             cCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc----HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCch
Q 006997          464 FGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ----AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGN  538 (622)
Q Consensus       464 ~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  538 (622)
                             .....+...|.+.|++++|+..++++. ..|+    ...+..++.++.+.|+.++|+..++++....|++...
T Consensus       148 -------~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~~~  220 (225)
T 2yhc_A          148 -------KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTLEH  220 (225)
T ss_dssp             -------HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCCCC
T ss_pred             -------HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCchhh
Confidence                   112346788899999999999999876 3333    2568889999999999999999999999999976554

>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=98.86  E-value=1.6e-08  Score=96.46  Aligned_cols=95  Identities=13%  Similarity=0.024  Sum_probs=83.3

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHH
Q 006997          470 IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFT  547 (622)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (622)
                      ...|..+..+|.+.|++++|+..++++.  .+.+...|..++.++...|++++|+..|+++++++|+++.++..++.++.
T Consensus       196 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  275 (336)
T 1p5q_A          196 LASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQ  275 (336)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Confidence            4677888888999999999999998876  44567889999999999999999999999999999999999999999999


Q ss_pred             hcCChHHH-HHHHHHhhh
Q 006997          548 SAGMWKEA-ATARGLMDD  564 (622)
Q Consensus       548 ~~g~~~~A-~~~~~~~~~  564 (622)
                      +.|++++| ...+++|..
T Consensus       276 ~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          276 RIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            99999999 456666643

>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=98.86  E-value=8.8e-09  Score=95.54  Aligned_cols=190  Identities=9%  Similarity=-0.071  Sum_probs=121.7

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHH
Q 006997          367 RQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILS  442 (622)
Q Consensus       367 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~  442 (622)
                      ...+..+...+.+.|++++|...|++...   .+...|..+..+|...|++++|+..+++..+   ..|+ ...+..+..
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~lg~   80 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALE---LDGQSVKAHFFLGQ   80 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT---SCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH---hCCCCHHHHHHHHH
Confidence            34455556666666666666666665542   2556677777777788888888888888776   5564 566777778


Q ss_pred             HHhccCchHHHHHHHHHhHHhcCCCCCh-hHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHH
Q 006997          443 ACSHSGMVDDGLSFFKSMQSNFGIEPSI-EHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELG  521 (622)
Q Consensus       443 ~~~~~g~~~~a~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  521 (622)
                      ++...|++++|...|+++.+.   .|+. ..+...+....+..+...... .......++......+.. + ..|+.++|
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l---~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l~~-l-~~~~~~~A  154 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSL---AKEQRLNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYLTR-L-IAAERERE  154 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH---HHHTTCCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHHHH-H-HHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh---CccchhhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHHHH-H-HHHHHHHH
Confidence            888888888888888877643   2311 111111111111111111111 222222334443333332 2 36899999


Q ss_pred             HHHHHHHHccCCCCCchHHHHHHHHHhc-CChHHHHHHHHHhhhC
Q 006997          522 EYAAKNLLTLNPGSTGNYILMANLFTSA-GMWKEAATARGLMDDR  565 (622)
Q Consensus       522 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~  565 (622)
                      .+.++++++++|++......+...+.+. +++++|.++|+++.+.
T Consensus       155 ~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          155 LEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            9999999999998888888888888777 7899999999988763

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.83  E-value=5.2e-08  Score=82.13  Aligned_cols=103  Identities=10%  Similarity=0.018  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHH
Q 006997          435 VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSA  511 (622)
Q Consensus       435 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  511 (622)
                      ..+..+...+...|++++|+..|++....   .| +...|..+..+|.+.|++++|+..++++.  .+.+...|..+..+
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~   88 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALSI---APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            34555555555566666666666655533   23 34455555555555555555555555543  22234455555555


Q ss_pred             HHhcCCHHHHHHHHHHHHccCCCCCchHH
Q 006997          512 CMKHHNVELGEYAAKNLLTLNPGSTGNYI  540 (622)
Q Consensus       512 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  540 (622)
                      +...|++++|+..++++++++|+++..+.
T Consensus        89 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~  117 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEAEGNGGSDAM  117 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHSSSCCHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCCCchHHHH
Confidence            55555555555555555555555555433

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.83  E-value=1.1e-08  Score=81.01  Aligned_cols=96  Identities=10%  Similarity=-0.046  Sum_probs=82.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhc
Q 006997          472 HYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSA  549 (622)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  549 (622)
                      .+..+...+.+.|++++|+..++++.  .+.+...|..++.++...|++++|+..++++++++|+++.++..++.+|...
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            35556778888999999999998876  3446788999999999999999999999999999999999999999999999


Q ss_pred             CChHHHHHHHHHhhhCCC
Q 006997          550 GMWKEAATARGLMDDRRL  567 (622)
Q Consensus       550 g~~~~A~~~~~~~~~~~~  567 (622)
                      |++++|+..+++..+..+
T Consensus        99 g~~~~A~~~~~~al~~~P  116 (121)
T 1hxi_A           99 HNANAALASLRAWLLSQP  116 (121)
T ss_dssp             HHHHHHHHHHHHHHC---
T ss_pred             CCHHHHHHHHHHHHHhCc
Confidence            999999999999876443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.83  E-value=6.5e-08  Score=76.95  Aligned_cols=115  Identities=17%  Similarity=0.204  Sum_probs=91.1

Q ss_pred             HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHH
Q 006997          434 AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSA  511 (622)
Q Consensus       434 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  511 (622)
                      ...+..+...+...|++++|.+.++++...  .+.+...+..+...+.+.|++++|..+++++.  .+.+...+..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            356667777778888888888888887754  13356677778888888888888888888765  34456778888889


Q ss_pred             HHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcC
Q 006997          512 CMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAG  550 (622)
Q Consensus       512 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  550 (622)
                      +...|++++|...++++++..|+++..+..++.++.+.|
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            999999999999999999999999999998888887654

>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=1.1e-07  Score=84.20  Aligned_cols=123  Identities=13%  Similarity=0.051  Sum_probs=72.0

Q ss_pred             HHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhc
Q 006997          438 TSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKH  515 (622)
Q Consensus       438 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~  515 (622)
                      ..+...+...|++++|...|+++.     .|+...+..+...|.+.|++++|++.+++..  .+.+...|..++.++...
T Consensus        10 ~~~g~~~~~~~~~~~A~~~~~~a~-----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~~   84 (213)
T 1hh8_A           10 WNEGVLAADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQT   84 (213)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHc-----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHc
Confidence            344445555666666666665442     4455556666666666666666666666554  233345555666666666


Q ss_pred             CCHHHHHHHHHHHHccCCCCC----------------chHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          516 HNVELGEYAAKNLLTLNPGST----------------GNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       516 ~~~~~a~~~~~~~~~~~p~~~----------------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      |++++|+..+++++++.|++.                .++..++.+|.+.|++++|.+.+++..+.
T Consensus        85 ~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           85 EKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             TCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             ccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            666666666666666555555                55666666666666666666666665543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.82  E-value=4e-08  Score=79.00  Aligned_cols=117  Identities=8%  Similarity=-0.055  Sum_probs=95.6

Q ss_pred             HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHH
Q 006997          434 AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSA  511 (622)
Q Consensus       434 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  511 (622)
                      ...+..+...+...|++++|...++++...  .+.+...+..+...+...|++++|++.+++..  .+.+...+..++..
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHH
Confidence            455667777778888888888888887754  13356777788888888888888888888775  34457788888999


Q ss_pred             HHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCCh
Q 006997          512 CMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMW  552 (622)
Q Consensus       512 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  552 (622)
                      +...|++++|...+++++++.|+++..+..++.++.+.|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999998875

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.82  E-value=4e-06  Score=84.01  Aligned_cols=372  Identities=11%  Similarity=-0.022  Sum_probs=201.7

Q ss_pred             hcC-CchhHHHHHHHHHhCCCCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCC-hhHH
Q 006997            7 NNG-SFEETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSD-FVSS   84 (622)
Q Consensus         7 ~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~A   84 (622)
                      +.| +...|..+|+.+...  .|.              ++.+.+..+|+..+..  .|+...|...+....+.++ .+..
T Consensus         6 ~~~~~i~~aR~vyer~l~~--~P~--------------~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i   67 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHARRL--YMS--------------KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKL   67 (493)
T ss_dssp             ------CCHHHHHHHHHHH--HHT--------------TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CT
T ss_pred             HcCcchHHHHHHHHHHHHH--CCC--------------CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHH
Confidence            345 377788888777663  333              7789999999998875  4788888888887777663 3445


Q ss_pred             HHHhccCCC----CCCCcchHHHHHHHHH----hCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHH
Q 006997           85 RKVLDEMPV----RLRSVVSWNSIISAHS----RACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVY  156 (622)
Q Consensus        85 ~~~~~~~~~----~~~~~~~~~~li~~~~----~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~  156 (622)
                      ..+|+....    ...+...|...+..+.    .+++.+.+.++|++.+..   |.. .+..+...+.         ...
T Consensus        68 ~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~---P~~-~~~~lw~~Y~---------~fE  134 (493)
T 2uy1_A           68 YEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQT---PMG-SLSELWKDFE---------NFE  134 (493)
T ss_dssp             HHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTS---CCT-THHHHHHHHH---------HHH
T ss_pred             HHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhC---hhh-hHHHHHHHHH---------HHH
Confidence            556665332    1345677777776543    346678889999998862   221 1122222211         000


Q ss_pred             HhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCC----CCcchHHHHHHHHHcCCC-------hhHHHHHHHHHHHC
Q 006997          157 KLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGE----TSIVSWTTIIGGYVNVGN-------VNEAFGLCNQMRRM  225 (622)
Q Consensus       157 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~~~-------~~~a~~~~~~m~~~  225 (622)
                      ...    +..+...++.-..  +.+..|..+++.+..    .+...|...+.--...+.       .+.+..+|+++...
T Consensus       135 ~~~----~~~~~~~~~~~~~--~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~  208 (493)
T 2uy1_A          135 LEL----NKITGKKIVGDTL--PIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDS  208 (493)
T ss_dssp             HHH----CHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHh----ccccHHHHHHHHh--HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHc
Confidence            000    1111111111111  122233333322211    233455555544332211       34566788887765


Q ss_pred             CCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHH-HHHHhhcC--C-------C
Q 006997          226 SVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELA-RRVFDAVL--E-------K  295 (622)
Q Consensus       226 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~--~-------~  295 (622)
                      . +.+...|...+..+...|+++.|..+++.....  |.+...+..    |....+.++. ..+.+...  .       +
T Consensus       209 ~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~~~~l~~~~~~~~~~~~~~~~  281 (493)
T 2uy1_A          209 F-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAVYGDLKRKYSMGEAESAEKVF  281 (493)
T ss_dssp             T-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHHHHHHHHHTC----------C
T ss_pred             C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHHHHHHHHHHHhhccchhhhhc
Confidence            2 445667777777778888999999999998888  444443332    2221111111 11111110  0       0


Q ss_pred             ---CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh-ccCChHHHHHHHHHHHHcCCCCchhHHH
Q 006997          296 ---SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACA-ELGSLSKGKEIEEYIVLNGLESNRQVQT  371 (622)
Q Consensus       296 ---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~  371 (622)
                         ....|...+....+.++.+.|..+|.+. ... ..+...|......-. ..++.+.|..+|+...+.- +.++..+.
T Consensus       282 ~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~  358 (493)
T 2uy1_A          282 SKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKE  358 (493)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHH
Confidence               1234556666666667788888888877 321 223334432221111 1235778888887777653 33444555


Q ss_pred             HHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHH
Q 006997          372 SLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQH  426 (622)
Q Consensus       372 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  426 (622)
                      ..++...+.|+.+.|..+|+++. .....|...+..-...|+.+.+.++++++.+
T Consensus       359 ~yid~e~~~~~~~~aR~l~er~~-k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          359 EFFLFLLRIGDEENARALFKRLE-KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHSC-CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHH-HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            56666677777777777777774 2455666666655666777777776666653

>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=98.80  E-value=1.4e-08  Score=83.76  Aligned_cols=116  Identities=13%  Similarity=0.068  Sum_probs=94.6

Q ss_pred             HHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC
Q 006997          420 LFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP  497 (622)
Q Consensus       420 ~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  497 (622)
                      .|+++..   +.|+ ...+..+...+...|++++|+..|+++...   .| +...|..+..+|...|++++|+..++++.
T Consensus         9 ~~~~al~---~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al   82 (148)
T 2vgx_A            9 TIAMLNE---ISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVL---DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGA   82 (148)
T ss_dssp             SHHHHTT---CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hHHHHHc---CCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHc---CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3444444   5564 456777888889999999999999998854   45 67788889999999999999999999876


Q ss_pred             --CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHH
Q 006997          498 --VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYIL  541 (622)
Q Consensus       498 --~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~  541 (622)
                        .+.++..+..++.++...|++++|+..|++++++.|+++.....
T Consensus        83 ~l~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~  128 (148)
T 2vgx_A           83 VMDIXEPRFPFHAAECLLQXGELAEAESGLFLAQELIANXPEFXEL  128 (148)
T ss_dssp             HHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCGGGHHH
T ss_pred             hcCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCCcchHH
Confidence              34457788999999999999999999999999999988766443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.79  E-value=3.4e-06  Score=77.95  Aligned_cols=226  Identities=12%  Similarity=0.086  Sum_probs=163.0

Q ss_pred             CChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccC--ChHHHHHHHHHHHHcCCCCchhHHHHHHHHH----Hhc---
Q 006997          311 GYPSEAVNLFKRLLKTSVRPNE-ATLATTLSACAELG--SLSKGKEIEEYIVLNGLESNRQVQTSLIHMF----SKC---  380 (622)
Q Consensus       311 ~~~~~a~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---  380 (622)
                      ...++|+.++.+++..  .|+. ..++.--..+...+  +++++...++.+.... |-+..+++.-..++    ...   
T Consensus        47 e~s~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~  123 (306)
T 3dra_A           47 EYSERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNND  123 (306)
T ss_dssp             CCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTC
T ss_pred             CCCHHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhcccc
Confidence            3445778887777765  3433 34455555555666  7888888888777765 33444554443333    444   


Q ss_pred             CChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHH--HHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCc-----
Q 006997          381 GRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGD--QALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGM-----  449 (622)
Q Consensus       381 ~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~-----  449 (622)
                      ++++++.++++.+.+   ++..+|+.-.-.+...|.++  ++++.++++.+   ..| |...|+.-.......+.     
T Consensus       124 ~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~---~d~~N~sAW~~R~~ll~~l~~~~~~~  200 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVID---TDLKNNSAWSHRFFLLFSKKHLATDN  200 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHSSGGGCCHH
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHhccccchhh
Confidence            678888888887764   45667776666777778877  99999999998   445 45677776677777776     


Q ss_pred             -hHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHH-HHHHHHhCC-C----CCcHHhHHHHHHHHHhcCCHHHH
Q 006997          450 -VDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDL-ALKTIHEMP-V----EVQAQVWAPLLSACMKHHNVELG  521 (622)
Q Consensus       450 -~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~-~----~~~~~~~~~l~~~~~~~~~~~~a  521 (622)
                       ++++++.++++...   .| |...|+.+...+.+.|+..+ +..+.+++. .    ..++..+..++.++.+.|+.++|
T Consensus       201 ~~~eEl~~~~~aI~~---~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A  277 (306)
T 3dra_A          201 TIDEELNYVKDKIVK---CPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNES  277 (306)
T ss_dssp             HHHHHHHHHHHHHHH---CSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hHHHHHHHHHHHHHh---CCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHH
Confidence             89999999998865   45 78888888888988888554 556777665 1    33567888899999999999999


Q ss_pred             HHHHHHHHc-cCCCCCchHHHHHHH
Q 006997          522 EYAAKNLLT-LNPGSTGNYILMANL  545 (622)
Q Consensus       522 ~~~~~~~~~-~~p~~~~~~~~l~~~  545 (622)
                      .++++.+.+ .+|.....|...+..
T Consensus       278 ~~~~~~l~~~~Dpir~~yW~~~~~~  302 (306)
T 3dra_A          278 RTVYDLLKSKYNPIRSNFWDYQISK  302 (306)
T ss_dssp             HHHHHHHHHTTCGGGHHHHHHHHHT
T ss_pred             HHHHHHHHhccChHHHHHHHHHHhh
Confidence            999999997 899887777766543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.79  E-value=7.6e-08  Score=86.73  Aligned_cols=136  Identities=12%  Similarity=-0.080  Sum_probs=88.0

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC--hhHHHHHHHH
Q 006997          402 SAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS--IEHYLCLVDL  479 (622)
Q Consensus       402 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~--~~~~~~l~~~  479 (622)
                      ..+...+...|++++|.++|+.+..   ..|+......+...+.+.+++++|+..|+..... . .|.  ...+..+..+
T Consensus       106 LayA~~L~~~g~y~eA~~~l~~~~~---~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~-~-d~~~~~~a~~~LG~a  180 (282)
T 4f3v_A          106 MGFAACEAAQGNYADAMEALEAAPV---AGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW-P-DKFLAGAAGVAHGVA  180 (282)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTSSCC---TTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC-S-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHh---cCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc-C-CcccHHHHHHHHHHH
Confidence            3345566777777777777777665   3454444445555677777777777777655421 0 111  2345667777


Q ss_pred             HHhcCChHHHHHHHHhCCCC---C--cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHH
Q 006997          480 LGRAGRFDLALKTIHEMPVE---V--QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMA  543 (622)
Q Consensus       480 ~~~~g~~~~A~~~~~~~~~~---~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  543 (622)
                      +.+.|++++|+..|++....   |  ....+.....++.+.|+.++|...|++++..+|+ +.+...|.
T Consensus       181 l~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL~  248 (282)
T 4f3v_A          181 AANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAALK  248 (282)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHHh
Confidence            77778888888877776411   3  2345666777777888888888888888888886 55555553

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.78  E-value=4.6e-08  Score=88.13  Aligned_cols=128  Identities=9%  Similarity=-0.058  Sum_probs=104.8

Q ss_pred             HHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCc----HHhHHHHHHHH
Q 006997          437 YTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQ----AQVWAPLLSAC  512 (622)
Q Consensus       437 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~~~~~l~~~~  512 (622)
                      ...+...+...|++++|.+.|+.+..   ..|+......+...+.+.|++++|+..|+.....|+    ...+..++.++
T Consensus       105 ~LayA~~L~~~g~y~eA~~~l~~~~~---~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~~~LG~al  181 (282)
T 4f3v_A          105 TMGFAACEAAQGNYADAMEALEAAPV---AGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAHGVAA  181 (282)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTSSCC---TTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHh---cCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHHHHHHHHHH
Confidence            34466778899999999999998874   356444666777889999999999999997764332    33677889999


Q ss_pred             HhcCCHHHHHHHHHHHHccC--CC-CCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          513 MKHHNVELGEYAAKNLLTLN--PG-STGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       513 ~~~~~~~~a~~~~~~~~~~~--p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ...|++++|+..|+++....  |. .+.....++.++.++|+.++|...|+++....+
T Consensus       182 ~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P  239 (282)
T 4f3v_A          182 ANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHP  239 (282)
T ss_dssp             HHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSC
T ss_pred             HHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            99999999999999998643  54 456889999999999999999999999988544

>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=98.78  E-value=2.4e-08  Score=79.83  Aligned_cols=94  Identities=6%  Similarity=-0.100  Sum_probs=72.3

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCc-------hHHH
Q 006997          471 EHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTG-------NYIL  541 (622)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~-------~~~~  541 (622)
                      ..+..+...+.+.|++++|++.|+++.  .+.+...|..++.++...|++++|+..++++++++|+++.       +|..
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            345567777777788888888887765  3444667888888888888888888888888888776543       5667


Q ss_pred             HHHHHHhcCChHHHHHHHHHhhh
Q 006997          542 MANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       542 l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      +|.++...|++++|++.|++.+.
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            78888888888888888887765

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.78  E-value=3.6e-08  Score=76.74  Aligned_cols=99  Identities=13%  Similarity=0.049  Sum_probs=82.6

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC--CCchHHHHHH
Q 006997          469 SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG--STGNYILMAN  544 (622)
Q Consensus       469 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~--~~~~~~~l~~  544 (622)
                      +...+..+...+...|++++|...++++.  .+.+...|..++..+...|++++|...++++++..|+  ++.++..++.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            34556667777777888888888887765  3445677888888999999999999999999999999  8999999999


Q ss_pred             HHHhc-CChHHHHHHHHHhhhCCC
Q 006997          545 LFTSA-GMWKEAATARGLMDDRRL  567 (622)
Q Consensus       545 ~~~~~-g~~~~A~~~~~~~~~~~~  567 (622)
                      ++.+. |++++|.+.+++......
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHhCCHHHHHHHHHHHhhccc
Confidence            99999 999999999999887554

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.76  E-value=1e-08  Score=84.34  Aligned_cols=104  Identities=8%  Similarity=-0.011  Sum_probs=84.8

Q ss_pred             CCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhH
Q 006997          430 LKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVW  505 (622)
Q Consensus       430 ~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~  505 (622)
                      +.|+ ...+..+...+.+.|++++|+..|+++...   .| ++..|..+..+|...|++++|+..|+++.  .+.++..|
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~---~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~  107 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY---DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPV  107 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHH
Confidence            5565 346777778888888999999999888854   55 57788888888999999999999998876  34457788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHccCCCCC
Q 006997          506 APLLSACMKHHNVELGEYAAKNLLTLNPGST  536 (622)
Q Consensus       506 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  536 (622)
                      ..++.++...|++++|+..|++++++.|+++
T Consensus       108 ~~lg~~~~~lg~~~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A          108 FHTGQCQLRLKAPLKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCCHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCHH
Confidence            8999999999999999999999999998643

>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=98.76  E-value=5e-07  Score=79.65  Aligned_cols=159  Identities=9%  Similarity=0.018  Sum_probs=103.3

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC----ChHHHHHHHHHHHHcCCCCchhHH
Q 006997          295 KSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELG----SLSKGKEIEEYIVLNGLESNRQVQ  370 (622)
Q Consensus       295 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~  370 (622)
                      .++.++..+...|...+++++|+..|++..+.|   +...+..+...|.. +    ++++|...++...+.+   ++..+
T Consensus        16 g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~   88 (212)
T 3rjv_A           16 GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGE   88 (212)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            356666667777777777777777777776654   44555556666655 5    6777777777776654   45556


Q ss_pred             HHHHHHHHh----cCChHHHHHHhccCCCCC-----hhHHHHHHHHHHH----cCCHHHHHHHHHHhHHhcCCCCCHHHH
Q 006997          371 TSLIHMFSK----CGRINKAKEVFERVPDKD-----LAVWSAMINGYAI----HGMGDQALNLFYKMQHVEGLKPDAVVY  437 (622)
Q Consensus       371 ~~l~~~~~~----~~~~~~A~~~~~~~~~~~-----~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~p~~~~~  437 (622)
                      ..|..+|..    .+++++|.+.|++..+.+     +..+..+...|..    .+++++|+..|++..+   ...+...+
T Consensus        89 ~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~---~~~~~~a~  165 (212)
T 3rjv_A           89 IVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSS---LSRTGYAE  165 (212)
T ss_dssp             HHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH---TSCTTHHH
T ss_pred             HHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH---cCCCHHHH
Confidence            666666665    667777777777666432     4566666666766    6677777777777776   23344455


Q ss_pred             HHHHHHHhcc-C-----chHHHHHHHHHhHHh
Q 006997          438 TSILSACSHS-G-----MVDDGLSFFKSMQSN  463 (622)
Q Consensus       438 ~~ll~~~~~~-g-----~~~~a~~~~~~~~~~  463 (622)
                      ..+...|... |     ++++|..+|++..+.
T Consensus       166 ~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~  197 (212)
T 3rjv_A          166 YWAGMMFQQGEKGFIEPNKQKALHWLNVSCLE  197 (212)
T ss_dssp             HHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHc
Confidence            5566665432 2     677777777777654

>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=98.76  E-value=6.4e-08  Score=78.67  Aligned_cols=100  Identities=12%  Similarity=-0.001  Sum_probs=85.7

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHH
Q 006997          468 PSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANL  545 (622)
Q Consensus       468 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  545 (622)
                      .+...+..+...+...|++++|+..+++..  .+.+...|..++.++...|++++|+..++++++++|+++.++..++.+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   86 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQC   86 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHH
Confidence            356777778888888888888888888765  344577888899999999999999999999999999999999999999


Q ss_pred             HHhcCChHHHHHHHHHhhhCCC
Q 006997          546 FTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       546 ~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      |...|++++|...|++..+..+
T Consensus        87 ~~~~~~~~~A~~~~~~a~~~~p  108 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAYSLAK  108 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHHCh
Confidence            9999999999999999887443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.74  E-value=4.2e-08  Score=80.36  Aligned_cols=114  Identities=13%  Similarity=0.045  Sum_probs=91.1

Q ss_pred             CCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhH
Q 006997          430 LKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVW  505 (622)
Q Consensus       430 ~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~  505 (622)
                      ..|+ ...+..+...+...|++++|...|+++...   .| +...|..+..+|.+.|++++|+..++++.  .+.++..+
T Consensus        13 ~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~   89 (142)
T 2xcb_A           13 LSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCML---DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFP   89 (142)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHH
Confidence            4554 345666777888889999999999888854   44 67778888889999999999999998876  34457778


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHH
Q 006997          506 APLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLF  546 (622)
Q Consensus       506 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (622)
                      ..++.++...|++++|...+++++++.|+++........+.
T Consensus        90 ~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~  130 (142)
T 2xcb_A           90 FHAAECHLQLGDLDGAESGFYSARALAAAQPAHEALAARAG  130 (142)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTCGGGHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCcchHHHHHHHH
Confidence            88999999999999999999999999998887766554443

>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=98.70  E-value=1.1e-07  Score=74.60  Aligned_cols=93  Identities=14%  Similarity=0.000  Sum_probs=52.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhc
Q 006997          472 HYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSA  549 (622)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  549 (622)
                      .+..++..+...|++++|...+++..  .+.+...+..++..+...|++++|...++++++..|+++..+..++.++...
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~   85 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFL   85 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            34444555555555555555555543  2233445555555555666666666666666666666666666666666666


Q ss_pred             CChHHHHHHHHHhhh
Q 006997          550 GMWKEAATARGLMDD  564 (622)
Q Consensus       550 g~~~~A~~~~~~~~~  564 (622)
                      |++++|.+.+++..+
T Consensus        86 ~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           86 NRFEEAKRTYEEGLK  100 (118)
T ss_dssp             TCHHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHHHH
Confidence            666666666665554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.68  E-value=3.2e-07  Score=75.51  Aligned_cols=112  Identities=9%  Similarity=-0.029  Sum_probs=78.9

Q ss_pred             HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHH
Q 006997          434 AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS----IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAP  507 (622)
Q Consensus       434 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~  507 (622)
                      ...+..+...+...|++++|...|++..   ...|+    ...+..+..+|...|++++|+..+++..  .+.+...|..
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~---~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  104 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQAL---GLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYR  104 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHH---TSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHH---HHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHH
Confidence            4556666667777777777777777776   33555    4566666777777777777777777654  2334666777


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHh
Q 006997          508 LLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTS  548 (622)
Q Consensus       508 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (622)
                      +..++...|++++|...++++++++|+++.++..+..+..+
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  145 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNISGP  145 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHCS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHhh
Confidence            77788888888888888888888888777777776666544

>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=98.68  E-value=2.4e-06  Score=79.70  Aligned_cols=158  Identities=13%  Similarity=0.041  Sum_probs=118.6

Q ss_pred             HHHHHHhcCChHHHHHHhccCCCC---Ch------hHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCC-CCC----HHHHH
Q 006997          373 LIHMFSKCGRINKAKEVFERVPDK---DL------AVWSAMINGYAIHGMGDQALNLFYKMQHVEGL-KPD----AVVYT  438 (622)
Q Consensus       373 l~~~~~~~~~~~~A~~~~~~~~~~---~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~p~----~~~~~  438 (622)
                      .+..+...|++++|...+++..+.   +.      ..+..+...+...+++++|+..|+++.+ ... .++    ..+++
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~-~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLN-QQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHH-TCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHH-HhcccccHHHHHHHHH
Confidence            466778889999999998876532   11      1233456666777899999999999987 322 223    23688


Q ss_pred             HHHHHHhccCchHHHHHHHHHhHHhcC----CCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-------CCC-cHHhH
Q 006997          439 SILSACSHSGMVDDGLSFFKSMQSNFG----IEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-------VEV-QAQVW  505 (622)
Q Consensus       439 ~ll~~~~~~g~~~~a~~~~~~~~~~~~----~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~-~~~~~  505 (622)
                      .+..+|...|++++|...|+++.....    ..+ ...++..+...|.+.|++++|+..+++..       ..+ -..++
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            899999999999999999999874211    111 13477889999999999999999998764       111 25678


Q ss_pred             HHHHHHHHhcC-CHHHHHHHHHHHHcc
Q 006997          506 APLLSACMKHH-NVELGEYAAKNLLTL  531 (622)
Q Consensus       506 ~~l~~~~~~~~-~~~~a~~~~~~~~~~  531 (622)
                      ..++.++...| ++++|.+.+++++++
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            89999999999 469999999999864

>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=98.67  E-value=1.4e-07  Score=82.45  Aligned_cols=95  Identities=14%  Similarity=0.014  Sum_probs=74.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHh
Q 006997          471 EHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTS  548 (622)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (622)
                      ..+..+..+|.+.|++++|+..++++.  .+.+...+..++.++...|++++|+..++++++++|+++.++..++.++..
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  168 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNK  168 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHH
Confidence            566778888888888888888888776  344577888999999999999999999999999999999999999999999


Q ss_pred             cCChHHHH-HHHHHhhhC
Q 006997          549 AGMWKEAA-TARGLMDDR  565 (622)
Q Consensus       549 ~g~~~~A~-~~~~~~~~~  565 (622)
                      .|+.+++. ..+..+...
T Consensus       169 ~~~~~~~~~~~~~~~f~~  186 (198)
T 2fbn_A          169 LKEARKKDKLTFGGMFDK  186 (198)
T ss_dssp             HHHHHC------------
T ss_pred             HHHHHHHHHHHHHHHhcc
Confidence            99888887 556655443

>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=98.67  E-value=1.7e-07  Score=74.79  Aligned_cols=111  Identities=8%  Similarity=-0.059  Sum_probs=87.6

Q ss_pred             HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHH
Q 006997          435 VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSA  511 (622)
Q Consensus       435 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  511 (622)
                      ..+......+.+.|++++|+..|++..+.   .| +...|..+..+|.+.|++++|+..++++.  .+.+...|..++.+
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~   81 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKR---APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            45666777778888888888888887754   34 56778888888888888888888888776  34457788889999


Q ss_pred             HHhcCCHHHHHHHHHHHHccC------CCCCchHHHHHHHHHh
Q 006997          512 CMKHHNVELGEYAAKNLLTLN------PGSTGNYILMANLFTS  548 (622)
Q Consensus       512 ~~~~~~~~~a~~~~~~~~~~~------p~~~~~~~~l~~~~~~  548 (622)
                      +...|++++|+..++++++++      |+++.++..+..+..+
T Consensus        82 ~~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~~~  124 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKASQQ  124 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHHHh
Confidence            999999999999999999998      8777777777666543

>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=98.67  E-value=3.9e-07  Score=71.48  Aligned_cols=111  Identities=10%  Similarity=-0.032  Sum_probs=87.2

Q ss_pred             HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHH
Q 006997          434 AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSA  511 (622)
Q Consensus       434 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  511 (622)
                      ...+..+...+...|++++|...+++....  .+.+...+..+...+...|++++|...+++..  .+.+...+..++.+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            345666777777788888888888887754  12356777778888888888888888888765  34457778888999


Q ss_pred             HHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHH
Q 006997          512 CMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLF  546 (622)
Q Consensus       512 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (622)
                      +...|++++|...++++++.+|+++..+..++.+.
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  116 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNME  116 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHhh
Confidence            99999999999999999999999888888877764

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.66  E-value=1.7e-07  Score=78.77  Aligned_cols=64  Identities=13%  Similarity=0.074  Sum_probs=57.9

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          502 AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       502 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      ...|..+..++...|++++|+..++++++++|+++.+|..+|.+|...|++++|...|++..+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            4578888889999999999999999999999999999999999999999999999999988763

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.66  E-value=1.1e-07  Score=76.69  Aligned_cols=97  Identities=13%  Similarity=0.044  Sum_probs=88.6

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC-C-CCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHH
Q 006997          469 SIEHYLCLVDLLGRAGRFDLALKTIHEMP-V-EVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLF  546 (622)
Q Consensus       469 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (622)
                      +...+..+...+.+.|++++|...++++. . +.+...+..++..+...|++++|+..++++++..|+++.++..++.+|
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   94 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            46778889999999999999999999875 3 346788999999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHhhhC
Q 006997          547 TSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       547 ~~~g~~~~A~~~~~~~~~~  565 (622)
                      .+.|++++|.+.+++..+.
T Consensus        95 ~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHh
Confidence            9999999999999998764

>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=98.66  E-value=7.3e-08  Score=78.12  Aligned_cols=63  Identities=16%  Similarity=-0.004  Sum_probs=58.2

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHcc-------CCCCCchH----HHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          503 QVWAPLLSACMKHHNVELGEYAAKNLLTL-------NPGSTGNY----ILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~p~~~~~~----~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      ..|..+..++...|++++|+..+++++++       +|+++..|    +..+.++...|++++|+..|++..+-
T Consensus        58 ~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           58 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            38888999999999999999999999999       99999999    99999999999999999999999773

>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=98.65  E-value=2.5e-07  Score=79.09  Aligned_cols=127  Identities=11%  Similarity=0.042  Sum_probs=102.2

Q ss_pred             HHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHH-HHhcCCh
Q 006997          409 AIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDL-LGRAGRF  486 (622)
Q Consensus       409 ~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~g~~  486 (622)
                      ...|++++|+..+++..+   ..| +...+..+..+|...|++++|...|+++....  +.+...+..+..+ +...|++
T Consensus        21 ~~~~~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~   95 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIR---ANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQH   95 (177)
T ss_dssp             C-----CCCCHHHHHHHH---HCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTC
T ss_pred             hhccCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCc
Confidence            456788899999998887   445 46788889999999999999999999988652  3367778888888 7889998


Q ss_pred             --HHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHH
Q 006997          487 --DLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYI  540 (622)
Q Consensus       487 --~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  540 (622)
                        ++|+..++++.  .+.+...+..++..+...|++++|...+++++++.|+++....
T Consensus        96 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  153 (177)
T 2e2e_A           96 MTAQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINRTQ  153 (177)
T ss_dssp             CCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCHHH
T ss_pred             chHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccHHH
Confidence              99999999886  3445778889999999999999999999999999998866543

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.65  E-value=9.7e-08  Score=76.60  Aligned_cols=91  Identities=14%  Similarity=0.098  Sum_probs=70.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHhCC-CCCc-H---HhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC---CchHHHHHHHH
Q 006997          475 CLVDLLGRAGRFDLALKTIHEMP-VEVQ-A---QVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS---TGNYILMANLF  546 (622)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~  546 (622)
                      .+...+...|++++|...++++. ..|+ .   ..+..++.++...|++++|...++++++..|++   +.++..++.+|
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~   86 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHH
Confidence            35566677777777777777664 2233 2   467777888888888888888888888888887   66788888888


Q ss_pred             HhcCChHHHHHHHHHhhhC
Q 006997          547 TSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       547 ~~~g~~~~A~~~~~~~~~~  565 (622)
                      ...|++++|...|+++.+.
T Consensus        87 ~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            8889999999888888764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.65  E-value=3.1e-07  Score=77.30  Aligned_cols=95  Identities=8%  Similarity=-0.054  Sum_probs=60.8

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHH
Q 006997          470 IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFT  547 (622)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (622)
                      ...+..+...+.+.|++++|++.|++..  .+.+...|..+..++...|++++|+..++++++++|+++.+|..++.+|.
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   90 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLARF   90 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            4455556666666666666666666654  23345566666666666666666666666666666666666666666666


Q ss_pred             hcCChHHHHHHHHHhhh
Q 006997          548 SAGMWKEAATARGLMDD  564 (622)
Q Consensus       548 ~~g~~~~A~~~~~~~~~  564 (622)
                      ..|++++|.+.|++..+
T Consensus        91 ~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           91 DMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HccCHHHHHHHHHHHHH
Confidence            66666666666666654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.65  E-value=5.9e-07  Score=78.61  Aligned_cols=152  Identities=10%  Similarity=-0.028  Sum_probs=96.4

Q ss_pred             HcCCHHHHHHHHHHhHHhcCCC-CCHHHHHHHHHHHhccCchHHHHHHHHHhHHhc---CCCC-ChhHHHHHHHHHHhcC
Q 006997          410 IHGMGDQALNLFYKMQHVEGLK-PDAVVYTSILSACSHSGMVDDGLSFFKSMQSNF---GIEP-SIEHYLCLVDLLGRAG  484 (622)
Q Consensus       410 ~~~~~~~a~~~~~~~~~~~~~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~---~~~p-~~~~~~~l~~~~~~~g  484 (622)
                      ..|++++|.+.++....   .+ .....+..+...+...|++++|...+++.....   +..| ....+..+...|...|
T Consensus         4 ~~g~~~~A~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g   80 (203)
T 3gw4_A            4 EAHDYALAERQAQALLA---HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAG   80 (203)
T ss_dssp             ---CHHHHHHHHHHHHT---STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             ccccHHHHHHHHHHhcC---ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcC
Confidence            45666666664444332   22 124556666666677777777777776665421   1111 2345666677777777


Q ss_pred             ChHHHHHHHHhCC-----C--CC--cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC--CC----chHHHHHHHHHhc
Q 006997          485 RFDLALKTIHEMP-----V--EV--QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG--ST----GNYILMANLFTSA  549 (622)
Q Consensus       485 ~~~~A~~~~~~~~-----~--~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~--~~----~~~~~l~~~~~~~  549 (622)
                      ++++|...+++..     .  .+  ....+..+...+...|++++|...+++++++.+.  ++    ..+..++.++...
T Consensus        81 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  160 (203)
T 3gw4_A           81 NWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQE  160 (203)
T ss_dssp             CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHC
Confidence            7777777776653     1  11  1345677778888888999998888888865322  22    2357888999999


Q ss_pred             CChHHHHHHHHHhhh
Q 006997          550 GMWKEAATARGLMDD  564 (622)
Q Consensus       550 g~~~~A~~~~~~~~~  564 (622)
                      |++++|.+.+++..+
T Consensus       161 g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          161 KNLLEAQQHWLRARD  175 (203)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHH
Confidence            999999999888765

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.64  E-value=2.2e-07  Score=73.85  Aligned_cols=96  Identities=18%  Similarity=0.208  Sum_probs=88.0

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHH
Q 006997          470 IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFT  547 (622)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (622)
                      ...+..+...+...|++++|.+.++++.  .+.+...+..++..+...|++++|...++++++..|+++..+..++.+|.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~   88 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence            5678888999999999999999999886  44567788999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHhhhC
Q 006997          548 SAGMWKEAATARGLMDDR  565 (622)
Q Consensus       548 ~~g~~~~A~~~~~~~~~~  565 (622)
                      ..|++++|...++++.+.
T Consensus        89 ~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHh
Confidence            999999999999998774

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.62  E-value=3.6e-07  Score=73.20  Aligned_cols=97  Identities=13%  Similarity=0.019  Sum_probs=88.3

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHH
Q 006997          469 SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLF  546 (622)
Q Consensus       469 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (622)
                      +...+..+...+...|++++|...++++.  .+.+...+..++..+...|++++|+..++++++..|+++..+..++.++
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            45677788899999999999999999876  4456778999999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHhhhC
Q 006997          547 TSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       547 ~~~g~~~~A~~~~~~~~~~  565 (622)
                      ...|++++|.+.+++..+.
T Consensus        91 ~~~~~~~~A~~~~~~~~~~  109 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALEL  109 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHhc
Confidence            9999999999999998874

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.61  E-value=7.1e-07  Score=83.37  Aligned_cols=161  Identities=11%  Similarity=0.038  Sum_probs=113.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHhccCCC--C-Ch------hHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCC---CCC--HH
Q 006997          370 QTSLIHMFSKCGRINKAKEVFERVPD--K-DL------AVWSAMINGYAIHGMGDQALNLFYKMQHVEGL---KPD--AV  435 (622)
Q Consensus       370 ~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~p~--~~  435 (622)
                      +...+..+...|++++|.+.+.+..+  + ..      ..+..+...+...|++++|+..+++..+ ...   .+.  ..
T Consensus        78 l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~-~~~~~~~~~~~~~  156 (293)
T 2qfc_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLN-QQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHT-TCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHH-HHhcCCchHHHHH
Confidence            34456667777888888777764331  1 11      1233355566777899999999988875 211   111  34


Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC-----hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-------cH
Q 006997          436 VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS-----IEHYLCLVDLLGRAGRFDLALKTIHEMP-VEV-------QA  502 (622)
Q Consensus       436 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-------~~  502 (622)
                      +++.+...|...|++++|...++++.......|+     ..++..+...|.+.|++++|+..+++.. ..+       -.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            7788888999999999999999888732111222     2577888899999999999999998764 111       15


Q ss_pred             HhHHHHHHHHHhcCCHHHH-HHHHHHHHcc
Q 006997          503 QVWAPLLSACMKHHNVELG-EYAAKNLLTL  531 (622)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~a-~~~~~~~~~~  531 (622)
                      .++..++.++...|++++| ...+++++.+
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            6788889999999999999 7888888763

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.60  E-value=3e-07  Score=75.74  Aligned_cols=97  Identities=13%  Similarity=0.086  Sum_probs=88.9

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc----HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHH
Q 006997          469 SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ----AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMA  543 (622)
Q Consensus       469 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~  543 (622)
                      +...+..+...+...|++++|++.+++.. ..|+    ...|..+..++...|++++|+..++++++..|+++..+..++
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a  106 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRS  106 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHH
Confidence            56778889999999999999999999876 5565    678888999999999999999999999999999999999999


Q ss_pred             HHHHhcCChHHHHHHHHHhhhC
Q 006997          544 NLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       544 ~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      .+|...|++++|...+++..+.
T Consensus       107 ~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          107 QALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHc
Confidence            9999999999999999998874

>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=98.60  E-value=1.5e-07  Score=94.17  Aligned_cols=119  Identities=8%  Similarity=0.041  Sum_probs=97.5

Q ss_pred             HHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CC-CcHHhHHHHHHHHHhcC
Q 006997          440 ILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VE-VQAQVWAPLLSACMKHH  516 (622)
Q Consensus       440 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-~~~~~~~~l~~~~~~~~  516 (622)
                      +...+.+.|++++|++.|+++.+.   .| +...+..+..+|.+.|++++|++.++++. .. .+...|..++.++...|
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g   88 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALG   88 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            344566788899999999888854   45 57788888999999999999999998876 33 45778999999999999


Q ss_pred             CHHHHHHHHHHHHccCCCCCchHHHHHHH--HHhcCChHHHHHHHHH
Q 006997          517 NVELGEYAAKNLLTLNPGSTGNYILMANL--FTSAGMWKEAATARGL  561 (622)
Q Consensus       517 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~A~~~~~~  561 (622)
                      ++++|++.++++++++|+++..+..++.+  +.+.|++++|++.+++
T Consensus        89 ~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           89 KFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             CHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            99999999999999999999999999988  8999999999999984

>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=98.60  E-value=4.7e-07  Score=90.27  Aligned_cols=96  Identities=11%  Similarity=0.047  Sum_probs=78.4

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHH
Q 006997          470 IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFT  547 (622)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (622)
                      ...|..+..+|.+.|++++|+..++++.  .+.+...|..+..++...|++++|+..|+++++++|++..++..++.++.
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  396 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQK  396 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            4677788888999999999999998876  44567889999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHH-HHHHhhhC
Q 006997          548 SAGMWKEAAT-ARGLMDDR  565 (622)
Q Consensus       548 ~~g~~~~A~~-~~~~~~~~  565 (622)
                      +.|++++|.+ .+++|..+
T Consensus       397 ~~~~~~~a~~~~~~~~f~k  415 (457)
T 1kt0_A          397 KAKEHNERDRRIYANMFKK  415 (457)
T ss_dssp             HHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHHHHHHhh
Confidence            9999998874 56666543

>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=98.54  E-value=6.5e-07  Score=72.58  Aligned_cols=112  Identities=6%  Similarity=-0.108  Sum_probs=86.9

Q ss_pred             CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHH
Q 006997          433 DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLL  509 (622)
Q Consensus       433 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~  509 (622)
                      +...+..+...+...|++++|...|++....   .| +...+..+..++...|++++|+..++++.  .+.+...|..++
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   84 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   84 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh---CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            4667777888888888888888888887754   34 56777888888888888888888888776  344577888899


Q ss_pred             HHHHhcCCHHHHHHHHHHHHccCCC-----CCchHHHHHHHHH
Q 006997          510 SACMKHHNVELGEYAAKNLLTLNPG-----STGNYILMANLFT  547 (622)
Q Consensus       510 ~~~~~~~~~~~a~~~~~~~~~~~p~-----~~~~~~~l~~~~~  547 (622)
                      .++...|++++|+..+++++++.|+     +..+...+..+..
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~~  127 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKK  127 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999998887     4555555554443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.53  E-value=2.5e-07  Score=88.15  Aligned_cols=147  Identities=10%  Similarity=-0.026  Sum_probs=75.8

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHH
Q 006997          400 VWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDL  479 (622)
Q Consensus       400 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~  479 (622)
                      .+..+...+.+.|++++|+..|++...   ..|+...       +...|+.+++...+.           ...|..+..+
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~---~~p~~~~-------~~~~~~~~~~~~~l~-----------~~~~~nla~~  239 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIA---YMGDDFM-------FQLYGKYQDMALAVK-----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHH---HSCHHHH-------HTCCHHHHHHHHHHH-----------THHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH---Hhccchh-------hhhcccHHHHHHHHH-----------HHHHHHHHHH
Confidence            455555566666777777777777666   4454331       222333333332211           1367788888


Q ss_pred             HHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHH-HhcCChHHHH
Q 006997          480 LGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLF-TSAGMWKEAA  556 (622)
Q Consensus       480 ~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~~A~  556 (622)
                      |.+.|++++|+..++++.  .+.+...|..+..++...|++++|+..|+++++++|+++.++..++.+. ...+..+++.
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~  319 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQK  319 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999998876  3445778888999999999999999999999999999999988888884 4457788888


Q ss_pred             HHHHHhhhCCC
Q 006997          557 TARGLMDDRRL  567 (622)
Q Consensus       557 ~~~~~~~~~~~  567 (622)
                      ..|++|....+
T Consensus       320 ~~~~~~l~~~p  330 (338)
T 2if4_A          320 EMYKGIFKGKD  330 (338)
T ss_dssp             -----------
T ss_pred             HHHHHhhCCCC
Confidence            88888876443

>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=98.53  E-value=5.3e-07  Score=71.90  Aligned_cols=101  Identities=11%  Similarity=0.039  Sum_probs=63.6

Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc--------HHhH
Q 006997          436 VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ--------AQVW  505 (622)
Q Consensus       436 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~--------~~~~  505 (622)
                      .+..+...+.+.|++++|+..|+++.+.   .| +...|..+..+|.+.|++++|++.+++.. ..|+        ..++
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~---~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIEL---DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            3445555666666666666666665533   33 35555566666666666666666666553 1111        2356


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHH
Q 006997          506 APLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYI  540 (622)
Q Consensus       506 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  540 (622)
                      ..++.++...|++++|++.|+++++..| ++....
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~~~-~~~~~~  120 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSEFR-DPELVK  120 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSC-CHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCc-CHHHHH
Confidence            6777888888999999999999988887 444443

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.52  E-value=7e-08  Score=75.90  Aligned_cols=83  Identities=12%  Similarity=0.014  Sum_probs=62.0

Q ss_pred             cCChHHHHHHHHhCC-C---CCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHH
Q 006997          483 AGRFDLALKTIHEMP-V---EVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAAT  557 (622)
Q Consensus       483 ~g~~~~A~~~~~~~~-~---~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  557 (622)
                      .|++++|+..|+++. .   .|+ ...|..++.++...|++++|+..++++++++|+++.++..++.+|...|++++|.+
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            466677777777665 2   233 55677788888888888888888888888888888888888888888888888888


Q ss_pred             HHHHhhhC
Q 006997          558 ARGLMDDR  565 (622)
Q Consensus       558 ~~~~~~~~  565 (622)
                      .+++..+.
T Consensus        83 ~~~~al~~   90 (117)
T 3k9i_A           83 LLLKIIAE   90 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            88877663

>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=98.51  E-value=6.2e-07  Score=85.40  Aligned_cols=98  Identities=8%  Similarity=-0.055  Sum_probs=79.4

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc----------------HHhHHHHHHHHHhcCCHHHHHHHHHHHHccC
Q 006997          470 IEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ----------------AQVWAPLLSACMKHHNVELGEYAAKNLLTLN  532 (622)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  532 (622)
                      ...+..+...|.+.|++++|+..|+++. ..|+                ..+|..+..++.+.|++++|+..++++++++
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  226 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELD  226 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            4445555566666666666666666554 2222                4788999999999999999999999999999


Q ss_pred             CCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          533 PGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       533 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      |+++.++..++.+|...|++++|+..|+++.+..+
T Consensus       227 p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P  261 (336)
T 1p5q_A          227 SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP  261 (336)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC
Confidence            99999999999999999999999999999987543

>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=98.51  E-value=6.1e-07  Score=75.54  Aligned_cols=98  Identities=12%  Similarity=0.023  Sum_probs=88.4

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHH
Q 006997          470 IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFT  547 (622)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (622)
                      ...+..+...+...|++++|...+++..  .+.+...+..++..+...|++++|...++++++.+|+++.++..++.++.
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            3456778888999999999999999876  44567889999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHhhhCCC
Q 006997          548 SAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       548 ~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ..|++++|.+.++++.+..+
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p  112 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKP  112 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHST
T ss_pred             HhccHHHHHHHHHHHHHhCC
Confidence            99999999999999987544

>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=98.51  E-value=1.1e-06  Score=76.47  Aligned_cols=63  Identities=11%  Similarity=0.002  Sum_probs=59.8

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          503 QVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      ..|..+..++...|++++|+..++++++++|+++.++..++.+|...|++++|.+.|++..+.
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            678889999999999999999999999999999999999999999999999999999998774

>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=98.50  E-value=5e-07  Score=90.45  Aligned_cols=114  Identities=15%  Similarity=0.114  Sum_probs=69.8

Q ss_pred             HHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcC
Q 006997          407 GYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAG  484 (622)
Q Consensus       407 ~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g  484 (622)
                      .+.+.|++++|++.|++..+   ..|+ ...+..+..++.+.|++++|++.++++.+.   .| +...+..+..+|.+.|
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l---~p~~~~~~~~lg~~~~~~g   88 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIE---LNPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL---DKKYIKGYYRRAASNMALG   88 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS---CTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHhCCHHHHHHHHHHHHH---hCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcC
Confidence            34456677777777777766   4454 556666777777777777777777777643   34 4566667777777777


Q ss_pred             ChHHHHHHHHhCC-CCC-cHHhHHHHHHH--HHhcCCHHHHHHHHH
Q 006997          485 RFDLALKTIHEMP-VEV-QAQVWAPLLSA--CMKHHNVELGEYAAK  526 (622)
Q Consensus       485 ~~~~A~~~~~~~~-~~~-~~~~~~~l~~~--~~~~~~~~~a~~~~~  526 (622)
                      ++++|++.++++. ..| +...+..+..+  +...|++++|++.++
T Consensus        89 ~~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           89 KFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             CHHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            7777777777664 222 33445555444  666677777777777

>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=98.50  E-value=1.2e-05  Score=75.01  Aligned_cols=226  Identities=11%  Similarity=0.018  Sum_probs=115.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC-ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 006997          300 WTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELG-SLSKGKEIEEYIVLNGLESNRQVQTSLIHMFS  378 (622)
Q Consensus       300 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  378 (622)
                      ++.+-......+..++|++++.+++..+. -+...++.--..+...+ .++++..+++.+.... +-+..+++.-..++.
T Consensus        57 ~~~~r~~~~~~e~se~AL~lt~~~L~~nP-~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~  134 (349)
T 3q7a_A           57 MDYFRAIAAKEEKSERALELTEIIVRMNP-AHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLD  134 (349)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHhCc-hhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            33333344455566778888888877531 23334444444555555 4777777777777655 344555555444444


Q ss_pred             hc-C-ChHHHHHHhccCCCC---ChhHHHHHHHHHHHcCCHH--------HHHHHHHHhHHhcCCCC-CHHHHHHHHHHH
Q 006997          379 KC-G-RINKAKEVFERVPDK---DLAVWSAMINGYAIHGMGD--------QALNLFYKMQHVEGLKP-DAVVYTSILSAC  444 (622)
Q Consensus       379 ~~-~-~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~  444 (622)
                      +. + +++++.++++++.+.   |..+|+--.-.+.+.|.++        ++++.++++.+   ..| |...|+.....+
T Consensus       135 ~l~~~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~---~dp~N~SAW~~R~~lL  211 (349)
T 3q7a_A          135 RISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLR---VDGRNNSAWGWRWYLR  211 (349)
T ss_dssp             HHCCSCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHH
T ss_pred             HhcCCChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHH---hCCCCHHHHHHHHHHH
Confidence            44 4 555666666555543   2333433333333333333        44445444444   222 233444444444


Q ss_pred             hccCc-------hHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCC
Q 006997          445 SHSGM-------VDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHN  517 (622)
Q Consensus       445 ~~~g~-------~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~  517 (622)
                      .+.+.       ++++++.++++...                                  .+.|...|+.+...+.+.|.
T Consensus       212 ~~l~~~~~~~~~~~eELe~~~~aI~~----------------------------------~P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          212 VSRPGAETSSRSLQDELIYILKSIHL----------------------------------IPHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             TTSTTCCCCHHHHHHHHHHHHHHHHH----------------------------------CTTCHHHHHHHHHHHHHTTC
T ss_pred             HhccccccchHHHHHHHHHHHHHHHh----------------------------------CCCCHHHHHHHHHHHHhcCC
Confidence            44333       34444444444422                                  23334444444444433332


Q ss_pred             H--------------------HHHHHHHHHHHcc------CCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          518 V--------------------ELGEYAAKNLLTL------NPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       518 ~--------------------~~a~~~~~~~~~~------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      .                    ....+....++..      ++..+.++..++++|...|+.++|.++++.+.+
T Consensus       258 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          258 PLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             CSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            1                    1122222222222      245677888999999999999999999999864

>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=98.47  E-value=4.2e-07  Score=72.84  Aligned_cols=93  Identities=11%  Similarity=0.035  Sum_probs=56.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC-------CchHHHH
Q 006997          472 HYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS-------TGNYILM  542 (622)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-------~~~~~~l  542 (622)
                      .+..+...+...|++++|...++++.  .+.+...+..++..+...|++++|...++++++..|++       +.++..+
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            34445555555555555555555543  23345555666666666666666666666666665544       5566666


Q ss_pred             HHHHHhcCChHHHHHHHHHhhh
Q 006997          543 ANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       543 ~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      +.+|...|++++|.+.++++.+
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHH
Confidence            7777777777777777766655

>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=98.47  E-value=8.5e-07  Score=82.06  Aligned_cols=113  Identities=7%  Similarity=-0.092  Sum_probs=91.2

Q ss_pred             CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-cHHhHHHHH
Q 006997          433 DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEV-QAQVWAPLL  509 (622)
Q Consensus       433 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~  509 (622)
                      +...+..+...+...|++++|+..|+++...   .| +...+..+..+|.+.|++++|+..++++. ..| +...+..++
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg   79 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            4567778888899999999999999998864   45 67788888999999999999999998876 344 477888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHh
Q 006997          510 SACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTS  548 (622)
Q Consensus       510 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (622)
                      .++...|++++|+..++++++++|+++..+...++...+
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~  118 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALR  118 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHH
Confidence            899999999999999999999988776555544444443

>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=98.47  E-value=1.8e-05  Score=73.53  Aligned_cols=165  Identities=10%  Similarity=0.011  Sum_probs=104.8

Q ss_pred             ChhHHHHHHHHHHHcC--CHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCc-hHHHHHHHHHhHHhcCCCC-Chh
Q 006997          397 DLAVWSAMINGYAIHG--MGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGM-VDDGLSFFKSMQSNFGIEP-SIE  471 (622)
Q Consensus       397 ~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~-~~~a~~~~~~~~~~~~~~p-~~~  471 (622)
                      +..+|+.-.-.+...+  .+++++.+++++.+   ..| |...|+.-..++...|. ++++++.++++...   .| |..
T Consensus       107 ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~---~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~---~p~N~S  180 (331)
T 3dss_A          107 SYGTWHHRCWLLSRLPEPNWARELELCARFLE---ADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR---NFSNYS  180 (331)
T ss_dssp             CHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH---CSCCHH
T ss_pred             CHHHHHHHHHHHhccCcccHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH---CCCCHH
Confidence            4445554444444555  36777777777776   444 34556655555566666 46777777777754   33 555


Q ss_pred             HHHHHHHHHHhc--------------CChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhc-----------CCHHHHHHH
Q 006997          472 HYLCLVDLLGRA--------------GRFDLALKTIHEMP--VEVQAQVWAPLLSACMKH-----------HNVELGEYA  524 (622)
Q Consensus       472 ~~~~l~~~~~~~--------------g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~  524 (622)
                      .|+.....+.+.              +.++++++.+.++.  .+.|...|+-+...+...           +.++++++.
T Consensus       181 AW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~  260 (331)
T 3dss_A          181 SWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELES  260 (331)
T ss_dssp             HHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHH
Confidence            666555554443              34677777777765  445566776655555444           457889999


Q ss_pred             HHHHHccCCCCCchHHHHHHHH---HhcCChHHHHHHHHHhhhCCC
Q 006997          525 AKNLLTLNPGSTGNYILMANLF---TSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       525 ~~~~~~~~p~~~~~~~~l~~~~---~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ++++++++|++...+..++...   ...|..++....+.++.+-++
T Consensus       261 ~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp  306 (331)
T 3dss_A          261 CKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDP  306 (331)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCG
T ss_pred             HHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCc
Confidence            9999999998865555444332   246788888888888877433

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.47  E-value=8.8e-07  Score=69.84  Aligned_cols=97  Identities=14%  Similarity=0.091  Sum_probs=73.3

Q ss_pred             HHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-C-CCcHHhHHHHHHHHH
Q 006997          437 YTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-V-EVQAQVWAPLLSACM  513 (622)
Q Consensus       437 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~  513 (622)
                      +..+...+.+.|++++|+..|+++.+.   .| +...|..+..++...|++++|+..++++. . +.+...|..++.++.
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~   96 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQK---EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHT   96 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            455666777888888888888888754   44 57777788888888888888888888876 3 345778888888999


Q ss_pred             hcCCHHHHHHHHHHHHccCCCCC
Q 006997          514 KHHNVELGEYAAKNLLTLNPGST  536 (622)
Q Consensus       514 ~~~~~~~a~~~~~~~~~~~p~~~  536 (622)
                      ..|++++|+..++++++++|+++
T Consensus        97 ~~g~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC------
T ss_pred             HcCCHHHHHHHHHHHHHhCcCCC
Confidence            99999999999999999998654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.47  E-value=1e-06  Score=77.08  Aligned_cols=154  Identities=12%  Similarity=-0.003  Sum_probs=92.6

Q ss_pred             hcCChHHHHH---HhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHh---cCCCCC-HHHHHHHHHHHhccCchH
Q 006997          379 KCGRINKAKE---VFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHV---EGLKPD-AVVYTSILSACSHSGMVD  451 (622)
Q Consensus       379 ~~~~~~~A~~---~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~p~-~~~~~~ll~~~~~~g~~~  451 (622)
                      ..|++++|.+   .+..-+......+..+...+...|++++|...+++..+.   .+..|. ..++..+...+...|+++
T Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             ---CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            3455566655   443322223445666666666777777777777665541   111121 345666677777778888


Q ss_pred             HHHHHHHHhHHhcCCCC-C----hhHHHHHHHHHHhcCChHHHHHHHHhCC------CCCc--HHhHHHHHHHHHhcCCH
Q 006997          452 DGLSFFKSMQSNFGIEP-S----IEHYLCLVDLLGRAGRFDLALKTIHEMP------VEVQ--AQVWAPLLSACMKHHNV  518 (622)
Q Consensus       452 ~a~~~~~~~~~~~~~~p-~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~------~~~~--~~~~~~l~~~~~~~~~~  518 (622)
                      +|...+++......-.+ +    ...+..+...+...|++++|...+++..      ..+.  ..++..+...+...|++
T Consensus        84 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  163 (203)
T 3gw4_A           84 AARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNL  163 (203)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCH
Confidence            88877777654311122 1    3346667777778888888887777653      1111  22456777788888888


Q ss_pred             HHHHHHHHHHHccC
Q 006997          519 ELGEYAAKNLLTLN  532 (622)
Q Consensus       519 ~~a~~~~~~~~~~~  532 (622)
                      ++|...+++++++.
T Consensus       164 ~~A~~~~~~al~~~  177 (203)
T 3gw4_A          164 LEAQQHWLRARDIF  177 (203)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            88888888887653

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.44  E-value=1.7e-06  Score=85.96  Aligned_cols=164  Identities=11%  Similarity=-0.060  Sum_probs=117.9

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHH----HHHHHHHHHhccCchHHHHHHHHHhHHh---cCCCC-ChhH
Q 006997          401 WSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAV----VYTSILSACSHSGMVDDGLSFFKSMQSN---FGIEP-SIEH  472 (622)
Q Consensus       401 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~----~~~~ll~~~~~~g~~~~a~~~~~~~~~~---~~~~p-~~~~  472 (622)
                      +..+...|...|++++|.+.+.++.+..+..++..    ..+.+...+...|+++.|..+++.....   .+..+ ...+
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            55677788888888888888888766222222221    2333444556778899999988876532   12222 2556


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC-------CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC---C----Cc
Q 006997          473 YLCLVDLLGRAGRFDLALKTIHEMP-------VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG---S----TG  537 (622)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~---~----~~  537 (622)
                      +..++..|...|++++|..+++++.       ..+. ..++..++..|...|++++|...+++++...+.   +    ..
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  217 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAE  217 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHH
Confidence            7788999999999999999988763       1222 457888889999999999999999999875332   2    24


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          538 NYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       538 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      .+..++..+...|++++|...|....+
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            567778888999999999988877754

>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=98.44  E-value=3.1e-07  Score=74.44  Aligned_cols=74  Identities=14%  Similarity=0.058  Sum_probs=59.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC-C-------CCc-HHhH----HHHHHHHHhcCCHHHHHHHHHHHHccCCCCCch
Q 006997          472 HYLCLVDLLGRAGRFDLALKTIHEMP-V-------EVQ-AQVW----APLLSACMKHHNVELGEYAAKNLLTLNPGSTGN  538 (622)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~-------~~~-~~~~----~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~  538 (622)
                      .|..+..++.+.|++++|+..+++.. .       .|+ ...|    ...+.++...|++++|+..|+++++++|++...
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~  138 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGE  138 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHH
Confidence            67777777777777777777777665 4       665 5678    899999999999999999999999999998877


Q ss_pred             HHHHHHH
Q 006997          539 YILMANL  545 (622)
Q Consensus       539 ~~~l~~~  545 (622)
                      ..-+..+
T Consensus       139 ~~~~~~~  145 (159)
T 2hr2_A          139 TPGKERM  145 (159)
T ss_dssp             CTTHHHH
T ss_pred             HHHHHHH
Confidence            6555443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.43  E-value=3e-06  Score=67.67  Aligned_cols=104  Identities=16%  Similarity=0.130  Sum_probs=73.3

Q ss_pred             HHHHHHhccCchHHHHHHHHHhHHhcCCCCC-h---hHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc----HHhHHHHH
Q 006997          439 SILSACSHSGMVDDGLSFFKSMQSNFGIEPS-I---EHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ----AQVWAPLL  509 (622)
Q Consensus       439 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~---~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~----~~~~~~l~  509 (622)
                      .+...+...|++++|...|+++.+.   .|+ .   ..+..+..++.+.|++++|+..++++. ..|+    ...+..++
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la   83 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLEL---YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHH---CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHH
Confidence            3455666677777777777777654   332 2   356667777777778888777777765 2232    55677788


Q ss_pred             HHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHH
Q 006997          510 SACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANL  545 (622)
Q Consensus       510 ~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  545 (622)
                      .++...|++++|...++++++..|+++........+
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~l  119 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQYPGSDAARVAQERL  119 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTSHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCChHHHHHHHHH
Confidence            888899999999999999999999877665554444

>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=98.42  E-value=0.00019  Score=67.07  Aligned_cols=175  Identities=11%  Similarity=0.095  Sum_probs=126.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHhcC-ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc
Q 006997          270 NLLVSMYTKCGDLELARRVFDAVLEK---SVFLWTSMIGGYAQLG-YPSEAVNLFKRLLKTSVRPNEATLATTLSACAEL  345 (622)
Q Consensus       270 ~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~  345 (622)
                      +.+-....+.+..++|+++++.+...   +..+|+.-...+...| .++++++.++.+..... -+...|+.-...+...
T Consensus        58 ~~~r~~~~~~e~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nP-Kny~aW~hR~wlL~~l  136 (349)
T 3q7a_A           58 DYFRAIAAKEEKSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNL-KSYQVWHHRLLLLDRI  136 (349)
T ss_dssp             HHHHHHHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHh
Confidence            33444445566678899999988543   5578888888888888 59999999999998753 3556666666666555


Q ss_pred             -C-ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChH--------HHHHHhccCCC---CChhHHHHHHHHHHHcC
Q 006997          346 -G-SLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRIN--------KAKEVFERVPD---KDLAVWSAMINGYAIHG  412 (622)
Q Consensus       346 -~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~A~~~~~~~~~---~~~~~~~~l~~~~~~~~  412 (622)
                       + +++++.++++.+.+.. +-+..+++.-.-++.+.|.++        ++.+.++++.+   .|...|+.....+.+.+
T Consensus       137 ~~~~~~~EL~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp~N~SAW~~R~~lL~~l~  215 (349)
T 3q7a_A          137 SPQDPVSEIEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGRNNSAWGWRWYLRVSRP  215 (349)
T ss_dssp             CCSCCHHHHHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHTTST
T ss_pred             cCCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcc
Confidence             6 7899999999998765 456667766555555555555        88888887764   46678888777777777


Q ss_pred             C-------HHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCc
Q 006997          413 M-------GDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGM  449 (622)
Q Consensus       413 ~-------~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~  449 (622)
                      +       ++++++.++++..   ..|+ ...|+.+-..+.+.|.
T Consensus       216 ~~~~~~~~~~eELe~~~~aI~---~~P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          216 GAETSSRSLQDELIYILKSIH---LIPHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             TCCCCHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTC
T ss_pred             ccccchHHHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHhcCC
Confidence            6       6889999999887   6664 5666665555555544

>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=98.42  E-value=1.1e-06  Score=84.72  Aligned_cols=90  Identities=8%  Similarity=-0.001  Sum_probs=79.6

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHH
Q 006997          469 SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLF  546 (622)
Q Consensus       469 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (622)
                      +...|..+..+|.+.|++++|++.++++. ..| +...|..+..++...|++++|+..++++++++|+++.++..++.++
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~  351 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVK  351 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            45678889999999999999999999876 344 5778999999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHH
Q 006997          547 TSAGMWKEAATA  558 (622)
Q Consensus       547 ~~~g~~~~A~~~  558 (622)
                      ...++.+++.+.
T Consensus       352 ~~~~~~~~a~k~  363 (370)
T 1ihg_A          352 QKIKAQKDKEKA  363 (370)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHH
Confidence            999988887653

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.41  E-value=8e-07  Score=74.36  Aligned_cols=129  Identities=12%  Similarity=-0.006  Sum_probs=83.9

Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC-----C-CC--cHH
Q 006997          436 VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS----IEHYLCLVDLLGRAGRFDLALKTIHEMP-----V-EV--QAQ  503 (622)
Q Consensus       436 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~-~~--~~~  503 (622)
                      ++..+...+...|++++|...+++......-.++    ...+..+...+...|++++|.+.+++..     . .+  ...
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            3445555555666666666666555432110111    1345566666777777777777776653     0 11  134


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHccCCC------CCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          504 VWAPLLSACMKHHNVELGEYAAKNLLTLNPG------STGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       504 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      .+..+...+...|++++|...+++++++.+.      .+..+..++.+|...|++++|.+.+++..+
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            5667777888888999999988888875321      245678899999999999999999988765

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.40  E-value=1.1e-07  Score=73.81  Aligned_cols=95  Identities=8%  Similarity=-0.041  Sum_probs=77.8

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC------CchHH
Q 006997          469 SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS------TGNYI  540 (622)
Q Consensus       469 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~------~~~~~  540 (622)
                      +...+..+...+.+.|++++|++.+++..  .+.+...|..++.++...|++++|+..++++++++|++      ...+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~   82 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHH
Confidence            34566777788888888888888888775  34457788899999999999999999999999999988      77888


Q ss_pred             HHHHHHHhcCChHHHHHHHHHhh
Q 006997          541 LMANLFTSAGMWKEAATARGLMD  563 (622)
Q Consensus       541 ~l~~~~~~~g~~~~A~~~~~~~~  563 (622)
                      .++.++...|++++|.+.++++.
T Consensus        83 ~~~~~~~~~~~~~~a~~~~~~~~  105 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEVDELP  105 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSSSSCS
T ss_pred             HHHHHHHHHHhHhhhHhHHHHhH
Confidence            88888888888887776666543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.39  E-value=8.8e-07  Score=74.29  Aligned_cols=79  Identities=18%  Similarity=0.071  Sum_probs=65.3

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCC-chHHHHHHHH
Q 006997          470 IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGST-GNYILMANLF  546 (622)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~-~~~~~l~~~~  546 (622)
                      ...|..+..+|.+.|++++|+..++++.  .+.+...|..++.++...|++++|...++++++++|+++ .+...+..+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~~  142 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIVT  142 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            4677888889999999999999998876  344577899999999999999999999999999999887 5555555554


Q ss_pred             Hh
Q 006997          547 TS  548 (622)
Q Consensus       547 ~~  548 (622)
                      .+
T Consensus       143 ~~  144 (162)
T 3rkv_A          143 ER  144 (162)
T ss_dssp             HH
T ss_pred             HH
Confidence            33

>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=98.39  E-value=1.5e-06  Score=69.54  Aligned_cols=112  Identities=7%  Similarity=-0.015  Sum_probs=76.1

Q ss_pred             HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-C----CCc----HHhH
Q 006997          435 VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-V----EVQ----AQVW  505 (622)
Q Consensus       435 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~----~~~----~~~~  505 (622)
                      ..+..+...+...|++++|...++++...  .+.+...+..+...|...|++++|...++++. .    .++    ..++
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            34555566666666666676666666643  12345566666666777777777777776654 1    112    5567


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhc
Q 006997          506 APLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSA  549 (622)
Q Consensus       506 ~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  549 (622)
                      ..++.++...|++++|...++++++..| ++.....+..+....
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~  125 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAEKIL  125 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHHHHH
Confidence            7888888899999999999999999888 677777777665543

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.38  E-value=2.6e-06  Score=65.86  Aligned_cols=101  Identities=14%  Similarity=0.026  Sum_probs=76.3

Q ss_pred             HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC---cHHhHHHHH
Q 006997          434 AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEV---QAQVWAPLL  509 (622)
Q Consensus       434 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~---~~~~~~~l~  509 (622)
                      ...+..+...+...|++++|...++++.+.  .+.+...+..+...+...|++++|++.++++. ..|   +...|..+.
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~   83 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKA   83 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHH
Confidence            345666777777888888888888877754  12356677777888888888888888887765 333   467788888


Q ss_pred             HHHHhc-CCHHHHHHHHHHHHccCCCCC
Q 006997          510 SACMKH-HNVELGEYAAKNLLTLNPGST  536 (622)
Q Consensus       510 ~~~~~~-~~~~~a~~~~~~~~~~~p~~~  536 (622)
                      .++... |++++|.+.+++++...|.++
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            888888 999999999999998888654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.33  E-value=4.4e-07  Score=71.21  Aligned_cols=93  Identities=11%  Similarity=0.102  Sum_probs=67.0

Q ss_pred             cCchHHHHHHHHHhHHhcCC-CC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHH
Q 006997          447 SGMVDDGLSFFKSMQSNFGI-EP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGE  522 (622)
Q Consensus       447 ~g~~~~a~~~~~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~  522 (622)
                      .|++++|+..|+++.+. +. .| +...+..+..+|...|++++|+..++++.  .+.+...+..++.++...|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~~-~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIAS-GLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSS-CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHc-CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            46777778888777732 10 23 35667777888888888888888888775  3445677888888899999999999


Q ss_pred             HHHHHHHccCCCCCchHH
Q 006997          523 YAAKNLLTLNPGSTGNYI  540 (622)
Q Consensus       523 ~~~~~~~~~~p~~~~~~~  540 (622)
                      ..++++++..|+++....
T Consensus        82 ~~~~~al~~~p~~~~~~~   99 (117)
T 3k9i_A           82 ELLLKIIAETSDDETIQS   99 (117)
T ss_dssp             HHHHHHHHHHCCCHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHH
Confidence            999999999998776543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.30  E-value=2.4e-06  Score=64.61  Aligned_cols=67  Identities=15%  Similarity=0.151  Sum_probs=61.6

Q ss_pred             CCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          499 EVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       499 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      +.+...|..++.++...|++++|+..++++++++|+++.+|..++.+|...|++++|.+.+++..+.
T Consensus         4 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            4 PEDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             -CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            3457789999999999999999999999999999999999999999999999999999999988763

>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=98.30  E-value=3.8e-06  Score=83.72  Aligned_cols=66  Identities=8%  Similarity=-0.027  Sum_probs=61.5

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          502 AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       502 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ...|..+..++.+.|++++|+..++++++++|+++.+|..++.+|...|++++|+..|+++.+..+
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P  382 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP  382 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence            467889999999999999999999999999999999999999999999999999999999987543

>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=98.29  E-value=0.00017  Score=66.98  Aligned_cols=191  Identities=10%  Similarity=0.056  Sum_probs=126.7

Q ss_pred             hHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC--ChHHHHHHhccCCC---CChhHHHHHHHHHHHcCC-HHHHHHHH
Q 006997          348 LSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCG--RINKAKEVFERVPD---KDLAVWSAMINGYAIHGM-GDQALNLF  421 (622)
Q Consensus       348 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~-~~~a~~~~  421 (622)
                      ++++..+++.+.... |-+..+++.-.-++.+.+  .++++.++++++.+   .|..+|+.-.-++...|. ++++++.+
T Consensus        90 l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            456677777776655 446666666666666666  37788888877764   455666666666666777 58888888


Q ss_pred             HHhHHhcCCCC-CHHHHHHHHHHHhcc--------------CchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhc--
Q 006997          422 YKMQHVEGLKP-DAVVYTSILSACSHS--------------GMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRA--  483 (622)
Q Consensus       422 ~~~~~~~~~~p-~~~~~~~ll~~~~~~--------------g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~--  483 (622)
                      +++.+   ..| |...|+.....+...              +.++++++.+......   .| |...|+.+-..+.+.  
T Consensus       169 ~~~I~---~~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~---~P~d~SaW~Y~r~ll~~~~~  242 (331)
T 3dss_A          169 DSLIT---RNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFT---DPNDQSAWFYHRWLLGAGSG  242 (331)
T ss_dssp             HHHHH---HCSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHSSSC
T ss_pred             HHHHH---HCCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhccC
Confidence            88887   445 345555544444333              4577888888888754   55 566666555555544  


Q ss_pred             ---------CChHHHHHHHHhCC-CCCcHHhHHHHHHHH-----HhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHH
Q 006997          484 ---------GRFDLALKTIHEMP-VEVQAQVWAPLLSAC-----MKHHNVELGEYAAKNLLTLNPGSTGNYILMANLF  546 (622)
Q Consensus       484 ---------g~~~~A~~~~~~~~-~~~~~~~~~~l~~~~-----~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (622)
                               +.++++++.++++. ..|+. .|..+..+.     ...+..++....+.++.+++|-...-|..+..-+
T Consensus       243 ~~~~~~~~~~~l~~el~~~~elle~~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~~~~~  319 (331)
T 3dss_A          243 RCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKF  319 (331)
T ss_dssp             GGGCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             ccccchHHHHHHHHHHHHHHHHHhhCccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHHHHHH
Confidence                     45788888888876 55654 343322222     2357788999999999999998777777766544

>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=98.28  E-value=4.9e-06  Score=80.11  Aligned_cols=113  Identities=10%  Similarity=-0.013  Sum_probs=83.4

Q ss_pred             HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHh
Q 006997          435 VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMK  514 (622)
Q Consensus       435 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~  514 (622)
                      ..+..+...+.+.|++++|+..|+++.+.   .+...          .....+++.+    . .+.+...|..+..++.+
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~---~~~~~----------~~~~~~~~~~----~-~~~~~~~~~nla~~~~~  285 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRY---VEGSR----------AAAEDADGAK----L-QPVALSCVLNIGACKLK  285 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---HHHHH----------HHSCHHHHGG----G-HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHH---hhcCc----------cccChHHHHH----H-HHHHHHHHHHHHHHHHh
Confidence            44666667777777777777777776642   11100          0001111110    0 12236678899999999


Q ss_pred             cCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          515 HHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       515 ~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      .|++++|+..++++++++|+++.++..++.+|...|++++|++.|+++.+.
T Consensus       286 ~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l  336 (370)
T 1ihg_A          286 MSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  336 (370)
T ss_dssp             TTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999999998874

>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=98.27  E-value=4.4e-07  Score=73.38  Aligned_cols=84  Identities=11%  Similarity=0.029  Sum_probs=59.6

Q ss_pred             CChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCC----------HHHHHHHHHHHHccCCCCCchHHHHHHHHHhcC-
Q 006997          484 GRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHN----------VELGEYAAKNLLTLNPGSTGNYILMANLFTSAG-  550 (622)
Q Consensus       484 g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-  550 (622)
                      +++++|++.+++..  .+.+...|..++.++...++          +++|+..|+++++++|+++.+|+.++.+|...| 
T Consensus        16 ~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg~   95 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAF   95 (158)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhcc
Confidence            34445555554443  23334445555554444433          579999999999999999999999999999875 


Q ss_pred             ----------ChHHHHHHHHHhhhCCC
Q 006997          551 ----------MWKEAATARGLMDDRRL  567 (622)
Q Consensus       551 ----------~~~~A~~~~~~~~~~~~  567 (622)
                                ++++|++.|++..+.++
T Consensus        96 l~P~~~~a~g~~~eA~~~~~kAl~l~P  122 (158)
T 1zu2_A           96 LTPDETEAKHNFDLATQFFQQAVDEQP  122 (158)
T ss_dssp             HCCCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             cCcchhhhhccHHHHHHHHHHHHHhCC
Confidence                      89999999999887544

>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=98.26  E-value=3.1e-05  Score=78.89  Aligned_cols=166  Identities=8%  Similarity=-0.023  Sum_probs=132.0

Q ss_pred             hHHHHHHhccCCC---CChhHHHHHHHHHHHcCC----------HHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccC
Q 006997          383 INKAKEVFERVPD---KDLAVWSAMINGYAIHGM----------GDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSG  448 (622)
Q Consensus       383 ~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g  448 (622)
                      .++|.+.++++..   .+...|+.--.++...|+          ++++++.++++.+   ..|+ ..+|..-..++.+.+
T Consensus        45 ~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~---~~pK~y~aW~hR~w~l~~l~  121 (567)
T 1dce_A           45 DESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLR---VNPKSYGTWHHRCWLLSRLP  121 (567)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHTCS
T ss_pred             CHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcc
Confidence            4556666666653   234456655555555555          8999999999998   5665 578888888888888


Q ss_pred             --chHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcC-ChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhc-------
Q 006997          449 --MVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAG-RFDLALKTIHEMP--VEVQAQVWAPLLSACMKH-------  515 (622)
Q Consensus       449 --~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~-------  515 (622)
                        +++++++.++++.+.   .| +...|+.-..++.+.| .++++++.++++.  .+-+..+|+.....+...       
T Consensus       122 ~~~~~~el~~~~k~l~~---d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          122 EPNWARELELCARFLEA---DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SCCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             cccHHHHHHHHHHHHhh---ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccc
Confidence              679999999999965   44 6788888888888888 8999999999987  344577898888777663       


Q ss_pred             -------CCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHH
Q 006997          516 -------HNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKE  554 (622)
Q Consensus       516 -------~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  554 (622)
                             +.++++.+.+++++..+|++.++|..+.+++.+.|+.++
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                   557999999999999999999999999999999998655

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.26  E-value=4.2e-06  Score=83.06  Aligned_cols=124  Identities=9%  Similarity=0.043  Sum_probs=95.3

Q ss_pred             HhccCchHHHHHHHHHhHHhcC--CCC----ChhHHHHHHHHHHhcCChHHHHHHHHhCC---------CCCc-HHhHHH
Q 006997          444 CSHSGMVDDGLSFFKSMQSNFG--IEP----SIEHYLCLVDLLGRAGRFDLALKTIHEMP---------VEVQ-AQVWAP  507 (622)
Q Consensus       444 ~~~~g~~~~a~~~~~~~~~~~~--~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~~~-~~~~~~  507 (622)
                      +...|++++|+.++++......  +.|    ...+++.|+.+|...|++++|+.+++++.         ..|+ ..+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            4567888888887777654311  112    24567788888888888888888887763         3444 446889


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHc-----cCCCCCch---HHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          508 LLSACMKHHNVELGEYAAKNLLT-----LNPGSTGN---YILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       508 l~~~~~~~~~~~~a~~~~~~~~~-----~~p~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      |+..|..+|++++|+.+++++++     +.|++|.+   ...+..++.++|++++|...|++++++..
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~~  466 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAAL  466 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999986     57877665   45788889999999999999999987543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.23  E-value=2.1e-06  Score=67.05  Aligned_cols=78  Identities=10%  Similarity=0.023  Sum_probs=66.0

Q ss_pred             HHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          488 LALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       488 ~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      +|+..+++..  .+.+...|..++..+...|++++|+..++++++++|+++.++..++.+|...|++++|...|++..+.
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~   82 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAA   82 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3555555543  23457788889999999999999999999999999999999999999999999999999999988763

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.23  E-value=5.2e-06  Score=61.33  Aligned_cols=81  Identities=19%  Similarity=0.208  Sum_probs=63.7

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHH
Q 006997          470 IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFT  547 (622)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (622)
                      ...+..+...+...|++++|+..+++..  .+.+...+..+..++...|++++|...++++++++|+++.++..++.++.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~   88 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQ   88 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            4556667777777788888888777765  33456678888888888899999999999999999988888888888887


Q ss_pred             hcC
Q 006997          548 SAG  550 (622)
Q Consensus       548 ~~g  550 (622)
                      +.|
T Consensus        89 ~~g   91 (91)
T 1na3_A           89 KQG   91 (91)
T ss_dssp             HHC
T ss_pred             hcC
Confidence            654

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.22  E-value=3.8e-06  Score=79.93  Aligned_cols=152  Identities=8%  Similarity=-0.005  Sum_probs=82.2

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhc
Q 006997          367 RQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSH  446 (622)
Q Consensus       367 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~  446 (622)
                      ...+..+...+.+.|++++|...|++....+....     .+...++..++...+   .        ...|..+..++.+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~-----~~~~~~~~~~~~~~l---~--------~~~~~nla~~~~~  242 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDF-----MFQLYGKYQDMALAV---K--------NPCHLNIAACLIK  242 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHH-----HHTCCHHHHHHHHHH---H--------THHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccch-----hhhhcccHHHHHHHH---H--------HHHHHHHHHHHHH
Confidence            34567788888899999999999998653221111     112223333333221   1        1367888889999


Q ss_pred             cCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHH-HhcCCHHHHH
Q 006997          447 SGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSAC-MKHHNVELGE  522 (622)
Q Consensus       447 ~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~-~~~~~~~~a~  522 (622)
                      .|++++|+..++++...   .| +...+..+..+|...|++++|+..|+++. ..|+ ...+..+.... ...+..+.+.
T Consensus       243 ~g~~~~A~~~~~~al~~---~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~  319 (338)
T 2if4_A          243 LKRYDEAIGHCNIVLTE---EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQK  319 (338)
T ss_dssp             TTCCHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             cCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999864   45 67888999999999999999999999987 4454 44555555553 3456778899


Q ss_pred             HHHHHHHccCCCCCc
Q 006997          523 YAAKNLLTLNPGSTG  537 (622)
Q Consensus       523 ~~~~~~~~~~p~~~~  537 (622)
                      ..|++++...|+++.
T Consensus       320 ~~~~~~l~~~p~~~~  334 (338)
T 2if4_A          320 EMYKGIFKGKDEGGA  334 (338)
T ss_dssp             ---------------
T ss_pred             HHHHHhhCCCCCCCC
Confidence            999999999997653

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.20  E-value=5.9e-06  Score=68.91  Aligned_cols=134  Identities=11%  Similarity=0.035  Sum_probs=90.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC----HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC----hh
Q 006997          400 VWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD----AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS----IE  471 (622)
Q Consensus       400 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~  471 (622)
                      ++..+...+...|++++|+..+++..+...-.++    ..++..+...+...|++++|...+++......-.++    ..
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            4555666677777777777777776651111112    135667777788888888888888876643111112    44


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC-----C-CC--cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCC
Q 006997          472 HYLCLVDLLGRAGRFDLALKTIHEMP-----V-EV--QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNP  533 (622)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~-----~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  533 (622)
                      .+..+...+...|++++|.+.+++..     . .+  ...++..+...+...|++++|...+++++++..
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  160 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISR  160 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHH
Confidence            56677788888888888888887764     1 11  134567788888899999999999999887543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.17  E-value=1.3e-05  Score=79.69  Aligned_cols=160  Identities=6%  Similarity=-0.024  Sum_probs=118.5

Q ss_pred             HHHHHHcCCHHHHHHHHHHhHHhcCCCCC---------------HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC
Q 006997          405 INGYAIHGMGDQALNLFYKMQHVEGLKPD---------------AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS  469 (622)
Q Consensus       405 ~~~~~~~~~~~~a~~~~~~~~~~~~~~p~---------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~  469 (622)
                      ...+.+.|++++|++.|.++.+......+               ...+..+...|...|++++|.+.+..+....+..++
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            34567788999999999988872111111               123678899999999999999999998764333332


Q ss_pred             h----hHHHHHHHHHHhcCChHHHHHHHHhCC-------CCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHcc------
Q 006997          470 I----EHYLCLVDLLGRAGRFDLALKTIHEMP-------VEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTL------  531 (622)
Q Consensus       470 ~----~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------  531 (622)
                      .    .+.+.+...+...|++++|.+++++..       ..+ ...++..++..+...|++++|...+++++..      
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            2    223344455566789999999887753       222 2557788999999999999999999998763      


Q ss_pred             CCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          532 NPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       532 ~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      .|....++..++.+|...|++++|..++++...
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            222345788999999999999999999998865

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=98.09  E-value=1.5e-05  Score=58.63  Aligned_cols=70  Identities=20%  Similarity=0.105  Sum_probs=61.3

Q ss_pred             CCcHHhHHHHHHHHHhcCC---HHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCc
Q 006997          499 EVQAQVWAPLLSACMKHHN---VELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLT  568 (622)
Q Consensus       499 ~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  568 (622)
                      ++++..+..+..++...++   .++|..+++++++++|+++.+...+|..+.+.|++++|+..|+++.+..+.
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            4567778888888765554   799999999999999999999999999999999999999999999986553

>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=98.05  E-value=3.7e-05  Score=62.02  Aligned_cols=111  Identities=5%  Similarity=-0.128  Sum_probs=72.2

Q ss_pred             chHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHh----cCCHHHHHHH
Q 006997          449 MVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMK----HHNVELGEYA  524 (622)
Q Consensus       449 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~  524 (622)
                      ++++|.+.|++..+. | .|...    |...|...+..++|.++|++.....++.....|...|..    .+|+++|...
T Consensus        10 d~~~A~~~~~~aa~~-g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~   83 (138)
T 1klx_A           10 DLKKAIQYYVKACEL-N-EMFGC----LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQY   83 (138)
T ss_dssp             HHHHHHHHHHHHHHT-T-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHcC-C-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHH
Confidence            455666666665543 2 22222    555555555666666666665534455666666666666    6777888888


Q ss_pred             HHHHHccCCCCCchHHHHHHHHHh----cCChHHHHHHHHHhhhCCC
Q 006997          525 AKNLLTLNPGSTGNYILMANLFTS----AGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       525 ~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  567 (622)
                      ++++.+.  +++..+..|+.+|..    .+++++|.+.|++..+.|.
T Consensus        84 ~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           84 YSKACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            8887765  467778888888887    7888888888887776543

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.03  E-value=1.5e-05  Score=61.37  Aligned_cols=68  Identities=13%  Similarity=-0.030  Sum_probs=62.4

Q ss_pred             CcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          500 VQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       500 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ++...|..++..+...|++++|+..++++++++|+++.++..++.+|.+.|++++|++.+++..+..+
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p   69 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTS   69 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCS
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC
Confidence            35667888999999999999999999999999999999999999999999999999999999987543

>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=98.01  E-value=8.9e-05  Score=75.52  Aligned_cols=149  Identities=14%  Similarity=0.090  Sum_probs=125.1

Q ss_pred             CCHHHHHHHHHHhHHhcCCCCCH-HHHHHHHHHHhccCc----------hHHHHHHHHHhHHhcCCCC-ChhHHHHHHHH
Q 006997          412 GMGDQALNLFYKMQHVEGLKPDA-VVYTSILSACSHSGM----------VDDGLSFFKSMQSNFGIEP-SIEHYLCLVDL  479 (622)
Q Consensus       412 ~~~~~a~~~~~~~~~~~~~~p~~-~~~~~ll~~~~~~g~----------~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~  479 (622)
                      ...++|++.++++..   +.|+. ..|+.-..++...|+          ++++++.++.+.+.   .| +...|+.-..+
T Consensus        43 ~~~eeal~~~~~~l~---~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~---~pK~y~aW~hR~w~  116 (567)
T 1dce_A           43 ELDESVLELTSQILG---ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV---NPKSYGTWHHRCWL  116 (567)
T ss_dssp             CCSHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHH---HCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh---CCCCHHHHHHHHHH
Confidence            345788999999998   77874 556666666666666          89999999999965   45 67888888888


Q ss_pred             HHhcC--ChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcC-CHHHHHHHHHHHHccCCCCCchHHHHHHHHHhc-----
Q 006997          480 LGRAG--RFDLALKTIHEMP--VEVQAQVWAPLLSACMKHH-NVELGEYAAKNLLTLNPGSTGNYILMANLFTSA-----  549 (622)
Q Consensus       480 ~~~~g--~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-----  549 (622)
                      +.+.|  +++++++.++++.  .+.+..+|+.-..+....| .++++.+.++++++.+|.+.++|...+.++.+.     
T Consensus       117 l~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~  196 (567)
T 1dce_A          117 LSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPD  196 (567)
T ss_dssp             HHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCC
T ss_pred             HHHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccc
Confidence            99999  6799999999997  5556889999988988988 899999999999999999999999999998875     


Q ss_pred             ---------CChHHHHHHHHHhhhCC
Q 006997          550 ---------GMWKEAATARGLMDDRR  566 (622)
Q Consensus       550 ---------g~~~~A~~~~~~~~~~~  566 (622)
                               +++++|.+.++++....
T Consensus       197 ~~~~~~~~~~~~~eel~~~~~ai~~~  222 (567)
T 1dce_A          197 SGPQGRLPENVLLKELELVQNAFFTD  222 (567)
T ss_dssp             SSSCCSSCHHHHHHHHHHHHHHHHHC
T ss_pred             ccccccccHHHHHHHHHHHHHHHhhC
Confidence                     56799999998887643

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.01  E-value=3.6e-05  Score=76.38  Aligned_cols=115  Identities=11%  Similarity=0.018  Sum_probs=88.7

Q ss_pred             HHHHhcCChHHHHHHHHhCC---------CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHc-----cCCCCCc---hH
Q 006997          478 DLLGRAGRFDLALKTIHEMP---------VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLT-----LNPGSTG---NY  539 (622)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~---------~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~p~~~~---~~  539 (622)
                      ..+...|++++|+.++++..         ..|+ ..+++.|+.+|..+|++++|+.+++++++     +.|++|.   .+
T Consensus       317 ~~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l  396 (490)
T 3n71_A          317 DKARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAV  396 (490)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHH
Confidence            34668899999999987763         2333 45788999999999999999999999986     4666654   58


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhhhCCCccCCCceEEEECCeEEEEEecCCCCcchHHHHHHHHHHHHHHH
Q 006997          540 ILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLL  610 (622)
Q Consensus       540 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  610 (622)
                      ..|+.+|..+|++++|+.++++..+-.. ...                 ...||...++...+.+...++.
T Consensus       397 ~nLa~~~~~~G~~~eA~~~~~~Al~i~~-~~l-----------------G~~Hp~~~~~~~~l~~~~~e~~  449 (490)
T 3n71_A          397 MRAGLTNWHAGHIEVGHGMICKAYAILL-VTH-----------------GPSHPITKDLEAMRMQTEMELR  449 (490)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHH-HHT-----------------CTTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHH-HHh-----------------CCCChHHHHHHHHHHHHHHHHH
Confidence            8999999999999999999999876211 111                 1258998888877777665554

>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=98.00  E-value=9e-06  Score=65.73  Aligned_cols=85  Identities=12%  Similarity=0.114  Sum_probs=50.9

Q ss_pred             chHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCC----------hHHHHHHHHhCC-CCC-cHHhHHHHHHHHHhc
Q 006997          449 MVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGR----------FDLALKTIHEMP-VEV-QAQVWAPLLSACMKH  515 (622)
Q Consensus       449 ~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~  515 (622)
                      .+++|++.+++..+.   .| +...|..+..++...++          +++|+..|+++. ..| ....|..++.+|...
T Consensus        17 ~feeA~~~~~~Ai~l---~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~l   93 (158)
T 1zu2_A           17 LFEQIRQDAENTYKS---NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSF   93 (158)
T ss_dssp             HHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh
Confidence            344455555544432   23 34444444444444443          346666666554 233 355666666666654


Q ss_pred             -----------CCHHHHHHHHHHHHccCCCCC
Q 006997          516 -----------HNVELGEYAAKNLLTLNPGST  536 (622)
Q Consensus       516 -----------~~~~~a~~~~~~~~~~~p~~~  536 (622)
                                 |++++|++.|+++++++|++.
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~  125 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAVDEQPDNT  125 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             cccCcchhhhhccHHHHHHHHHHHHHhCCCCH
Confidence                       589999999999999999764

>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=97.95  E-value=6.7e-05  Score=73.33  Aligned_cols=116  Identities=16%  Similarity=0.158  Sum_probs=88.6

Q ss_pred             HHHHHhcCChHHHHHHHHhCC------CCC---c-HHhHHHHHHHHHhcCCHHHHHHHHHHHHc-----cCCCCCc---h
Q 006997          477 VDLLGRAGRFDLALKTIHEMP------VEV---Q-AQVWAPLLSACMKHHNVELGEYAAKNLLT-----LNPGSTG---N  538 (622)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~~------~~~---~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~p~~~~---~  538 (622)
                      +..+.+.|++++|+.++++..      ..|   + ..+++.|+.+|...|++++|+.+++++++     +.|++|.   .
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            344556778888888877552      222   2 44688899999999999999999999986     4566554   5


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHhhhCCCccCCCceEEEECCeEEEEEecCCCCcchHHHHHHHHHHHHHHH
Q 006997          539 YILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLKELHIKLL  610 (622)
Q Consensus       539 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  610 (622)
                      +..|+.+|..+|++++|+.++++..+-.. ...                 ...||...+++..|.+...+|+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~~-~~l-----------------G~~Hp~~~~~~~~l~~~~~e~~  427 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIMR-VTH-----------------GREHSLIEDLILLLEECDANIR  427 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHH-HHT-----------------CTTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHH-Hhc-----------------CCCChHHHHHHHHHHHHHHHHh
Confidence            88999999999999999999999876211 111                 1269999999999998888876

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.93  E-value=6.3e-05  Score=55.32  Aligned_cols=65  Identities=18%  Similarity=0.224  Sum_probs=60.5

Q ss_pred             cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          501 QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       501 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      +...+..+...+...|++++|+..++++++..|+++.++..++.+|.+.|++++|...+++..+.
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            35678888999999999999999999999999999999999999999999999999999998874

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.85  E-value=5.7e-05  Score=58.67  Aligned_cols=80  Identities=13%  Similarity=0.030  Sum_probs=58.4

Q ss_pred             HHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 006997          452 DGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNL  528 (622)
Q Consensus       452 ~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  528 (622)
                      .|+..|+++.+   ..| +...+..+...|...|++++|+..++++.  .+.+...|..++.++...|++++|...++++
T Consensus         3 ~a~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            3 AITERLEAMLA---QGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CHHHHHHHHHT---TTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH---hCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            35566666663   244 46667777777888888888888887765  3344667888888888888888888888888


Q ss_pred             HccCCC
Q 006997          529 LTLNPG  534 (622)
Q Consensus       529 ~~~~p~  534 (622)
                      +++.|+
T Consensus        80 l~~~~~   85 (115)
T 2kat_A           80 LAAAQS   85 (115)
T ss_dssp             HHHHHH
T ss_pred             HHhccc
Confidence            888774

>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=97.81  E-value=0.00044  Score=61.58  Aligned_cols=87  Identities=13%  Similarity=0.024  Sum_probs=74.3

Q ss_pred             hHHHHHHHHhCC-CCCc---HHhHHHHHHHHHh-----cCCHHHHHHHHHHHHccCCCC-CchHHHHHHHHHhc-CChHH
Q 006997          486 FDLALKTIHEMP-VEVQ---AQVWAPLLSACMK-----HHNVELGEYAAKNLLTLNPGS-TGNYILMANLFTSA-GMWKE  554 (622)
Q Consensus       486 ~~~A~~~~~~~~-~~~~---~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~p~~-~~~~~~l~~~~~~~-g~~~~  554 (622)
                      ..+|...++++. ..|+   ...|..|+..|..     .|+.++|+++|+++++++|+. ..+++.+++.++.. |+.++
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            567777777776 5565   5678888888888     499999999999999999975 99999999999985 99999


Q ss_pred             HHHHHHHhhhCCCccCCC
Q 006997          555 AATARGLMDDRRLTKEPG  572 (622)
Q Consensus       555 A~~~~~~~~~~~~~~~~~  572 (622)
                      |.+.+++..+..+...|+
T Consensus       259 a~~~L~kAL~a~p~~~P~  276 (301)
T 3u64_A          259 FDEALDRALAIDPESVPH  276 (301)
T ss_dssp             HHHHHHHHHHCCGGGCSS
T ss_pred             HHHHHHHHHcCCCCCCCC
Confidence            999999999987765564

>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=97.79  E-value=6.1e-05  Score=73.41  Aligned_cols=103  Identities=9%  Similarity=0.029  Sum_probs=75.6

Q ss_pred             cCChHHHHHHHHhCC---------CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHc-----cCCCCCc---hHHHHHH
Q 006997          483 AGRFDLALKTIHEMP---------VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLT-----LNPGSTG---NYILMAN  544 (622)
Q Consensus       483 ~g~~~~A~~~~~~~~---------~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~p~~~~---~~~~l~~  544 (622)
                      .|++++|+.++++..         ..|+ ..+++.|+.+|..+|++++|+.+++++++     +.|++|.   .++.|+.
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~  390 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGR  390 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHH
Confidence            456677776666542         2333 45688899999999999999999999986     4566654   5889999


Q ss_pred             HHHhcCChHHHHHHHHHhhhCCCccCCCceEEEECCeEEEEEecCCCCcchHHHHHHHH
Q 006997          545 LFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRSHHLSVDIRKTLK  603 (622)
Q Consensus       545 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~  603 (622)
                      +|..+|++++|+.++++..+-.. ...                 ...||...+++..|.
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~i~~-~~l-----------------G~~Hp~~~~l~~~l~  431 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIAIME-VAH-----------------GKDHPYISEIKQEIE  431 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHH-HHT-----------------CTTCHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHHHHH-HHc-----------------CCCChHHHHHHHHHh
Confidence            99999999999999999876211 111                 125898888765543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.77  E-value=4.5e-05  Score=57.29  Aligned_cols=81  Identities=16%  Similarity=0.058  Sum_probs=61.2

Q ss_pred             HHHHHHhcCChHHHHHHHHhCC--CCCcHH-hHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCCh
Q 006997          476 LVDLLGRAGRFDLALKTIHEMP--VEVQAQ-VWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMW  552 (622)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~--~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  552 (622)
                      ....+.+.|++++|+..++++.  .+.+.. .|..++.++...|++++|+..++++++++|+++.++..        +.+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~~~   77 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------KMV   77 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------HHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------HHH
Confidence            4556777888888888888765  333456 78888888888999999999999999999988877633        566


Q ss_pred             HHHHHHHHHhhh
Q 006997          553 KEAATARGLMDD  564 (622)
Q Consensus       553 ~~A~~~~~~~~~  564 (622)
                      .++...|++...
T Consensus        78 ~~a~~~~~~~~~   89 (99)
T 2kc7_A           78 MDILNFYNKDMY   89 (99)
T ss_dssp             HHHHHHHCCTTH
T ss_pred             HHHHHHHHHHhc
Confidence            667777765544

>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=97.75  E-value=0.00031  Score=56.44  Aligned_cols=112  Identities=8%  Similarity=-0.112  Sum_probs=93.3

Q ss_pred             CCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh----cCChH
Q 006997          412 GMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGR----AGRFD  487 (622)
Q Consensus       412 ~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~  487 (622)
                      +++++|++.|++..+ .| .|+..    +...|...+.+++|.+.|++..+.    -++.....|...|..    .++++
T Consensus         9 ~d~~~A~~~~~~aa~-~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~   78 (138)
T 1klx_A            9 KDLKKAIQYYVKACE-LN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLR   78 (138)
T ss_dssp             HHHHHHHHHHHHHHH-TT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             cCHHHHHHHHHHHHc-CC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCCCCCccHH
Confidence            468899999999988 55 34333    777788888899999999998853    467788888899988    88999


Q ss_pred             HHHHHHHhCCCCCcHHhHHHHHHHHHh----cCCHHHHHHHHHHHHccCC
Q 006997          488 LALKTIHEMPVEVQAQVWAPLLSACMK----HHNVELGEYAAKNLLTLNP  533 (622)
Q Consensus       488 ~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p  533 (622)
                      +|.++|++.....++.....|...|..    .+|.++|...++++.+...
T Consensus        79 ~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           79 KAAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            999999998755678888889999988    8999999999999998754

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.67  E-value=0.00016  Score=57.66  Aligned_cols=64  Identities=8%  Similarity=-0.047  Sum_probs=30.6

Q ss_pred             cHHhHHHHHHHHHhcC---CHHHHHHHHHHHHccC-C-CCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          501 QAQVWAPLLSACMKHH---NVELGEYAAKNLLTLN-P-GSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       501 ~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      +..+...+.+++.+.+   +.++++.+++.+++.+ | ++.+.++.++-.|.+.|++++|++.++.+.+
T Consensus        31 ~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~   99 (152)
T 1pc2_A           31 SKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ   99 (152)
T ss_dssp             CHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            3444444444444444   3334555555555444 3 3344445555555555555555555554444

>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=97.66  E-value=0.00074  Score=62.93  Aligned_cols=47  Identities=13%  Similarity=0.121  Sum_probs=28.8

Q ss_pred             CChhHHHHHHHHHH--HcC---CHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHh
Q 006997          396 KDLAVWSAMINGYA--IHG---MGDQALNLFYKMQHVEGLKPD-AVVYTSILSACS  445 (622)
Q Consensus       396 ~~~~~~~~l~~~~~--~~~---~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~  445 (622)
                      .+...|...+.+..  ..+   +..+|..+|+++.+   ..|+ ...+..+..+|.
T Consensus       192 ~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~---lDP~~a~A~A~la~a~~  244 (372)
T 3ly7_A          192 HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQ---SSPEFTYARAEKALVDI  244 (372)
T ss_dssp             SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHH
Confidence            35566666665432  233   34788999999988   7787 345554444443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.62  E-value=0.00011  Score=55.04  Aligned_cols=61  Identities=18%  Similarity=0.282  Sum_probs=55.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHccCCCCCc-hHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          507 PLLSACMKHHNVELGEYAAKNLLTLNPGSTG-NYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       507 ~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ..+..+...|++++|+..++++++.+|+++. .+..++.+|...|++++|.+.|++..+.++
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p   66 (99)
T 2kc7_A            5 KTIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNP   66 (99)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            3556778899999999999999999999999 999999999999999999999999987544

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.59  E-value=0.00014  Score=54.68  Aligned_cols=66  Identities=8%  Similarity=-0.112  Sum_probs=47.7

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC
Q 006997          469 SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG  534 (622)
Q Consensus       469 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  534 (622)
                      +...+..+..+|.+.|++++|+..|+++.  .+.+...|..++.++...|++++|+..+++++++.|.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~   73 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVARE   73 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhc
Confidence            45666677777777777777777777765  3334667777888888888888888888888877653

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.58  E-value=1.3e-05  Score=75.78  Aligned_cols=370  Identities=12%  Similarity=0.056  Sum_probs=238.7

Q ss_pred             ChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhc
Q 006997          164 EIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQ  243 (622)
Q Consensus       164 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  243 (622)
                      .+.+|+.|..+....|++.+|+.-|=+  ..|...|..+|.+..+.|.+++-+..+...++..-.|  ..=+.|+-+|++
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIk--A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~--~IDteLi~ayAk  128 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARES--YVETELIFALAK  128 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCC--CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCST--TTTHHHHHHHHT
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHh--CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccc--ccHHHHHHHHHh
Confidence            677889999999999988888765533  3567788899999999999999999988777654334  344578889999


Q ss_pred             cCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcC------------------------CCCHHH
Q 006997          244 VGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVL------------------------EKSVFL  299 (622)
Q Consensus       244 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~------------------------~~~~~~  299 (622)
                      .+++.+-++++.       .|+..-...+.+-|...|.++.|.-+|..+.                        ..++.+
T Consensus       129 ~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~kt  201 (624)
T 3lvg_A          129 TNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRT  201 (624)
T ss_dssp             SCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCS
T ss_pred             hCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhH
Confidence            988766555442       4666666778888888888888888877663                        126678


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh
Q 006997          300 WTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSK  379 (622)
Q Consensus       300 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  379 (622)
                      |-.+-.+|...+.+.-|.-.--.++-.   |+  ....++..|...|-+++...+++...... .....+|+-|.-.|++
T Consensus       202 WKeV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsK  275 (624)
T 3lvg_A          202 WKEVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSK  275 (624)
T ss_dssp             HHHHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHS
T ss_pred             HHHHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHh
Confidence            999999999999888776554444421   11  12245566788888888888887766432 4567888989888887


Q ss_pred             cCChHHHHHHhccCCC----C-------ChhHHHHHHHHHHHcCCHHHHHHHH-------------HHhHHhcCCCCCHH
Q 006997          380 CGRINKAKEVFERVPD----K-------DLAVWSAMINGYAIHGMGDQALNLF-------------YKMQHVEGLKPDAV  435 (622)
Q Consensus       380 ~~~~~~A~~~~~~~~~----~-------~~~~~~~l~~~~~~~~~~~~a~~~~-------------~~~~~~~~~~p~~~  435 (622)
                      - ++++..+.++....    |       ....|.-++-.|..-.+++.|....             .++..   --+|..
T Consensus       276 Y-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~ltMi~h~~~Aw~h~~Fkdii~---KVaN~E  351 (624)
T 3lvg_A          276 F-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIIT---KVANVE  351 (624)
T ss_dssp             S-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHHTTTSCHHHHCCGGGGTTTGG---GCSCSH
T ss_pred             c-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHHHHHhCChhhccHHHHHHHHH---HcchHH
Confidence            5 56777666654332    2       4467888999999888888765321             11110   112222


Q ss_pred             HH---------------HHHHHHHhccCchHHHHHHHHHhHHhc-------CCC-C-ChhHHHHHHHHHHhcCChHHHHH
Q 006997          436 VY---------------TSILSACSHSGMVDDGLSFFKSMQSNF-------GIE-P-SIEHYLCLVDLLGRAGRFDLALK  491 (622)
Q Consensus       436 ~~---------------~~ll~~~~~~g~~~~a~~~~~~~~~~~-------~~~-p-~~~~~~~l~~~~~~~g~~~~A~~  491 (622)
                      .|               +-++.++...=|..++.++|++.-.-.       .+. . +..+-.++-+.|....+++.-.+
T Consensus       352 iyYKAi~FYL~e~P~lL~DLL~vL~prlDh~RvV~~~~k~~~LpLIkpYL~~Vq~~N~~aVNeAln~L~IEEEDy~~LR~  431 (624)
T 3lvg_A          352 LYYRAIQFYLEFKPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFITEEDYQALRT  431 (624)
T ss_dssp             HHHHHHHHHTTSCCTTSHHHHHHHCTTCCSTTTHHHHHTTTCGGGGTGGGTSCCCSCCHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHHHHHHHHHhChHHHHHHHHhccccCChHHHHHHHHhcCCchhhHHHHHHHHHhhHHHHHHHHHHHHhhhhhHHHHHH
Confidence            33               334444444445556666665432100       111 1 23344567778888888776665


Q ss_pred             HHHhCC------------CCCcHHhHHHHHHHHHhcCCHHHHHHHHH------HHHc--cCCCCCchHHHHHHHHHhcCC
Q 006997          492 TIHEMP------------VEVQAQVWAPLLSACMKHHNVELGEYAAK------NLLT--LNPGSTGNYILMANLFTSAGM  551 (622)
Q Consensus       492 ~~~~~~------------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~------~~~~--~~p~~~~~~~~l~~~~~~~g~  551 (622)
                      -++...            ..+-...-..-...|.+.+++++++.+.+      .+++  ....++..-..|.+-+...|+
T Consensus       432 SId~ydNFD~i~LA~rLEkHeL~eFRrIAA~LYkkn~rw~qsi~l~KkDklykDAietAa~S~~~elaeeLL~yFv~~g~  511 (624)
T 3lvg_A          432 SIDAYDNFDNISLAQRLEKHELIEFRRIAAYLFKGNNRWKQSVELCKKDSLYKDAMQYASESKDTELAEELLQWFLQEEK  511 (624)
T ss_dssp             TTSSCCCSCTTHHHHHHHTCSSHHHHHHHHHHHHTTCHHHHHSSCSSTTCCTTGGGTTTTTCCCTTHHHHHHHHHHHHCS
T ss_pred             HHHHhccccHHHHHHHHhhCchHHHHHHHHHHHHhcccHHHHHHHHHhcccHHHHHHHHHHcCCHHHHHHHHHHHHHcCc
Confidence            555443            11111122223345667777777766443      3444  345566777777777777777


Q ss_pred             hHH
Q 006997          552 WKE  554 (622)
Q Consensus       552 ~~~  554 (622)
                      .+-
T Consensus       512 ~Ec  514 (624)
T 3lvg_A          512 REC  514 (624)
T ss_dssp             THH
T ss_pred             hHH
Confidence            664

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.56  E-value=2e-06  Score=81.24  Aligned_cols=232  Identities=14%  Similarity=0.109  Sum_probs=108.7

Q ss_pred             CcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHHHHHH
Q 006997           29 NSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAH  108 (622)
Q Consensus        29 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~~  108 (622)
                      |+..|..++.++.+.|.++.-...+...++.  ..++.+=+.|+-+|++.++..+..+++.     .||+.-...+..-|
T Consensus        82 Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~--~ke~~IDteLi~ayAk~~rL~elEefl~-----~~N~A~iq~VGDrc  154 (624)
T 3lvg_A           82 DPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEFIN-----GPNNAHIQQVGDRC  154 (624)
T ss_dssp             CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT--CCSTTTTHHHHHHHHTSCSSSTTTSTTS-----CCSSSCTHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccHHHHHHHHHhhCcHHHHHHHHc-----CCCcccHHHHHHHH
Confidence            3444555555555555555555555544443  2333334455555555555444333222     34444444555555


Q ss_pred             HhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhhHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHH
Q 006997          109 SRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQGISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIF  188 (622)
Q Consensus       109 ~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  188 (622)
                      ...|.++.|.-+|..+..                                         |..|...+.+.|++..|.+.-
T Consensus       155 f~e~lYeAAKilys~isN-----------------------------------------~akLAstLV~L~~yq~AVdaA  193 (624)
T 3lvg_A          155 YDEKMYDAAKLLYNNVSN-----------------------------------------FGRLASTLVHLGEYQAAVDGA  193 (624)
T ss_dssp             HHSCCSTTSSTTGGGSCC-----------------------------------------CTTTSSSSSSCSGGGSSTTTT
T ss_pred             HHccCHHHHHHHHHhCcc-----------------------------------------HHHHHHHHHHHHHHHHHHHHH
Confidence            555555555544443321                                         122222333334443332221


Q ss_pred             hhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchh
Q 006997          189 DEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPL  268 (622)
Q Consensus       189 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  268 (622)
                      +.  ..++.+|-.+-.+|...+.+.-|.-.--.+.-   .||  ....++..|-..|.+++-..+++.-.... ......
T Consensus       194 rK--Ans~ktWKeV~~ACvd~~EfrLAqicGLniIv---had--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGm  265 (624)
T 3lvg_A          194 RK--ANSTRTWKEVCFACVDGKEFRLAQMCGLHIVV---HAD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGM  265 (624)
T ss_dssp             TT--CCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHC---CSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHH
T ss_pred             Hh--cCChhHHHHHHHHHhCchHHHHHHHhcchhcc---cHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHH
Confidence            11  13556677776777776666655443333321   111  12234445555666666666555544221 344555


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcCC----C-------CHHHHHHHHHHHHhcCChHHHH
Q 006997          269 DNLLVSMYTKCGDLELARRVFDAVLE----K-------SVFLWTSMIGGYAQLGYPSEAV  317 (622)
Q Consensus       269 ~~~l~~~~~~~~~~~~a~~~~~~~~~----~-------~~~~~~~l~~~~~~~~~~~~a~  317 (622)
                      ++-|.-.|++- ++++..+.++..-.    |       ....|.-++-.|+.-.+++.|.
T Consensus       266 FTELaILYsKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~  324 (624)
T 3lvg_A          266 FTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  324 (624)
T ss_dssp             HHHHHHHHHSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHH
Confidence            66666666654 33333333332211    1       2234666666666666666553

>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=97.38  E-value=0.00086  Score=65.33  Aligned_cols=95  Identities=18%  Similarity=0.103  Sum_probs=68.6

Q ss_pred             ccCchHHHHHHHHHhHHhc--CCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC---------CCCc-HHhHHHHH
Q 006997          446 HSGMVDDGLSFFKSMQSNF--GIEPS----IEHYLCLVDLLGRAGRFDLALKTIHEMP---------VEVQ-AQVWAPLL  509 (622)
Q Consensus       446 ~~g~~~~a~~~~~~~~~~~--~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~~~-~~~~~~l~  509 (622)
                      ..|++++|+.++++.....  -+.|+    ..+++.|..+|...|++++|+.+++++.         ..|+ ..+++.|+
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            3467777777777765421  11222    4567778888888888888888887763         3444 44688899


Q ss_pred             HHHHhcCCHHHHHHHHHHHHc-----cCCCCCchHH
Q 006997          510 SACMKHHNVELGEYAAKNLLT-----LNPGSTGNYI  540 (622)
Q Consensus       510 ~~~~~~~~~~~a~~~~~~~~~-----~~p~~~~~~~  540 (622)
                      ..|..+|++++|+.+++++++     +.|++|.+-.
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~  425 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYISE  425 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHHH
Confidence            999999999999999999987     5787776544

>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=97.37  E-value=0.0018  Score=60.38  Aligned_cols=134  Identities=14%  Similarity=0.121  Sum_probs=93.6

Q ss_pred             CCCCHHHHHHHHHHHh--cc---CchHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHH----hcCC-------hHHHHHH
Q 006997          430 LKPDAVVYTSILSACS--HS---GMVDDGLSFFKSMQSNFGIEPS-IEHYLCLVDLLG----RAGR-------FDLALKT  492 (622)
Q Consensus       430 ~~p~~~~~~~ll~~~~--~~---g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~----~~g~-------~~~A~~~  492 (622)
                      .+.+...|...+++..  ..   .+..+|+.+|+++.+.   .|+ ...+..+..+|.    ..+.       ...+.+-
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l---DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a  266 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS---SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDN  266 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHH
Confidence            4445667777776543  33   3457899999999955   776 444444443332    1111       1122222


Q ss_pred             HHhCC-CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          493 IHEMP-VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       493 ~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ...+. .+.++.++..+...+...|++++|...++++++++| +...|..++.++.-.|++++|.+.|++....++
T Consensus       267 ~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~-s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P  341 (372)
T 3ly7_A          267 IVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEM-SWLNYVLLGKVYEMKGMNREAADAYLTAFNLRP  341 (372)
T ss_dssp             HHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSC
T ss_pred             HHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            22233 355677788887777778999999999999999998 567788999999999999999999999887554

>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=97.27  E-value=0.002  Score=62.92  Aligned_cols=101  Identities=8%  Similarity=-0.084  Sum_probs=72.4

Q ss_pred             HHHHhccCchHHHHHHHHHhHHhc--CCCCC----hhHHHHHHHHHHhcCChHHHHHHHHhCC---------CCCc-HHh
Q 006997          441 LSACSHSGMVDDGLSFFKSMQSNF--GIEPS----IEHYLCLVDLLGRAGRFDLALKTIHEMP---------VEVQ-AQV  504 (622)
Q Consensus       441 l~~~~~~g~~~~a~~~~~~~~~~~--~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~~~-~~~  504 (622)
                      +..+.+.|++++|+.++++.....  -+.|+    ..+++.|+.+|...|++++|+.+++++.         ..|+ ..+
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            334556678888888887776421  11222    4567778888888888888888887663         3344 446


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHc-----cCCCCCchHHH
Q 006997          505 WAPLLSACMKHHNVELGEYAAKNLLT-----LNPGSTGNYIL  541 (622)
Q Consensus       505 ~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~p~~~~~~~~  541 (622)
                      ++.|+..|..+|++++|+.+++++++     +.|++|.+-..
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~  415 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIEDL  415 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHHH
Confidence            88899999999999999999999976     57877765543

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=97.07  E-value=0.12  Score=52.49  Aligned_cols=116  Identities=9%  Similarity=0.012  Sum_probs=70.3

Q ss_pred             CCHHHHHHHHHHhHHhcCCCCCHH--HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHH
Q 006997          412 GMGDQALNLFYKMQHVEGLKPDAV--VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLA  489 (622)
Q Consensus       412 ~~~~~a~~~~~~~~~~~~~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  489 (622)
                      ++.+.|...|....+...+.+...  ....+.......+...++...+......   .++.....-.+....+.|+++.|
T Consensus       228 ~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~e~~~r~Alr~~d~~~a  304 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRGL  304 (618)
T ss_dssp             HCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cCHHHHHHHHHhhhhccCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc---CCChHHHHHHHHHHHHCCCHHHH
Confidence            478899999988865233322221  2333444444555355666666665432   34444444444555677999999


Q ss_pred             HHHHHhCCCCC-c-HHhHHHHHHHHHhcCCHHHHHHHHHHHHc
Q 006997          490 LKTIHEMPVEV-Q-AQVWAPLLSACMKHHNVELGEYAAKNLLT  530 (622)
Q Consensus       490 ~~~~~~~~~~~-~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  530 (622)
                      ...|+.++..+ + .....=+..+....|+.++|..+|+++.+
T Consensus       305 ~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          305 NTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            99999987332 2 21112244466678999999999998875

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=97.07  E-value=0.0027  Score=47.84  Aligned_cols=72  Identities=13%  Similarity=0.042  Sum_probs=52.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC---------CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHH
Q 006997          472 HYLCLVDLLGRAGRFDLALKTIHEMP---------VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILM  542 (622)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  542 (622)
                      ....+...+.+.|++..|..+++.+.         ..+...++..|..++.+.|+++.|...+++++++.|+++.+...+
T Consensus         7 dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~n~   86 (104)
T 2v5f_A            7 DCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (104)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHhhH
Confidence            33445555566666666666665542         123466788999999999999999999999999999988776665


Q ss_pred             H
Q 006997          543 A  543 (622)
Q Consensus       543 ~  543 (622)
                      .
T Consensus        87 ~   87 (104)
T 2v5f_A           87 K   87 (104)
T ss_dssp             H
T ss_pred             H
Confidence            4

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.97  E-value=0.0034  Score=50.07  Aligned_cols=91  Identities=15%  Similarity=0.020  Sum_probs=67.1

Q ss_pred             chHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcC---ChHHHHHHHHhCC-CC-C--cHHhHHHHHHHHHhcCCHHHH
Q 006997          449 MVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAG---RFDLALKTIHEMP-VE-V--QAQVWAPLLSACMKHHNVELG  521 (622)
Q Consensus       449 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~-~~-~--~~~~~~~l~~~~~~~~~~~~a  521 (622)
                      ....+.+.|.+.... + .++..+.-.+..++.+++   +.++++.++++.. .. |  ....+..|.-++.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~-~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHT-T-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHH
Confidence            345556666655543 2 367777777788888877   5668888887765 23 4  356777888899999999999


Q ss_pred             HHHHHHHHccCCCCCchHHH
Q 006997          522 EYAAKNLLTLNPGSTGNYIL  541 (622)
Q Consensus       522 ~~~~~~~~~~~p~~~~~~~~  541 (622)
                      .+.++++++.+|++..+...
T Consensus        91 ~~y~~~lL~ieP~n~QA~~L  110 (152)
T 1pc2_A           91 LKYVRGLLQTEPQNNQAKEL  110 (152)
T ss_dssp             HHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHhcCCCCHHHHHH
Confidence            99999999999987655543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.96  E-value=0.0079  Score=43.95  Aligned_cols=68  Identities=7%  Similarity=-0.096  Sum_probs=53.3

Q ss_pred             CCChhHHHHHHHHHHhcCC---hHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCC
Q 006997          467 EPSIEHYLCLVDLLGRAGR---FDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPG  534 (622)
Q Consensus       467 ~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~  534 (622)
                      +.++..+..+..++...++   .++|..++++..  .+.++..+..++..+...|++++|+..++++++.+|.
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            4467777777777765544   688888888876  3444677788888889999999999999999999987

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.95  E-value=0.047  Score=58.81  Aligned_cols=154  Identities=12%  Similarity=0.106  Sum_probs=95.3

Q ss_pred             HHhcCChHHHHH-HHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHH
Q 006997          307 YAQLGYPSEAVN-LFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINK  385 (622)
Q Consensus       307 ~~~~~~~~~a~~-~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  385 (622)
                      ....+++++|.+ ++..      .|+......++..+.+.|..+.|.++.+.         .   ..-.......|+++.
T Consensus       609 ~~~~~~~~~a~~~~l~~------i~~~~~~~~~~~~l~~~~~~~~a~~~~~~---------~---~~~f~~~l~~~~~~~  670 (814)
T 3mkq_A          609 LTLRGEIEEAIENVLPN------VEGKDSLTKIARFLEGQEYYEEALNISPD---------Q---DQKFELALKVGQLTL  670 (814)
T ss_dssp             HHHTTCHHHHHHHTGGG------CCCHHHHHHHHHHHHHTTCHHHHHHHCCC---------H---HHHHHHHHHHTCHHH
T ss_pred             HHHhCCHHHHHHHHHhc------CCchHHHHHHHHHHHhCCChHHheecCCC---------c---chheehhhhcCCHHH
Confidence            345667777665 4321      11122235556666677777777655421         1   111334567789999


Q ss_pred             HHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcC
Q 006997          386 AKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFG  465 (622)
Q Consensus       386 A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  465 (622)
                      |.++.+.+.  +...|..+...+.+.++++.|++.|.++..          |..+...+...|+.+...++-+..... |
T Consensus       671 A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d----------~~~l~~l~~~~~~~~~~~~~~~~a~~~-~  737 (814)
T 3mkq_A          671 ARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD----------LESLFLLHSSFNNKEGLVTLAKDAETT-G  737 (814)
T ss_dssp             HHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC----------HHHHHHHHHHTTCHHHHHHHHHHHHHT-T
T ss_pred             HHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC----------hhhhHHHHHHcCCHHHHHHHHHHHHHc-C
Confidence            988887763  567888999999999999999999988776          445555556667776655555444432 1


Q ss_pred             CCCChhHHHHHHHHHHhcCChHHHHHHHHhCC
Q 006997          466 IEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP  497 (622)
Q Consensus       466 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  497 (622)
                            .++....+|.+.|++++|++++.++.
T Consensus       738 ------~~~~A~~~~~~~g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          738 ------KFNLAFNAYWIAGDIQGAKDLLIKSQ  763 (814)
T ss_dssp             ------CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             ------chHHHHHHHHHcCCHHHHHHHHHHcC
Confidence                  12333445666777777776666553

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.82  E-value=0.0061  Score=46.69  Aligned_cols=87  Identities=16%  Similarity=0.014  Sum_probs=38.8

Q ss_pred             chHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHH---HHHHHHhCC-CC-C--cHHhHHHHHHHHHhcCCHHHH
Q 006997          449 MVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDL---ALKTIHEMP-VE-V--QAQVWAPLLSACMKHHNVELG  521 (622)
Q Consensus       449 ~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~-~~-~--~~~~~~~l~~~~~~~~~~~~a  521 (622)
                      ....+.+-|.+.... | .|+..+--.+..++.++.+..+   ++.++++.. .. |  .......|.-++.+.|+++.|
T Consensus        16 ~l~~~~~~y~~e~~~-~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A   93 (126)
T 1nzn_A           16 DLLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   93 (126)
T ss_dssp             HHHHHHHHHHHHHHH-S-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHH
Confidence            344444444444332 2 2444444445555555544333   555555443 11 2  122333344444555555555


Q ss_pred             HHHHHHHHccCCCCCc
Q 006997          522 EYAAKNLLTLNPGSTG  537 (622)
Q Consensus       522 ~~~~~~~~~~~p~~~~  537 (622)
                      .+.++.+++.+|+|..
T Consensus        94 ~~~~~~lL~~eP~n~Q  109 (126)
T 1nzn_A           94 LKYVRGLLQTEPQNNQ  109 (126)
T ss_dssp             HHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHhCCCCHH
Confidence            5555555555554433

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.76  E-value=0.12  Score=55.69  Aligned_cols=100  Identities=17%  Similarity=0.201  Sum_probs=65.8

Q ss_pred             HHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHH
Q 006997          173 SMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALS  252 (622)
Q Consensus       173 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  252 (622)
                      ......|+++.|.++.+.+.  +...|..+...+.+.++++.|.+.|.++.+         |..+...+...++.+...+
T Consensus       660 ~~~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~  728 (814)
T 3mkq_A          660 ELALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVT  728 (814)
T ss_dssp             HHHHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHH
T ss_pred             ehhhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHH
Confidence            34556788999988887764  457888899999999999999999887753         3344445555666666555


Q ss_pred             HHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHH
Q 006997          253 MHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVF  289 (622)
Q Consensus       253 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  289 (622)
                      +-+.....|.      ++....+|.+.|++++|.+++
T Consensus       729 ~~~~a~~~~~------~~~A~~~~~~~g~~~~a~~~~  759 (814)
T 3mkq_A          729 LAKDAETTGK------FNLAFNAYWIAGDIQGAKDLL  759 (814)
T ss_dssp             HHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHcCc------hHHHHHHHHHcCCHHHHHHHH
Confidence            5555544431      233344455566666666553

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.72  E-value=0.13  Score=39.39  Aligned_cols=141  Identities=11%  Similarity=0.074  Sum_probs=96.7

Q ss_pred             HHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChH
Q 006997          408 YAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFD  487 (622)
Q Consensus       408 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  487 (622)
                      +...|..++..++..+...    ..+..-++.++--....-+-+-..++++.+-+-|.+.+              +|+..
T Consensus        17 ~ildG~v~qGveii~k~~~----ssni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis~--------------C~NlK   78 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITK----SSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDK--------------CQNLK   78 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHH----HSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGG--------------CSCTH
T ss_pred             HHHhhhHHHHHHHHHHHcC----CCCccccceeeeecchhhchhHHHHHHHHHhhhcCcHh--------------hhcHH
Confidence            3456788888888888776    12334455555555555566667777777655444333              34444


Q ss_pred             HHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          488 LALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       488 ~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      .....+-.+.  .+.......+.....+|.-+.-.+++..++..+|-+|+...-++.+|.+.|+..+|.+++.++.++|+
T Consensus        79 rVi~C~~~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           79 SVVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            4444444432  23334455667778899999999999997776666899999999999999999999999999999887


Q ss_pred             c
Q 006997          568 T  568 (622)
Q Consensus       568 ~  568 (622)
                      +
T Consensus       157 k  157 (172)
T 1wy6_A          157 K  157 (172)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=96.69  E-value=0.0051  Score=48.15  Aligned_cols=51  Identities=12%  Similarity=-0.132  Sum_probs=29.3

Q ss_pred             CCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          516 HNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       516 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      +|.++|.++|+.++.+...-+.+|...+..-.++|+.+.|++++.+.+..+
T Consensus        74 ~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~  124 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERG  124 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             cCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccC
Confidence            556666666666655544444555555555566666666666666555543

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.52  E-value=0.15  Score=41.73  Aligned_cols=104  Identities=11%  Similarity=0.091  Sum_probs=65.4

Q ss_pred             HHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHH
Q 006997          375 HMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGL  454 (622)
Q Consensus       375 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~  454 (622)
                      +.-..+|+++.|.++.+.+  .+...|..+.......|+++-|.+.|.+..+          +..+.-.|...|+.+...
T Consensus        13 ~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D----------~~~L~~Ly~~tg~~e~L~   80 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS----------FDKLSFLYLVTGDVNKLS   80 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC----------HHHHHHHHHHHTCHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC----------HHHHHHHHHHhCCHHHHH
Confidence            3445667777777776655  3566777777777777888888777777665          445555566667766655


Q ss_pred             HHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC
Q 006997          455 SFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP  497 (622)
Q Consensus       455 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  497 (622)
                      ++-+....+ |      -++.....+.-.|+++++.+++.+..
T Consensus        81 kla~iA~~~-g------~~n~af~~~l~lGdv~~~i~lL~~~~  116 (177)
T 3mkq_B           81 KMQNIAQTR-E------DFGSMLLNTFYNNSTKERSSIFAEGG  116 (177)
T ss_dssp             HHHHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHHHHC-c------cHHHHHHHHHHcCCHHHHHHHHHHCC
Confidence            554444322 1      13334445556677777777776654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.35  E-value=0.015  Score=60.22  Aligned_cols=56  Identities=14%  Similarity=0.050  Sum_probs=51.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhh
Q 006997          508 LLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMD  563 (622)
Q Consensus       508 l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  563 (622)
                      -...|...|+++.|+++.++++...|.+..+|..|+.+|...|+|+.|+-.+..++
T Consensus       343 Qa~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          343 QTNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            34456778999999999999999999999999999999999999999999999886

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.16  E-value=0.063  Score=41.09  Aligned_cols=86  Identities=15%  Similarity=0.084  Sum_probs=50.4

Q ss_pred             CCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHH---HHHHHHHhHHhcCCCC--ChhHHHHHHHHHHhcCCh
Q 006997          412 GMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDD---GLSFFKSMQSNFGIEP--SIEHYLCLVDLLGRAGRF  486 (622)
Q Consensus       412 ~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~---a~~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~  486 (622)
                      .....+.+.|.+... .|. |+..+-..+..++.+..+...   ++.+++.+... + .|  .......|.-++.+.|++
T Consensus        15 ~~l~~~~~~y~~e~~-~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~-~-~p~~~Rd~lY~LAvg~yklg~Y   90 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKA-AGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPK-G-SKEEQRDYVFYLAVGNYRLKEY   90 (126)
T ss_dssp             HHHHHHHHHHHHHHH-HSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTT-S-CHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHhc-cCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-C-CcchHHHHHHHHHHHHHHhhhH
Confidence            344455555555544 333 566665566666666665544   77777776643 1 23  334445566677777777


Q ss_pred             HHHHHHHHhCC-CCCc
Q 006997          487 DLALKTIHEMP-VEVQ  501 (622)
Q Consensus       487 ~~A~~~~~~~~-~~~~  501 (622)
                      ++|.+.++.+. .+|+
T Consensus        91 ~~A~~~~~~lL~~eP~  106 (126)
T 1nzn_A           91 EKALKYVRGLLQTEPQ  106 (126)
T ss_dssp             HHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHhCCC
Confidence            77777777765 4443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.04  E-value=0.019  Score=43.08  Aligned_cols=64  Identities=9%  Similarity=-0.088  Sum_probs=54.2

Q ss_pred             HHhHHHHHHHHHhcCCHHHHHHHHHHHHccC-------CCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          502 AQVWAPLLSACMKHHNVELGEYAAKNLLTLN-------PGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       502 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      ..-...++..+...|+++.|..-++++++..       +..+.++..++.+|.+.|++++|...++++.+.
T Consensus         5 a~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            5 AEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            3445578889999999999999999998853       234568999999999999999999999999763

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=96.01  E-value=0.2  Score=39.02  Aligned_cols=65  Identities=9%  Similarity=-0.017  Sum_probs=31.2

Q ss_pred             CcHHhHHHHHHHHHhcCC---HHHHHHHHHHHHccCCC-CCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          500 VQAQVWAPLLSACMKHHN---VELGEYAAKNLLTLNPG-STGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       500 ~~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      |+..+--.+.+++.+..+   ..+++.+++.++...|. ..+..+.|+-.+.+.|++++|+++.+.+++
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            333344444444444332   33455555555554442 233444555555555555555555555554

>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=95.65  E-value=0.022  Score=50.81  Aligned_cols=81  Identities=12%  Similarity=0.104  Sum_probs=43.8

Q ss_pred             HHHHHHHHHhHHhcCCCCC---hhHHHHHHHHHHh-----cCChHHHHHHHHhCC-CCCc--HHhHHHHHHHHHh-cCCH
Q 006997          451 DDGLSFFKSMQSNFGIEPS---IEHYLCLVDLLGR-----AGRFDLALKTIHEMP-VEVQ--AQVWAPLLSACMK-HHNV  518 (622)
Q Consensus       451 ~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~-----~g~~~~A~~~~~~~~-~~~~--~~~~~~l~~~~~~-~~~~  518 (622)
                      ..|...++++.+   +.|+   ...|..+...|.+     -|+.++|.+.|++.. ..|+  ..++..+...++. .|+.
T Consensus       180 ~~A~a~lerAle---LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          180 HAAVMMLERACD---LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHH---HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHH---hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            344444444442   2444   3345555555555     256666666666554 3332  4455555555555 3667


Q ss_pred             HHHHHHHHHHHccCCC
Q 006997          519 ELGEYAAKNLLTLNPG  534 (622)
Q Consensus       519 ~~a~~~~~~~~~~~p~  534 (622)
                      +++.+.+++++...|.
T Consensus       257 ~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          257 AGFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHHcCCCC
Confidence            7777777777776664

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.59  E-value=0.77  Score=37.62  Aligned_cols=129  Identities=12%  Similarity=0.091  Sum_probs=80.9

Q ss_pred             HHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHH
Q 006997          274 SMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKE  353 (622)
Q Consensus       274 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  353 (622)
                      ......|+++.|.++.+.+  .+...|..|.......|+++-|.+.|.+...         +..+.-.|...|+.+....
T Consensus        13 ~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~k   81 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHH
Confidence            3456778888888887766  4577888888888889999888888887642         2344445556677776666


Q ss_pred             HHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHh
Q 006997          354 IEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKM  424 (622)
Q Consensus       354 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  424 (622)
                      +-+.....| .     ++.-...+.-.|+++++.++|.+....+.     -.......|-.+.|.++.+.+
T Consensus        82 la~iA~~~g-~-----~n~af~~~l~lGdv~~~i~lL~~~~r~~e-----A~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           82 MQNIAQTRE-D-----FGSMLLNTFYNNSTKERSSIFAEGGSLPL-----AYAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHTT-C-----HHHHHHHHHHHTCHHHHHHHHHHTTCHHH-----HHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHCc-c-----HHHHHHHHHHcCCHHHHHHHHHHCCChHH-----HHHHHHHcCcHHHHHHHHHHh
Confidence            655555544 1     34444455566788887777766543111     111122345556666665554

>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=95.12  E-value=0.17  Score=39.75  Aligned_cols=104  Identities=10%  Similarity=-0.000  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHHhccCch------HHHHHHHHHhHHhcCCCCChh-HHHHHHH------HHHhcCChHHHHHHHHhCC--C
Q 006997          434 AVVYTSILSACSHSGMV------DDGLSFFKSMQSNFGIEPSIE-HYLCLVD------LLGRAGRFDLALKTIHEMP--V  498 (622)
Q Consensus       434 ~~~~~~ll~~~~~~g~~------~~a~~~~~~~~~~~~~~p~~~-~~~~l~~------~~~~~g~~~~A~~~~~~~~--~  498 (622)
                      ..+|-..+....+.|++      ++.+++|+++..  .++|+.. .|...+.      .+...++.++|.++|+.+.  .
T Consensus        13 yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia--~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           13 PEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE--ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             HHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH--HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH--cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            34444444444444555      555566666554  3444321 1111111      1233467777777777663  1


Q ss_pred             CCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchH
Q 006997          499 EVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNY  539 (622)
Q Consensus       499 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  539 (622)
                      +.=...|.....--.++|+++.|.+++.+++.+.|.....+
T Consensus        91 KkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~l  131 (161)
T 4h7y_A           91 KKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEML  131 (161)
T ss_dssp             TTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHH
T ss_pred             HHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHH
Confidence            11266777777778889999999999999999988654433

>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=95.04  E-value=0.11  Score=39.91  Aligned_cols=45  Identities=9%  Similarity=-0.001  Sum_probs=20.7

Q ss_pred             HHHHHHHHHHccCCC-CCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          520 LGEYAAKNLLTLNPG-STGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       520 ~a~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      +++.+++.++...|. ..+.++.|+-.+.+.|++++|++..+.+.+
T Consensus        61 ~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           61 LGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             HHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            344444444444442 233344444455555555555555554443

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=94.65  E-value=2.6  Score=38.63  Aligned_cols=164  Identities=13%  Similarity=0.054  Sum_probs=95.4

Q ss_pred             HHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHHHHHHHhCCCchHHHHHH----HHHHHcCCCCChhhHHHHHhhh
Q 006997           68 QTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVL----KEMWVLGLELSASTFVSVVSGC  143 (622)
Q Consensus        68 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~----~~m~~~~~~p~~~t~~~ll~~~  143 (622)
                      +..+..-|.+++++++|++++.+-.             ..+.+.|+...|-++-    +-..+.++++|..+...++..+
T Consensus        38 ~RTi~~Ry~~~k~y~eAidLL~~GA-------------~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~  104 (336)
T 3lpz_A           38 TRLVAARYSKQGNWAAAVDILASVS-------------QTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCL  104 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH-------------HHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcCHHHHHHHHHHHH-------------HHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            3345566788899999988765432             2344556655544443    4445567777777766666665


Q ss_pred             h---------hhhhHHHHHHHHHhC-CCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChh
Q 006997          144 S---------FRQGISMHCCVYKLG-LLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVN  213 (622)
Q Consensus       144 ~---------~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~  213 (622)
                      .         ..-..+...+-.+.| ...+|+.....+...|.+.+++.+|+..|=.-.+++...+..++.-+.+.+...
T Consensus       105 ~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~~~~  184 (336)
T 3lpz_A          105 RLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQDESH  184 (336)
T ss_dssp             TTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTSCGG
T ss_pred             HhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhcCCc
Confidence            5         111222233333433 455688888899999999999999988885322233356655555554444322


Q ss_pred             HHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHH
Q 006997          214 EAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLK  259 (622)
Q Consensus       214 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  259 (622)
                      ++-              ...-..++ .|...+++..|..+++...+
T Consensus       185 e~d--------------lfiaRaVL-~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          185 TAP--------------LYCARAVL-PYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             GHH--------------HHHHHHHH-HHHHTTCHHHHHHHHHHHHH
T ss_pred             cHH--------------HHHHHHHH-HHHHhCCHHHHHHHHHHHHH
Confidence            221              11222222 34456788888777666543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.65  E-value=1.1  Score=34.38  Aligned_cols=141  Identities=13%  Similarity=0.081  Sum_probs=90.8

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHH
Q 006997          307 YAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKA  386 (622)
Q Consensus       307 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  386 (622)
                      +.-.|..++..++..+....   .+..-|+.++.-....-+-+...++++.+-+.   .|.          ..+|++...
T Consensus        17 ~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FDi----------s~C~NlKrV   80 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FDL----------DKCQNLKSV   80 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SCG----------GGCSCTHHH
T ss_pred             HHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cCc----------HhhhcHHHH
Confidence            34457777777777777653   24455666665555555555555555544332   111          234455555


Q ss_pred             HHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCC
Q 006997          387 KEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGI  466 (622)
Q Consensus       387 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~  466 (622)
                      ...+-.+-. +.......++.....|+-++-.+++..+..  +.+|++.....+..+|.+.|+..++.+++.++.++ |+
T Consensus        81 i~C~~~~n~-~se~vd~ALd~lv~~~KkDqLdki~~~~l~--n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k-G~  156 (172)
T 1wy6_A           81 VECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILK--NNEVSASILVAIANALRRVGDERDATTLLIEACKK-GE  156 (172)
T ss_dssp             HHHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC----CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHHhcc-hHHHHHHHHHHHHHhccHhHHHHHHHHHhc--cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh-hh
Confidence            554444332 344556667788888998888888888542  36788888888899999999999999999988866 65


Q ss_pred             C
Q 006997          467 E  467 (622)
Q Consensus       467 ~  467 (622)
                      +
T Consensus       157 k  157 (172)
T 1wy6_A          157 K  157 (172)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=94.22  E-value=0.15  Score=40.95  Aligned_cols=125  Identities=12%  Similarity=0.069  Sum_probs=66.6

Q ss_pred             cCCCCCH--HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCCh-------hHHHHHHHHHHhcCChHHHHHHHHhCC-
Q 006997          428 EGLKPDA--VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSI-------EHYLCLVDLLGRAGRFDLALKTIHEMP-  497 (622)
Q Consensus       428 ~~~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~-  497 (622)
                      .|+.|..  .++..-+..+...|.++.|+-+.+.+....+..|+.       .++..+.+++...|++..|...|+++. 
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            3455543  334455666677788888887777755442333431       345556677777777777777777642 


Q ss_pred             ----CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          498 ----VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       498 ----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                          .........++. .   .       ........+ +.+.+..+.++.+|.+.|++++|+.+++.++.
T Consensus        92 ~~k~l~k~~s~~~~~~-~---~-------ss~p~s~~~-~~e~Elkykia~C~~~l~~~~~Ai~~Le~Ip~  150 (167)
T 3ffl_A           92 QKKALSKTSKVRPSTG-N---S-------ASTPQSQCL-PSEIEVKYKLAECYTVLKQDKDAIAILDGIPS  150 (167)
T ss_dssp             HHHCC-------------------------------CC-CCHHHHHHHHHHHHHHTTCHHHHHHHHHTSCG
T ss_pred             HHHHHhcCCCcccccc-c---c-------CCCcccccc-cchHHHHHHHHHHHHHHCCHHHHHHHHhcCCc
Confidence                000110000000 0   0       000000111 22446778899999999999999999998754

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.16  E-value=1.4  Score=43.04  Aligned_cols=260  Identities=11%  Similarity=0.040  Sum_probs=143.5

Q ss_pred             cCCchhHHHHHHHHHhC-----CCCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhh----cC
Q 006997            8 NGSFEETLSTYSSMLQT-----GVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYS----KC   78 (622)
Q Consensus         8 ~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~   78 (622)
                      .|++++|++.+-.+.+.     +..........++..|...++++...+.+..+.+..-.. ......+++.+.    ..
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhcC
Confidence            36788898888776642     222234457778899999999998888777666443122 222334443332    22


Q ss_pred             CC--hhHHHHHhccCCCC---CCC-----cchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhhh
Q 006997           79 SD--FVSSRKVLDEMPVR---LRS-----VVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQG  148 (622)
Q Consensus        79 ~~--~~~A~~~~~~~~~~---~~~-----~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~  148 (622)
                      ..  .+.-..+.+.....   .--     ......|...+...|++.+|.+++..+...-...+....            
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~------------  175 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSE------------  175 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHH------------
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHH------------
Confidence            22  22223333333221   111     122356778888999999999999998753222222222            


Q ss_pred             HHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCC-----C-C----cchHHHHHHHHHcCCChhHHHHH
Q 006997          149 ISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGE-----T-S----IVSWTTIIGGYVNVGNVNEAFGL  218 (622)
Q Consensus       149 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~-~----~~~~~~li~~~~~~~~~~~a~~~  218 (622)
                                     -...+...++.|...+++..|..++..+..     + +    ...+..++..+...+++.+|.+.
T Consensus       176 ---------------kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~  240 (445)
T 4b4t_P          176 ---------------KIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQY  240 (445)
T ss_dssp             ---------------HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHH
T ss_pred             ---------------HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence                           334556677888899999999888877632     1 1    13456677778888999998888


Q ss_pred             HHHHHHC-CCCCCHhHHHHHHH----HHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhc--CCHHHHHHHHhh
Q 006997          219 CNQMRRM-SVTPDLVVFLNLIL----GCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKC--GDLELARRVFDA  291 (622)
Q Consensus       219 ~~~m~~~-~~~p~~~~~~~ll~----~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~  291 (622)
                      |.+.... .+..|...+..++.    ...-.+....-..++.........++...+..++.+|...  .+++.+.+.|..
T Consensus       241 y~e~~~~~~~~~d~~~~~~~L~~~v~~~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~~  320 (445)
T 4b4t_P          241 LQEIYQTDAIKSDEAKWKPVLSHIVYFLVLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTNELMRWPIVQKTYEP  320 (445)
T ss_dssp             HHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHHHHHCCSSSHHHHHHHTCS
T ss_pred             HHHHHhcccccCCHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHhhcccccccHHHHHHHHHHHhchHhhhHHHHHHHHH
Confidence            8776542 11122222221111    1111111111112222222222234455666777777654  356666666665


Q ss_pred             cCCC
Q 006997          292 VLEK  295 (622)
Q Consensus       292 ~~~~  295 (622)
                      ...+
T Consensus       321 ~L~~  324 (445)
T 4b4t_P          321 VLNE  324 (445)
T ss_dssp             STTT
T ss_pred             Hhcc
Confidence            5433

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=93.62  E-value=4.1  Score=37.07  Aligned_cols=163  Identities=10%  Similarity=0.056  Sum_probs=89.2

Q ss_pred             HHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHHHHHHHhCCCchHHHHH----HHHHHHcCCCCChhhHHHHHhhh
Q 006997           68 QTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILV----LKEMWVLGLELSASTFVSVVSGC  143 (622)
Q Consensus        68 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~----~~~m~~~~~~p~~~t~~~ll~~~  143 (622)
                      |..+..-|.+++++++|++++..-.             ..+.+.|+...|-++    .+-..+.++.++......++..+
T Consensus        36 ~Rtl~~Ry~~~~~~~eAidlL~~ga-------------~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~  102 (312)
T 2wpv_A           36 LRTIANRYVRSKSYEHAIELISQGA-------------LSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLI  102 (312)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH-------------HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHH-------------HHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            3445566777888888887755432             223445555444443    34444556777766665555554


Q ss_pred             h---------hhhhHHHHHHHHHhC-CCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcC---C
Q 006997          144 S---------FRQGISMHCCVYKLG-LLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNV---G  210 (622)
Q Consensus       144 ~---------~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~---~  210 (622)
                      .         ..-......+..+.| ...+++..+..+...|.+.|++.+|+..|-.-...|...+..++.-+.+.   |
T Consensus       103 ~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~  182 (312)
T 2wpv_A          103 AELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDI  182 (312)
T ss_dssp             TTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCC
Confidence            3         111222233333333 24457888888889999999999988877632222444555554444433   3


Q ss_pred             ChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHH
Q 006997          211 NVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLL  258 (622)
Q Consensus       211 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  258 (622)
                      ...++--++              -..++ .+...+++..|..+++...
T Consensus       183 ~~~e~dlf~--------------~RaVL-~yL~l~n~~~A~~~~~~f~  215 (312)
T 2wpv_A          183 EDSTVAEFF--------------SRLVF-NYLFISNISFAHESKDIFL  215 (312)
T ss_dssp             CHHHHHHHH--------------HHHHH-HHHHTTBHHHHHHHHHHHH
T ss_pred             CcchHHHHH--------------HHHHH-HHHHhcCHHHHHHHHHHHH
Confidence            332221111              11222 3345677778877777654

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=93.60  E-value=4.2  Score=37.05  Aligned_cols=181  Identities=8%  Similarity=0.050  Sum_probs=105.7

Q ss_pred             HhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHH-
Q 006997          241 CAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNL-  319 (622)
Q Consensus       241 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-  319 (622)
                      ....|++-+|.+.++.+               ..=|.+.+++++|.+++..           -...+.+.|+...|-.+ 
T Consensus        23 ~I~~G~yYEAhQ~~Rtl---------------~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa   76 (312)
T 2wpv_A           23 KIKAGDYYEAHQTLRTI---------------ANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLI   76 (312)
T ss_dssp             HHHHTCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHH
T ss_pred             HhhccChHHHHHHHHHH---------------HHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHH
Confidence            34456666666665544               3447888888888887643           23345566776655543 


Q ss_pred             ---HHHHHhCCCCCCHHHHHHHHHHHhccCChH-HHHHHHHHHH----HcC--CCCchhHHHHHHHHHHhcCChHHHHHH
Q 006997          320 ---FKRLLKTSVRPNEATLATTLSACAELGSLS-KGKEIEEYIV----LNG--LESNRQVQTSLIHMFSKCGRINKAKEV  389 (622)
Q Consensus       320 ---~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~-~a~~~~~~~~----~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~  389 (622)
                         .+-..+.+++++......++..+.....-+ .-.++.+.++    +.|  ..-++.....+...|.+.|++.+|+..
T Consensus        77 ~llvev~~~~~~~~~~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H  156 (312)
T 2wpv_A           77 FYLLEVYDLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERY  156 (312)
T ss_dssp             HHHHHHHHHTTCCCSHHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHH
Confidence               455556778888888877777765532211 1123333333    333  224678888899999999999999998


Q ss_pred             hccCCCCChhHHHHHHHHHHHc---CCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHh
Q 006997          390 FERVPDKDLAVWSAMINGYAIH---GMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSN  463 (622)
Q Consensus       390 ~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  463 (622)
                      |-.-...|...+..++--+...   |...++--               . ....+--|...|+...|..+++...+.
T Consensus       157 ~i~~~~~s~~~~a~~l~~w~~~~~~~~~~e~dl---------------f-~~RaVL~yL~l~n~~~A~~~~~~f~~~  217 (312)
T 2wpv_A          157 FMLGTHDSMIKYVDLLWDWLCQVDDIEDSTVAE---------------F-FSRLVFNYLFISNISFAHESKDIFLER  217 (312)
T ss_dssp             HHTSCHHHHHHHHHHHHHHHHHTTCCCHHHHHH---------------H-HHHHHHHHHHTTBHHHHHHHHHHHHHH
T ss_pred             HHhCCCccHHHHHHHHHHHHHhcCCCCcchHHH---------------H-HHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            8633322344444444333332   32222111               1 111222345668889999888877644

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=93.46  E-value=0.65  Score=37.36  Aligned_cols=24  Identities=13%  Similarity=0.104  Sum_probs=15.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhCC
Q 006997          474 LCLVDLLGRAGRFDLALKTIHEMP  497 (622)
Q Consensus       474 ~~l~~~~~~~g~~~~A~~~~~~~~  497 (622)
                      ..+..+|.+.|++++|+.+++.++
T Consensus       126 ykia~C~~~l~~~~~Ai~~Le~Ip  149 (167)
T 3ffl_A          126 YKLAECYTVLKQDKDAIAILDGIP  149 (167)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHCCHHHHHHHHhcCC
Confidence            345566666666666666666665

>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=92.30  E-value=1  Score=34.64  Aligned_cols=75  Identities=12%  Similarity=0.090  Sum_probs=53.3

Q ss_pred             CCChhHHHHHHHHHHhcCCh---HHHHHHHHhCC-CCC--cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHH
Q 006997          467 EPSIEHYLCLVDLLGRAGRF---DLALKTIHEMP-VEV--QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYI  540 (622)
Q Consensus       467 ~p~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  540 (622)
                      .|++.+--.+..++.++.+.   .+++.++++.. ..|  ....+--|.-++.+.|+++.|.+..+.+++.+|+|..+..
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~QA~~  116 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGA  116 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHHHH
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHHHH
Confidence            45666655667777776653   45666666654 234  2556777888889999999999999999999998766544


Q ss_pred             H
Q 006997          541 L  541 (622)
Q Consensus       541 ~  541 (622)
                      .
T Consensus       117 L  117 (134)
T 3o48_A          117 L  117 (134)
T ss_dssp             H
T ss_pred             H
Confidence            3

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=91.75  E-value=1.8  Score=33.70  Aligned_cols=74  Identities=11%  Similarity=0.073  Sum_probs=52.8

Q ss_pred             CCChhHHHHHHHHHHhcCCh---HHHHHHHHhCC-CCC--cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHH
Q 006997          467 EPSIEHYLCLVDLLGRAGRF---DLALKTIHEMP-VEV--QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYI  540 (622)
Q Consensus       467 ~p~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  540 (622)
                      .|+..+--.+..++.++.+.   .+++.+++... ..|  .......|.-++.+.|+++.|.+..+.+++.+|+|..+..
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~QA~~  115 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGA  115 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHH
Confidence            45666666667777776643   45666666654 233  3456667778899999999999999999999998765544

>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=91.28  E-value=0.82  Score=32.91  Aligned_cols=59  Identities=14%  Similarity=0.143  Sum_probs=32.2

Q ss_pred             hHHHHHHHHHhCCCCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHH
Q 006997           13 ETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLI   72 (622)
Q Consensus        13 ~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   72 (622)
                      +..+-++.+-..++-|++....+.|++|.+.+|+..|.++++-+...- .....+|..++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~l   86 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI   86 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHH
Confidence            344444444455566666666666666666666666666666655432 22233444444

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=91.20  E-value=4.9  Score=38.11  Aligned_cols=88  Identities=13%  Similarity=-0.064  Sum_probs=45.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHhCC---CCCc-----HHhHHHHHHHHHhcCCHHHHHHHHHHHHccC---CCCCc----hH
Q 006997          475 CLVDLLGRAGRFDLALKTIHEMP---VEVQ-----AQVWAPLLSACMKHHNVELGEYAAKNLLTLN---PGSTG----NY  539 (622)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~~---~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---p~~~~----~~  539 (622)
                      .++..|...|++.+|.+++.++.   ...|     ...+..-+..|...+|+.++...+.++....   +-+|.    ..
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~i~  183 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGALD  183 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHHHHH
Confidence            35566666666666666665543   1111     1123333445566677777777776665421   11221    22


Q ss_pred             HHHHHHHH-hcCChHHHHHHHHHh
Q 006997          540 ILMANLFT-SAGMWKEAATARGLM  562 (622)
Q Consensus       540 ~~l~~~~~-~~g~~~~A~~~~~~~  562 (622)
                      ..-|.++. ..++|.+|...|-..
T Consensus       184 ~~~Gi~~l~~~rdyk~A~~~F~ea  207 (394)
T 3txn_A          184 LQSGILHAADERDFKTAFSYFYEA  207 (394)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHhhHHHHHhccCHHHHHHHHHHH
Confidence            23344555 667777776665544

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=91.18  E-value=3.1  Score=46.41  Aligned_cols=24  Identities=17%  Similarity=0.127  Sum_probs=14.0

Q ss_pred             HHHHHHHHhcCChHHHHHHhccCC
Q 006997          371 TSLIHMFSKCGRINKAKEVFERVP  394 (622)
Q Consensus       371 ~~l~~~~~~~~~~~~A~~~~~~~~  394 (622)
                      -.+..+|..+|++++|.+.|.+..
T Consensus       846 yl~g~~~L~~ge~~~A~~~F~kaa  869 (1139)
T 4fhn_B          846 YLKALIYLKSKEAVKAVRCFKTTS  869 (1139)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTCC
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHh
Confidence            344555666666666666665543

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=90.15  E-value=22  Score=37.94  Aligned_cols=249  Identities=14%  Similarity=0.081  Sum_probs=114.6

Q ss_pred             HHHhcCChHHHHHHHhhcCCC----C--cchHHHHHHHHHcCCChhHHHHHHHHHHHCCC--C-----CCHhHHHHHHHH
Q 006997          174 MYAKFGKVNEARSIFDEIGET----S--IVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSV--T-----PDLVVFLNLILG  240 (622)
Q Consensus       174 ~~~~~g~~~~A~~~~~~~~~~----~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~-----p~~~~~~~ll~~  240 (622)
                      +....|+.++++.+++.....    +  +..=..+.-+.+..|..+++.+++.......-  .     +....-..+.-+
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLG  462 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIG  462 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHH
Confidence            344566777777777665431    1  11222233344555555566666666544211  0     101111222222


Q ss_pred             HhccCC-hHHHHHHHHHHHHhCCCCCc--hhHHHHHHHHHhcCCHHHHHHHHhhcCCC---CHHHHHHHHHHHHhcCChH
Q 006997          241 CAQVGN-LFLALSMHSLLLKSGYNNED--PLDNLLVSMYTKCGDLELARRVFDAVLEK---SVFLWTSMIGGYAQLGYPS  314 (622)
Q Consensus       241 ~~~~~~-~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~  314 (622)
                      .+-.|. -+++...+..++...- +..  ..--+|...+.-.|+.+....++..+.+.   ++.-.-.+.-++...|+.+
T Consensus       463 la~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~e  541 (963)
T 4ady_A          463 LAAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQE  541 (963)
T ss_dssp             HHSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCGG
T ss_pred             HHhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCChH
Confidence            222222 2334444444443221 100  11112333344556666666665544221   2222233344555677777


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHH---HHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhc
Q 006997          315 EAVNLFKRLLKTSVRPNEATLA---TTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFE  391 (622)
Q Consensus       315 ~a~~~~~~m~~~~~~~~~~~~~---~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  391 (622)
                      .+..+.+.+.... .|. .-|.   .+.-+|+..|+.....++++.+.... ..+..-...+.-++...|+.+.+.++++
T Consensus       542 ~~~~li~~L~~~~-dp~-vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~  618 (963)
T 4ady_A          542 LADDLITKMLASD-ESL-LRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQ  618 (963)
T ss_dssp             GGHHHHHHHHHCS-CHH-HHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTT
T ss_pred             HHHHHHHHHHhCC-CHH-HHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHH
Confidence            7777777766531 122 2222   33446677778777777777776542 2223322223333444566666667766


Q ss_pred             cCCC-CChhHHH--HHHHHHHHcCCH-HHHHHHHHHhHH
Q 006997          392 RVPD-KDLAVWS--AMINGYAIHGMG-DQALNLFYKMQH  426 (622)
Q Consensus       392 ~~~~-~~~~~~~--~l~~~~~~~~~~-~~a~~~~~~~~~  426 (622)
                      .+.+ .|+.+-.  .+.-+....|.. .++..++..+..
T Consensus       619 ~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          619 LLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             TGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            5442 3333222  222233333333 566777777653

>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=89.58  E-value=0.8  Score=43.84  Aligned_cols=61  Identities=8%  Similarity=-0.063  Sum_probs=53.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          504 VWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       504 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ....++..+...|+.+++...++.++..+|-+-..+..+..+|.+.|+..+|++.|+...+
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~  233 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKT  233 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3445667778889999999999999999998888999999999999999999999988765

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=89.33  E-value=5  Score=35.31  Aligned_cols=151  Identities=15%  Similarity=0.014  Sum_probs=83.6

Q ss_pred             HHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChh----HHHHHHHHHH
Q 006997          407 GYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIE----HYLCLVDLLG  481 (622)
Q Consensus       407 ~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~----~~~~l~~~~~  481 (622)
                      ...+.|+.++|++....-.+   -.| |...-..++..+|-.|++++|.+-++...+.   .|+..    .|..+|.+  
T Consensus         6 ~ll~~g~L~~al~~~~~~VR---~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l---~p~~~~~a~~yr~lI~a--   77 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIK---ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKA--   77 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHH---TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHH--
T ss_pred             HHHhCCCHHHHHHHHHHHHH---hCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh---CchhhHHHHHHHHHHHH--
Confidence            34567788888877777665   344 4566667777888888888888888777643   56533    33333332  


Q ss_pred             hcCChHHHHHHHH--hCC-CCCcHHhHH-HHHHHH--HhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHH
Q 006997          482 RAGRFDLALKTIH--EMP-VEVQAQVWA-PLLSAC--MKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEA  555 (622)
Q Consensus       482 ~~g~~~~A~~~~~--~~~-~~~~~~~~~-~l~~~~--~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  555 (622)
                        ....+  ++|.  +.+ ..-.+..|. .++.+.  ...|+.++|.++-.++++..|..+....         |     
T Consensus        78 --E~~R~--~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~ap~~~G~~~---------~-----  139 (273)
T 1zbp_A           78 --AQARK--DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLAN---------D-----  139 (273)
T ss_dssp             --HHHHH--HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEET---------T-----
T ss_pred             --HHHHH--HHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCcccCCCcC---------C-----
Confidence              11111  1222  111 111122233 344443  3468888888888888888776555333         1     


Q ss_pred             HHHHHHhhhCCCccCCCceEEEECCeEEE
Q 006997          556 ATARGLMDDRRLTKEPGWSQVEIDGSVQV  584 (622)
Q Consensus       556 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  584 (622)
                       .-|+-+.+.+.+.-|.+..+.+++..++
T Consensus       140 -~~F~wi~D~D~RlGpv~E~i~~~G~Y~W  167 (273)
T 1zbp_A          140 -TSFSDVRDIDDRLGGYIELFSTAGNYFL  167 (273)
T ss_dssp             -EEESCEEESSTTTTTEEEEECTTSCEEE
T ss_pred             -CCcchhhccccCCcceEEEEEeCCeEEE
Confidence             1144455555555555554434454444

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=88.55  E-value=19  Score=35.00  Aligned_cols=97  Identities=12%  Similarity=0.086  Sum_probs=68.6

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhHHhc-CCCCC---HHHHHHHHHHHhccCchHHHHHHHHHhHHh-cCCCCC----hh
Q 006997          401 WSAMINGYAIHGMGDQALNLFYKMQHVE-GLKPD---AVVYTSILSACSHSGMVDDGLSFFKSMQSN-FGIEPS----IE  471 (622)
Q Consensus       401 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~p~---~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~~~p~----~~  471 (622)
                      ...+...|...|++.+|..++..+.... +..+.   ...+...++.|...+++.+|..+++++..+ +...++    ..
T Consensus       140 ~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~  219 (445)
T 4b4t_P          140 TKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLE  219 (445)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHH
Confidence            3557788889999999999999986521 22221   235667778899999999999999887532 122222    23


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC
Q 006997          472 HYLCLVDLLGRAGRFDLALKTIHEMP  497 (622)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~  497 (622)
                      .+...+..+...+++.+|-+.|.++.
T Consensus       220 ~~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          220 YYNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            45677788888999999988877663

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=87.89  E-value=25  Score=35.72  Aligned_cols=248  Identities=10%  Similarity=0.035  Sum_probs=115.8

Q ss_pred             hHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChH
Q 006997          169 NSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLF  248 (622)
Q Consensus       169 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  248 (622)
                      +.-+..+.+.+++.....++.. +..+...-.....+....|+..+|......+=..| ......+..++..+.+.|.+.
T Consensus        76 ~~~l~~l~~~~~w~~~l~~~~~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~-~~~p~~c~~l~~~~~~~g~lt  153 (618)
T 1qsa_A           76 SRFVNELARREDWRGLLAFSPE-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG-KSQPNACDKLFSVWRASGKQD  153 (618)
T ss_dssp             HHHHHHHHHTTCHHHHHHHCCS-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS-SCCCTHHHHHHHHHHHTTCSC
T ss_pred             HHHHHHHHhCCCHHHHHHhccC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCC-CCCcHHHHHHHHHHHHCCCCC
Confidence            4445566677888888877766 33344444556667777788777776666654443 233444555555555444332


Q ss_pred             H--HHHHHHHHHHhC-----------CCCCch-hHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHH---HHHHHHHHHhcC
Q 006997          249 L--ALSMHSLLLKSG-----------YNNEDP-LDNLLVSMYTKCGDLELARRVFDAVLEKSVFL---WTSMIGGYAQLG  311 (622)
Q Consensus       249 ~--a~~~~~~~~~~~-----------~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~l~~~~~~~~  311 (622)
                      .  ...=++.+...|           ++++.. ....++..+.+   ...+....... .++...   +..-+.-+.+ .
T Consensus       154 ~~~~~~R~~~al~~~~~~~a~~l~~~l~~~~~~~a~~~~al~~~---p~~~~~~~~~~-~~~~~~~~~~~~~~~rlar-~  228 (618)
T 1qsa_A          154 PLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANN---PNTVLTFARTT-GATDFTRQMAAVAFASVAR-Q  228 (618)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHC---GGGHHHHHHHS-CCCHHHHHHHHHHHHHHHH-H
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHhCCHHHHHHHHHHHHHHhC---hHhHHHHHhcc-CCChhhHHHHHHHHHHHHh-c
Confidence            2  111111111111           111111 11111111111   11122222211 111111   1111222222 3


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHH----HHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHH
Q 006997          312 YPSEAVNLFKRLLKTSVRPNEATLA----TTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAK  387 (622)
Q Consensus       312 ~~~~a~~~~~~m~~~~~~~~~~~~~----~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  387 (622)
                      +.+.|...+....... ..+.....    .+.......+...++...+.......  .+.....-.+..-.+.|+++.|.
T Consensus       229 d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~~~r~Alr~~d~~~a~  305 (618)
T 1qsa_A          229 DAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGLN  305 (618)
T ss_dssp             CHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccC--CChHHHHHHHHHHHHCCCHHHHH
Confidence            6777888887775533 22332222    22223333442344444444433322  22222333344445668888888


Q ss_pred             HHhccCCCCCh--hH-HHHHHHHHHHcCCHHHHHHHHHHhHH
Q 006997          388 EVFERVPDKDL--AV-WSAMINGYAIHGMGDQALNLFYKMQH  426 (622)
Q Consensus       388 ~~~~~~~~~~~--~~-~~~l~~~~~~~~~~~~a~~~~~~~~~  426 (622)
                      ..|..|.....  .- .-=+..++...|+.++|..+|+.+..
T Consensus       306 ~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          306 TWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            88888775321  11 11234456677888888888887764

>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=87.23  E-value=2.1  Score=32.73  Aligned_cols=64  Identities=9%  Similarity=0.205  Sum_probs=40.8

Q ss_pred             ChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCC-CCCcchHHHHHHHH
Q 006997           45 SIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVR-LRSVVSWNSIISAH  108 (622)
Q Consensus        45 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~li~~~  108 (622)
                      |.-+..+-++.+....+.|++.+..+-++++-|.+|+..|.++|+.++.. .+...+|..+++-+
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~~~~iY~y~lqEl  132 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVIQEL  132 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCchhhHHHHHHHH
Confidence            34456666666666666677777777777777777777777777766544 33344566666543

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=87.08  E-value=35  Score=36.46  Aligned_cols=259  Identities=12%  Similarity=0.054  Sum_probs=127.6

Q ss_pred             HHhccCChHHHHHHHHHHHHhCCCCCc--hhHHHHHHHHHhcCCHHHHHHHHhhcCC-CC----------HHHHHHHHHH
Q 006997          240 GCAQVGNLFLALSMHSLLLKSGYNNED--PLDNLLVSMYTKCGDLELARRVFDAVLE-KS----------VFLWTSMIGG  306 (622)
Q Consensus       240 ~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~----------~~~~~~l~~~  306 (622)
                      +....|+.+++..++......+-..+.  ..-..+.-+...+|..+++..++..... .+          +..-.++.-+
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLG  462 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIG  462 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHH
Confidence            455667777776666554332101121  2223344445556655566665554322 12          1112233333


Q ss_pred             HHhcCC-hHHHHHHHHHHHhCCCCCCHHHHH--HHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCh
Q 006997          307 YAQLGY-PSEAVNLFKRLLKTSVRPNEATLA--TTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRI  383 (622)
Q Consensus       307 ~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  383 (622)
                      ++..|. -+++.+.+..+....- +......  .+...+...|+.+....++..+.+.. ..+..-...+.-++.-.|+.
T Consensus       463 la~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~  540 (963)
T 4ady_A          463 LAAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQ  540 (963)
T ss_dssp             HHSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCG
T ss_pred             HHhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCCh
Confidence            433343 2456666666655321 1111122  22333456677777777777766532 11222222233333456777


Q ss_pred             HHHHHHhccCCC-CChh-HHH---HHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHH
Q 006997          384 NKAKEVFERVPD-KDLA-VWS---AMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFK  458 (622)
Q Consensus       384 ~~A~~~~~~~~~-~~~~-~~~---~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  458 (622)
                      +.+..+++.+.. .++. -|.   ++..+|+..|+.....+++..+.+ . ...+......+.-++...|+.+.+.++++
T Consensus       541 e~~~~li~~L~~~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~-d-~~d~VRraAViaLGlI~~g~~e~v~rlv~  618 (963)
T 4ady_A          541 ELADDLITKMLASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVS-D-SNDDVRRAAVIALGFVLLRDYTTVPRIVQ  618 (963)
T ss_dssp             GGGHHHHHHHHHCSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-C-SCHHHHHHHHHHHHHHTSSSCSSHHHHTT
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhcc-C-CcHHHHHHHHHHHHhhccCCHHHHHHHHH
Confidence            777666665542 2332 222   233466777887777778888775 1 11222223333334555666666666666


Q ss_pred             HhHHhcCCCCChhHHHHHHHHHHhcCCh-HHHHHHHHhCCCCCcHHh
Q 006997          459 SMQSNFGIEPSIEHYLCLVDLLGRAGRF-DLALKTIHEMPVEVQAQV  504 (622)
Q Consensus       459 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~~~~~  504 (622)
                      .+.+.  ..|.+..-.++.-+....|.. .++++.+..+...++..+
T Consensus       619 ~L~~~--~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D~d~~V  663 (963)
T 4ady_A          619 LLSKS--HNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFV  663 (963)
T ss_dssp             TGGGC--SCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTCSSHHH
T ss_pred             HHHhc--CCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccCCCHHH
Confidence            55532  244444334444444445543 577777777764555443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=87.08  E-value=4.1  Score=29.14  Aligned_cols=81  Identities=9%  Similarity=0.026  Sum_probs=63.5

Q ss_pred             ccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHHHHHHHhCCCchHHHHHH
Q 006997           42 NINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVL  121 (622)
Q Consensus        42 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  121 (622)
                      .....++|..|-+.+...+.  ...+--..++.+...|++++|..+.+...  .||...|-+|-.  .+.|-.+++...+
T Consensus        18 G~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c--~pdlepw~ALce--~rlGl~s~le~rL   91 (115)
T 2uwj_G           18 GQHCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNP--WPALEPWFALCE--WHLGLGAALDRRL   91 (115)
T ss_dssp             TTTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCC--CGGGHHHHHHHH--HHTTCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC--CchHHHHHHHHH--HhcccHHHHHHHH
Confidence            34567889999888887752  44444455667889999999999999999  899999988876  4678888888888


Q ss_pred             HHHHHcC
Q 006997          122 KEMWVLG  128 (622)
Q Consensus       122 ~~m~~~~  128 (622)
                      .++-.+|
T Consensus        92 ~~la~sg   98 (115)
T 2uwj_G           92 AGLGGSS   98 (115)
T ss_dssp             HHHHTCS
T ss_pred             HHHHhCC
Confidence            7777655

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=87.05  E-value=6.7  Score=28.12  Aligned_cols=86  Identities=17%  Similarity=0.113  Sum_probs=57.5

Q ss_pred             ChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006997          246 NLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLK  325 (622)
Q Consensus       246 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  325 (622)
                      ..++|..|-+.+...+.  ...+--.-+..+...|++++|..+.+...-||...|-+|-..  +.|..+++..-+.++..
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~--rlGl~s~le~rL~~la~   96 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCEW--HLGLGAALDRRLAGLGG   96 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHHH--HTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH--hcccHHHHHHHHHHHHh
Confidence            34555555555554442  333333344567788999999999999888999988877644  67888888888877777


Q ss_pred             CCCCCCHHHHH
Q 006997          326 TSVRPNEATLA  336 (622)
Q Consensus       326 ~~~~~~~~~~~  336 (622)
                      .| .|....|.
T Consensus        97 sg-~p~~q~Fa  106 (115)
T 2uwj_G           97 SS-DPALADFA  106 (115)
T ss_dssp             CS-SHHHHHHH
T ss_pred             CC-CHHHHHHH
Confidence            66 45544443

>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=86.53  E-value=7.2  Score=28.00  Aligned_cols=86  Identities=19%  Similarity=0.176  Sum_probs=57.1

Q ss_pred             ChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 006997          246 NLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLK  325 (622)
Q Consensus       246 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  325 (622)
                      ..++|..|-+.+...+.  ...+--.-+..+...|++++|..+.+...-||...|-+|-..  +.|..+++..-+.++..
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~--rlGl~s~le~rL~~la~   97 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCEY--RLGLGSALESRLNRLAR   97 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHHH--HHTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH--hcccHHHHHHHHHHHHh
Confidence            34555555555554442  333333344567788999999999999998999998877654  66777777777777766


Q ss_pred             CCCCCCHHHHH
Q 006997          326 TSVRPNEATLA  336 (622)
Q Consensus       326 ~~~~~~~~~~~  336 (622)
                      .| .|....|.
T Consensus        98 sg-~p~~q~Fa  107 (116)
T 2p58_C           98 SQ-DPRIQTFV  107 (116)
T ss_dssp             CC-CHHHHHHH
T ss_pred             CC-CHHHHHHH
Confidence            65 44444443

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=86.30  E-value=0.77  Score=40.37  Aligned_cols=54  Identities=15%  Similarity=0.141  Sum_probs=25.5

Q ss_pred             HHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCC
Q 006997          480 LGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNP  533 (622)
Q Consensus       480 ~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p  533 (622)
                      +.+.|++++|++.+..-.  .+.|...-..|+..++-.|++++|.+-++.+.+++|
T Consensus         7 ll~~g~L~~al~~~~~~VR~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p   62 (273)
T 1zbp_A            7 ALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFP   62 (273)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCG
T ss_pred             HHhCCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCc
Confidence            334455555555444332  222333334444555555555555555555555555

>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=86.16  E-value=4.3  Score=29.10  Aligned_cols=81  Identities=11%  Similarity=0.058  Sum_probs=62.6

Q ss_pred             ccCChhhHHHHHHHHHHhcCCCCchhHHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHHHHHHHhCCCchHHHHHH
Q 006997           42 NINSIWDGKRVHSHVLKVGFQQDAFVQTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVL  121 (622)
Q Consensus        42 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  121 (622)
                      .....++|..|-+.+...+.  ...+--..++.+...|++++|..+.+...  .||...|-+|-.+  +.|-.+++...+
T Consensus        19 G~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c--~pdlepw~ALce~--rlGl~s~le~rL   92 (116)
T 2p58_C           19 GNHYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLA--YPDLEPWLALCEY--RLGLGSALESRL   92 (116)
T ss_dssp             TTTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSC--CGGGHHHHHHHHH--HHTCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCC--CchHHHHHHHHHH--hcccHHHHHHHH
Confidence            34567889999888887752  44444455667889999999999999999  8999999888764  567777777777


Q ss_pred             HHHHHcC
Q 006997          122 KEMWVLG  128 (622)
Q Consensus       122 ~~m~~~~  128 (622)
                      .++-.+|
T Consensus        93 ~~la~sg   99 (116)
T 2p58_C           93 NRLARSQ   99 (116)
T ss_dssp             HHHTTCC
T ss_pred             HHHHhCC
Confidence            7776654

>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=85.53  E-value=8.4  Score=27.83  Aligned_cols=63  Identities=8%  Similarity=0.156  Sum_probs=45.1

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHH
Q 006997          211 NVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVS  274 (622)
Q Consensus       211 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  274 (622)
                      +.-+..+-++.+....+.|++....+.+++|.+.+++..|.++++-++..- .+...+|..++.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHH
Confidence            344566667777777788888888888888888888888888888876542 222445665543

>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=84.72  E-value=6.3  Score=37.56  Aligned_cols=70  Identities=16%  Similarity=0.281  Sum_probs=52.2

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CHHHHHHHHHHHhccCchHHHHHHHHHhHH----hcCCCCChhHHH
Q 006997          402 SAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DAVVYTSILSACSHSGMVDDGLSFFKSMQS----NFGIEPSIEHYL  474 (622)
Q Consensus       402 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~----~~~~~p~~~~~~  474 (622)
                      ..++..+...|++.+|+..+..+..   ..| +...+..++.++...|+..+|++.|+...+    ..|+.|.+.+-.
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~---~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTF---EHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            3355667778888888888888776   445 567888888888888888888888877543    358888876543

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=83.79  E-value=18  Score=30.21  Aligned_cols=63  Identities=16%  Similarity=0.193  Sum_probs=46.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHc--cCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          504 VWAPLLSACMKHHNVELGEYAAKNLLT--LNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       504 ~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      .|..++..+ ..++...+..+|..+..  +.-..+..|...+..+...|++.+|.++|+.-++++-
T Consensus        82 lWl~Ya~~~-~~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A  146 (202)
T 3esl_A           82 IWIWYINLF-LSNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNC  146 (202)
T ss_dssp             HHHHHHHHH-STTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhh-cccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Confidence            444444443 23446788888888876  4555677888999999999999999999997776544

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=83.49  E-value=27  Score=32.03  Aligned_cols=164  Identities=10%  Similarity=0.101  Sum_probs=93.0

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHH----HHHHHhCCCCCCHHHHHHHHHHHhccCC
Q 006997          272 LVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNL----FKRLLKTSVRPNEATLATTLSACAELGS  347 (622)
Q Consensus       272 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~----~~~m~~~~~~~~~~~~~~ll~~~~~~~~  347 (622)
                      +..=|.+.+++++|.+++..           -...+.+.|+...+-.+    ++-..+.++++|..+...++..+.....
T Consensus        41 i~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~~  109 (336)
T 3lpz_A           41 VAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQP  109 (336)
T ss_dssp             HHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSCT
T ss_pred             HHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Confidence            33447788888888887543           12344556666554443    3445556777888777777776655443


Q ss_pred             hH-HHHHHHHHHH----HcC--CCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHH
Q 006997          348 LS-KGKEIEEYIV----LNG--LESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNL  420 (622)
Q Consensus       348 ~~-~a~~~~~~~~----~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  420 (622)
                      -+ .=..+.+.++    +.|  ..-++.....+...|.+.+++.+|+..|-.-.++.+..+..++.-+...+...+    
T Consensus       110 ~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~~~~e----  185 (336)
T 3lpz_A          110 GEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQDESHT----  185 (336)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTSCGGG----
T ss_pred             CCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhcCCcc----
Confidence            11 1122333333    333  234677888899999999999999999853222233455444433333221111    


Q ss_pred             HHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHH
Q 006997          421 FYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQS  462 (622)
Q Consensus       421 ~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  462 (622)
                                 ++.. ....+--|...++...|..+++...+
T Consensus       186 -----------~dlf-iaRaVL~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          186 -----------APLY-CARAVLPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             -----------HHHH-HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             -----------HHHH-HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence                       1112 22223345556788888887766554

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=83.36  E-value=31  Score=32.65  Aligned_cols=282  Identities=12%  Similarity=0.057  Sum_probs=128.8

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhcCCC--------CHHHHHHHHHHHHhcC-ChHHHHHHHHHHHhCCCCCCHHHH---
Q 006997          268 LDNLLVSMYTKCGDLELARRVFDAVLEK--------SVFLWTSMIGGYAQLG-YPSEAVNLFKRLLKTSVRPNEATL---  335 (622)
Q Consensus       268 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~l~~~~~~~~-~~~~a~~~~~~m~~~~~~~~~~~~---  335 (622)
                      ....|...|.+.|+.++..+++.....-        ....-..++..+.... ..+.-.++..+..+... -+..+|   
T Consensus        21 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~-~~~r~flr~   99 (394)
T 3txn_A           21 GILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAK-QEKRTFLRQ   99 (394)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHH-HTTCHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH-HHHHHHHHH
Confidence            4567788888888888888888766431        2233455666665533 23333444444433110 011122   


Q ss_pred             ---HHHHHHHhccCChHHHHHHHHHHHHcCCCCc-----hhHHHHHHHHHHhcCChHHHHHHhccCCC------CChhHH
Q 006997          336 ---ATTLSACAELGSLSKGKEIEEYIVLNGLESN-----RQVQTSLIHMFSKCGRINKAKEVFERVPD------KDLAVW  401 (622)
Q Consensus       336 ---~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~------~~~~~~  401 (622)
                         ..++..|...|++.+|.+++..+.+.-...|     ..++-.-+.+|...+++.++...+.....      +++..-
T Consensus       100 ~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~  179 (394)
T 3txn_A          100 SLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQ  179 (394)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHH
Confidence               1455666677777777666666654311111     23344445556666666666666654321      122211


Q ss_pred             HH--HHH--HHH-HcCCHHHHHHHHHHhHHhcCCCCCHH------HHHHHHHHHhccCchHHHHHHHH-HhHHhcCCCCC
Q 006997          402 SA--MIN--GYA-IHGMGDQALNLFYKMQHVEGLKPDAV------VYTSILSACSHSGMVDDGLSFFK-SMQSNFGIEPS  469 (622)
Q Consensus       402 ~~--l~~--~~~-~~~~~~~a~~~~~~~~~~~~~~p~~~------~~~~ll~~~~~~g~~~~a~~~~~-~~~~~~~~~p~  469 (622)
                      ..  ...  .+. ..+++..|...|-+..+... ..+..      .|..+. +.. .++..+...++. .....+ ..|.
T Consensus       180 a~i~~~~Gi~~l~~~rdyk~A~~~F~eaf~~f~-~~~~~~~~~~lkYlvL~-aLl-~~~r~el~~~l~~~~~~~~-~~pe  255 (394)
T 3txn_A          180 GALDLQSGILHAADERDFKTAFSYFYEAFEGFD-SVDSVKALTSLKYMLLC-KIM-LGQSDDVNQLVSGKLAITY-SGRD  255 (394)
T ss_dssp             HHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHH-HHH-TTCGGGHHHHHHSHHHHTT-CSHH
T ss_pred             HHHHHHhhHHHHHhccCHHHHHHHHHHHHhccc-ccccHHHHHHHHHHHHH-HHH-cCCHHHHHHHhcccccccc-CCcc
Confidence            11  111  123 45666666666655543111 11111      121111 111 122222222221 111111 2333


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhH---HHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHH
Q 006997          470 IEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVW---APLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMAN  544 (622)
Q Consensus       470 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  544 (622)
                      ...+..++.+| ..+++.+..++++...  ...|+...   ..|.....        ...+.++  ..|-..-.+..++.
T Consensus       256 i~~l~~L~~a~-~~~dl~~f~~iL~~~~~~l~~D~~l~~h~~~L~~~Ir--------~~~L~~i--~~pYsrIsl~~iA~  324 (394)
T 3txn_A          256 IDAMKSVAEAS-HKRSLADFQAALKEYKKELAEDVIVQAHLGTLYDTML--------EQNLCRI--IEPYSRVQVAHVAE  324 (394)
T ss_dssp             HHHHHHHHHHH-HTTCHHHHHHHHHHSTTTTTTSHHHHHHHHHHHHHHH--------HHHHHHH--HTTCSEEEHHHHHH
T ss_pred             HHHHHHHHHHH-HhCCHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHH--------HHHHHHH--hHhhceeeHHHHHH
Confidence            44444444443 3455555555555443  22233211   11111000        1111112  24555556666666


Q ss_pred             HHHhcCChHHHHHHHHHhhhCCC
Q 006997          545 LFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       545 ~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      .+.-  ..+++...+-+|+..|.
T Consensus       325 ~l~l--s~~evE~~L~~lI~dg~  345 (394)
T 3txn_A          325 SIQL--PMPQVEKKLSQMILDKK  345 (394)
T ss_dssp             HHTC--CHHHHHHHHHHHHHTTS
T ss_pred             HHCc--CHHHHHHHHHHHHHCCC
Confidence            6543  68899999999987654

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=82.99  E-value=23  Score=39.49  Aligned_cols=142  Identities=13%  Similarity=0.057  Sum_probs=68.1

Q ss_pred             HHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-------------------
Q 006997          372 SLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-------------------  432 (622)
Q Consensus       372 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-------------------  432 (622)
                      .++..+.+.+.++-+.++..-... ++..--.+..+|...|++++|.+.|++...  |+..                   
T Consensus       817 ~l~~~l~~~~~~~~~~~l~~~~~~-~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~--~~~~~~~l~~~~~~~~~~~~~~~  893 (1139)
T 4fhn_B          817 ELVEKLFLFKQYNACMQLIGWLNS-DPIAVYLKALIYLKSKEAVKAVRCFKTTSL--VLYSHTSQFAVLREFQEIAEKYH  893 (1139)
T ss_dssp             HHHHHHHHHSCTTHHHHHHHHSCC-CHHHHHHHHHHHHHTTCHHHHHHHHHTCCC--SCTTCCCSCSSHHHHHHHHHTTT
T ss_pred             HHHHHHHHhhhHHHHHHHhhhccC-CcHHHHHHHHHHHhcCCHHHHHHHHHHHhh--hhcccchhhhhhccccccccccc
Confidence            344445555555555554443332 222222344455566666666666655421  1100                   


Q ss_pred             ----CHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-C--hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCcHHh
Q 006997          433 ----DAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-S--IEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQAQV  504 (622)
Q Consensus       433 ----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~  504 (622)
                          -..-|..++..+.+.+.++.+.++-+.+.+..+-.+ +  ...|..+.+.+...|++++|...+-.++ ..-....
T Consensus       894 ~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r~~c  973 (1139)
T 4fhn_B          894 HQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLKKSC  973 (1139)
T ss_dssp             SCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSCHHH
T ss_pred             ccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHHHHH
Confidence                012355555666666666666666555544311111 0  1135555566666666666666665554 2222445


Q ss_pred             HHHHHHHHHhcC
Q 006997          505 WAPLLSACMKHH  516 (622)
Q Consensus       505 ~~~l~~~~~~~~  516 (622)
                      +..|+...+..|
T Consensus       974 Lr~LV~~lce~~  985 (1139)
T 4fhn_B          974 LLDFVNQLTKQG  985 (1139)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCC
Confidence            555555544444

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=81.37  E-value=7.6  Score=40.41  Aligned_cols=51  Identities=16%  Similarity=0.042  Sum_probs=36.3

Q ss_pred             HHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHh
Q 006997          407 GYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSM  460 (622)
Q Consensus       407 ~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~  460 (622)
                      -+...|+++-|+++-++...   ..|+ -.+|..|..+|...|+++.|+-.++.+
T Consensus       346 FLl~K~~~elAL~~Ak~AV~---~aPseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTE---LALDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH---HCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHhccCcHHHHHHHHHHHHh---cCchhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            34556777777777777776   5665 457777777777777777777777665

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=80.56  E-value=25  Score=29.63  Aligned_cols=146  Identities=16%  Similarity=0.067  Sum_probs=66.3

Q ss_pred             HHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHH
Q 006997          373 LIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDD  452 (622)
Q Consensus       373 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~  452 (622)
                      .+..+.+.+..+....+.+.+..++...-...+.++...++.+ +...+.++..    .++...-...+.++.+.++.+ 
T Consensus        39 A~~~L~~~~~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~~~-~~~~L~~~l~----~~~~~vr~~a~~aL~~~~~~~-  112 (211)
T 3ltm_A           39 AAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIGDER-AVEPLIKALK----DEDGWVRQSAAVALGQIGDER-  112 (211)
T ss_dssp             HHHHHHHHCCGGGHHHHHHHTTCSCHHHHHHHHHHHHHHCCGG-GHHHHHHHTT----CSSHHHHHHHHHHHHHHCCGG-
T ss_pred             HHHHHHHhCCccHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHH-HHHHHHHHHc----CCCHHHHHHHHHHHHHhCcHH-
Confidence            3333344443333333333334444444444444555555432 2222222221    245555555555555555532 


Q ss_pred             HHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHc
Q 006997          453 GLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLT  530 (622)
Q Consensus       453 a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  530 (622)
                      +...+..+..    .++..+-...+.++.+.|..+ +...+.++...++...-...+.+....++ ..+...+.++++
T Consensus       113 ~~~~L~~~l~----d~~~~vr~~a~~aL~~~~~~~-~~~~L~~~l~d~~~~vr~~a~~aL~~~~~-~~~~~~L~~~l~  184 (211)
T 3ltm_A          113 AVEPLIKALK----DEDWFVRIAAAFALGEIGDER-AVEPLIKALKDEDGWVRQSAADALGEIGG-ERVRAAMEKLAE  184 (211)
T ss_dssp             GHHHHHHHTT----CSSHHHHHHHHHHHHHHCCGG-GHHHHHHHTTCSSHHHHHHHHHHHHHHCS-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHh----CCCHHHHHHHHHHHHHcCCHH-HHHHHHHHHcCCCHHHHHHHHHHHHHhCc-hhHHHHHHHHHh
Confidence            2333333331    455555555666666666543 33333333345565555555556655554 344444444443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	622
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	7e-07
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	7e-04

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

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]

 Score = 49.7 bits (117), Expect = 7e-07
 Identities = 51/356 (14%), Positives = 109/356 (30%), Gaps = 12/356 (3%)

Query: 206 YVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNE 265
               G+   A   C Q+ R     +  V L L     Q   L  +    +L +K      
Sbjct: 9   EYQAGDFEAAERHCMQLWRQEPD-NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLA 67

Query: 266 DPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLK 325
           +   NL      +    E       A+  K  F+   +    A +        +   +  
Sbjct: 68  EAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSA 127

Query: 326 TSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINK 385
               P+   + + L    +     +  +      +    +     ++L  +F+  G I  
Sbjct: 128 LQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWL 187

Query: 386 AKEVFERVPDKD---LAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILS 442
           A   FE+    D   L  +  + N      + D+A+  + +   +         + ++  
Sbjct: 188 AIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVV--HGNLAC 245

Query: 443 ACSHSGMVDDGLSFFKSMQSNFGIEPSI-EHYLCLVDLLGRAGRFDLALKTIHE--MPVE 499
                G++D  +  ++       ++P   + Y  L + L   G    A    +       
Sbjct: 246 VYYEQGLIDLAIDTYRRAIE---LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCP 302

Query: 500 VQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEA 555
             A     L +   +  N+E      +  L + P     +  +A++    G  +EA
Sbjct: 303 THADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEA 358

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

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]

 Score = 40.0 bits (92), Expect = 7e-04
 Identities = 27/183 (14%), Positives = 67/183 (36%), Gaps = 10/183 (5%)

Query: 150 SMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFD---EIGETSIVSWTTIIGGY 206
           ++H     + L  N +    ++ ++  +    + A + +     +     V    +   Y
Sbjct: 188 AIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVY 247

Query: 207 VNVGNVNEAFGLCNQMRRMSVTPDLV-VFLNLILGCAQVGNLFLALSMHSLLLKSGYNNE 265
              G ++ A     +   +   P     + NL     + G++  A   ++  L+      
Sbjct: 248 YEQGLIDLAIDTYRRAIELQ--PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTH 304

Query: 266 DPLDNLLVSMYTKCGDLELARRVFDAVLE---KSVFLWTSMIGGYAQLGYPSEAVNLFKR 322
               N L ++  + G++E A R++   LE   +     +++     Q G   EA+  +K 
Sbjct: 305 ADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKE 364

Query: 323 LLK 325
            ++
Sbjct: 365 AIR 367

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	622
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.94
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.93
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.68
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.67
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.28
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.22
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.19
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.16
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.13
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.13
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.13
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.09
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.06
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.06
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.94
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.94
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.91
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.87
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.84
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.83
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.79
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.76
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.75
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.75
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.7
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.68
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.67
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.63
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.61
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.61
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.57
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.53
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.49
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.49
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.48
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.45
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.41
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.39
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.24
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.19
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.18
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.09
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	98.06
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.06
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.06
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	98.04
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.02
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.91
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.85
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.76
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.73
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.72
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.51
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.37
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	97.33
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.44
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.34
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.3
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.87
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.21
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	94.27
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	93.04
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	91.51
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	84.12

>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=99.94  E-value=5.9e-23  Score=200.41  Aligned_cols=372  Identities=13%  Similarity=0.074  Sum_probs=304.6

Q ss_pred             HHHHHHhcCChHHHHHHHhhcCC--C-CcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCCh
Q 006997          171 VMSMYAKFGKVNEARSIFDEIGE--T-SIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNL  247 (622)
Q Consensus       171 l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  247 (622)
                      +...+.+.|++++|.+.|+++.+  | +..++..+..+|.+.|++++|+..|++..+.. +-+..++..+...+...|++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccc
Confidence            55667888999999999998854  3 56788889999999999999999999988753 33567888899999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhc---CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 006997          248 FLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAV---LEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLL  324 (622)
Q Consensus       248 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  324 (622)
                      ++|...+....+.. +.+..............+....+.......   ..................+....+...+.+..
T Consensus        84 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (388)
T d1w3ba_          84 QEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             cccccccccccccc-cccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhh
Confidence            99999999998876 444444444444454444444444433322   33455566666777778888888888888877


Q ss_pred             hCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHH
Q 006997          325 KTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVW  401 (622)
Q Consensus       325 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~  401 (622)
                      ... +-+...+..+...+...|+++.|...++.+.+.. +.+...+..+...+...|++++|...+++...   .+...+
T Consensus       163 ~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  240 (388)
T d1w3ba_         163 ETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVH  240 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHH
T ss_pred             ccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhhHHHHH
Confidence            753 3356677788888999999999999999988875 55678888999999999999999999987653   456678


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHH
Q 006997          402 SAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLL  480 (622)
Q Consensus       402 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~  480 (622)
                      ..+...+...|++++|+..|+++.+   +.|+ ..++..+..++...|++++|.+.++.....  .+.+...+..+...+
T Consensus       241 ~~l~~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~  315 (388)
T d1w3ba_         241 GNLACVYYEQGLIDLAIDTYRRAIE---LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIK  315 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH---TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc--CCccchhhhHHHHHH
Confidence            8888999999999999999999988   6675 578888999999999999999999998864  355678888999999


Q ss_pred             HhcCChHHHHHHHHhCC-CCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCC
Q 006997          481 GRAGRFDLALKTIHEMP-VEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGM  551 (622)
Q Consensus       481 ~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  551 (622)
                      ...|++++|++.++++. ..| +..++..++.++...|++++|+..++++++++|+++.++..+|.+|.+.||
T Consensus       316 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         316 REQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            99999999999999876 445 477889999999999999999999999999999999999999999999886

>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=99.93  E-value=3.4e-22  Score=194.99  Aligned_cols=373  Identities=16%  Similarity=0.117  Sum_probs=306.6

Q ss_pred             HHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCC
Q 006997          202 IIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGD  281 (622)
Q Consensus       202 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  281 (622)
                      +...+.+.|++++|++.++++.+.. +-+...+..+...+...|++++|...++.+++.. |.+..++..+..+|.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhcc
Confidence            3456778899999999999998753 2356788888899999999999999999999886 6677889999999999999


Q ss_pred             HHHHHHHHhhcCC---CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHH
Q 006997          282 LELARRVFDAVLE---KSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYI  358 (622)
Q Consensus       282 ~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~  358 (622)
                      +++|...+.....   .+...+..........+....+............ ................+....+...+...
T Consensus        83 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT-TCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccccccchhhhhHHHHHHh
Confidence            9999999988743   3445555566666667777777776666655543 34444455566667778888888888777


Q ss_pred             HHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-CH
Q 006997          359 VLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-DA  434 (622)
Q Consensus       359 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~~  434 (622)
                      .... +.+...+..+...+...|++++|...+++..+   .+...|..+...+...|++++|+..+++...   ..| +.
T Consensus       162 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~  237 (388)
T d1w3ba_         162 IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALS---LSPNHA  237 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHH---HCTTCH
T ss_pred             hccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHH---HhhhHH
Confidence            7665 55677888889999999999999999987653   3567888899999999999999999999987   334 45


Q ss_pred             HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHH
Q 006997          435 VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSA  511 (622)
Q Consensus       435 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~  511 (622)
                      ..+..+..++.+.|++++|+..|+++.+.   .| +...+..+...+...|++++|++.++...  .+.+...+..+...
T Consensus       238 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  314 (388)
T d1w3ba_         238 VVHGNLACVYYEQGLIDLAIDTYRRAIEL---QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANI  314 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT---CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHH
Confidence            67888899999999999999999999854   55 57888999999999999999999999876  55667889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCCccCCCceEEEECCeEEEEEecCCC
Q 006997          512 CMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRLTKEPGWSQVEIDGSVQVFVAGDRS  591 (622)
Q Consensus       512 ~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  591 (622)
                      +...|++++|+..++++++++|+++.++..++.+|.+.|++++|.+.|+++.+.                          
T Consensus       315 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l--------------------------  368 (388)
T d1w3ba_         315 KREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--------------------------  368 (388)
T ss_dssp             HHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT--------------------------
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--------------------------
Confidence            999999999999999999999999999999999999999999999999998762                          


Q ss_pred             CcchHHHHHHHHHHHHHHH
Q 006997          592 HHLSVDIRKTLKELHIKLL  610 (622)
Q Consensus       592 ~~~~~~~~~~l~~~~~~~~  610 (622)
                      +|...+++..+..+..+|+
T Consensus       369 ~P~~~~a~~~lg~~~~~~~  387 (388)
T d1w3ba_         369 SPTFADAYSNMGNTLKEMQ  387 (388)
T ss_dssp             CTTCHHHHHHHHHHHHHTC
T ss_pred             CCCCHHHHHHHHHHHHHcC
Confidence            4455567777777666553

>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=99.68  E-value=1.8e-15  Score=142.57  Aligned_cols=241  Identities=14%  Similarity=0.005  Sum_probs=166.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 006997          302 SMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCG  381 (622)
Q Consensus       302 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  381 (622)
                      .....+.+.|++++|+..|+++++.. +-+..+|..+..++...|+++.|...+..+.+.. |.+...+..+..+|...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            35556777788888888887777753 2245566777777777777777777777776654 344555666666666666


Q ss_pred             ChHHHHHHhccCCCCChh---HHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHH
Q 006997          382 RINKAKEVFERVPDKDLA---VWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFK  458 (622)
Q Consensus       382 ~~~~A~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~  458 (622)
                      ++++|.+.++.....++.   .+.......                     ...+.......+..+...+.+.+|...+.
T Consensus       102 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~---------------------~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  160 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAYAHLVTPAEEGA---------------------GGAGLGPSKRILGSLLSDSLFLEVKELFL  160 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTTGGGCC------------------------------------CTTHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccchHHHHHhhhhhh---------------------hhcccccchhhHHHHHHhhHHHHHHHHHH
Confidence            666666666554321110   000000000                     00000001111223344466778888888


Q ss_pred             HhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCC
Q 006997          459 SMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGST  536 (622)
Q Consensus       459 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~  536 (622)
                      ++.....-.++...+..+...+...|++++|+..+++..  .+.+...|..++..+...|++++|++.++++++++|+++
T Consensus       161 ~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~  240 (323)
T d1fcha_         161 AAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYI  240 (323)
T ss_dssp             HHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhccH
Confidence            877552333456778888999999999999999999876  344577899999999999999999999999999999999


Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          537 GNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      .++..+|.+|.+.|++++|++.|++.++.
T Consensus       241 ~a~~~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         241 RSRYNLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999998874

>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=99.67  E-value=6.2e-15  Score=138.89  Aligned_cols=267  Identities=14%  Similarity=0.055  Sum_probs=198.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCC--C-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCC
Q 006997          271 LLVSMYTKCGDLELARRVFDAVLE--K-SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGS  347 (622)
Q Consensus       271 ~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~  347 (622)
                      .....+.+.|++++|...|+++.+  | ++.+|..+...+...|++++|+..|.+..+.. +-+...+..+...+...|+
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccc
Confidence            466778999999999999999853  3 57899999999999999999999999998864 2356778888889999999


Q ss_pred             hHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHh
Q 006997          348 LSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHV  427 (622)
Q Consensus       348 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  427 (622)
                      ++.|.+.++.+...... .............                ..+.......+..+...+.+.+|.+.+.++.+.
T Consensus       103 ~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~  165 (323)
T d1fcha_         103 QRQACEILRDWLRYTPA-YAHLVTPAEEGAG----------------GAGLGPSKRILGSLLSDSLFLEVKELFLAAVRL  165 (323)
T ss_dssp             HHHHHHHHHHHHHTSTT-TGGGCC-------------------------------CTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccchhhHHHhccc-hHHHHHhhhhhhh----------------hcccccchhhHHHHHHhhHHHHHHHHHHHHHHH
Confidence            99999999998876422 1111100000000                001111111223344556778899999988772


Q ss_pred             cCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHh
Q 006997          428 EGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQV  504 (622)
Q Consensus       428 ~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~  504 (622)
                      ..-.++...+..+...+...|++++|+..+++....   .| +...|..+...|...|++++|++.++++.  .+.+..+
T Consensus       166 ~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a  242 (323)
T d1fcha_         166 DPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRS  242 (323)
T ss_dssp             STTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             hhcccccccchhhHHHHHHHHHHhhhhccccccccc---ccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHH
Confidence            222345677888889999999999999999999854   45 57888899999999999999999999886  3445778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCch-----------HHHHHHHHHhcCChHHHHHH
Q 006997          505 WAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGN-----------YILMANLFTSAGMWKEAATA  558 (622)
Q Consensus       505 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~-----------~~~l~~~~~~~g~~~~A~~~  558 (622)
                      |..++.+|...|++++|+..|+++++++|++...           +..+..++...|+.+.+...
T Consensus       243 ~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~~  307 (323)
T d1fcha_         243 RYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAA  307 (323)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999999999999999999999887653           34566677767776655443

>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=99.28  E-value=5.4e-10  Score=105.99  Aligned_cols=260  Identities=13%  Similarity=-0.002  Sum_probs=166.5

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHhccCChHHHHHHHHHHHHcC--CCC---chhHHHHHH
Q 006997          304 IGGYAQLGYPSEAVNLFKRLLKTSVRPN----EATLATTLSACAELGSLSKGKEIEEYIVLNG--LES---NRQVQTSLI  374 (622)
Q Consensus       304 ~~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~---~~~~~~~l~  374 (622)
                      ...+...|++++|++++++..+.....+    ...+..+...+...|++++|...++.+.+..  ...   ....+..+.
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~   98 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS   98 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            3445566666666666666655421111    1234445556666666666666666554421  011   123344455


Q ss_pred             HHHHhcCChHHHHHHhccCCC-------CC----hhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC----CHHHHHH
Q 006997          375 HMFSKCGRINKAKEVFERVPD-------KD----LAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP----DAVVYTS  439 (622)
Q Consensus       375 ~~~~~~~~~~~A~~~~~~~~~-------~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p----~~~~~~~  439 (622)
                      ..+...|++..+...+.....       +.    ...+..+...+...|+++.+...+..... .....    ....+..
T Consensus        99 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~~  177 (366)
T d1hz4a_          99 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIE-VLSSYQPQQQLQCLAM  177 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-HTTTSCGGGGHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHH-HhhhhhhhhHHHHHHH
Confidence            566667777766666654321       11    12444566777888888888888888776 22111    2334555


Q ss_pred             HHHHHhccCchHHHHHHHHHhHHhcCCCCC-----hhHHHHHHHHHHhcCChHHHHHHHHhCC-CCC-----cHHhHHHH
Q 006997          440 ILSACSHSGMVDDGLSFFKSMQSNFGIEPS-----IEHYLCLVDLLGRAGRFDLALKTIHEMP-VEV-----QAQVWAPL  508 (622)
Q Consensus       440 ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-----~~~~~~~l  508 (622)
                      ....+...++...+...+.+..........     ...+..+...+...|++++|...+++.. ..|     ....+..+
T Consensus       178 ~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~l  257 (366)
T d1hz4a_         178 LIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNI  257 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHH
Confidence            666777888888888888776543222221     2345556677888999999999998875 111     23455667


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHc------cCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          509 LSACMKHHNVELGEYAAKNLLT------LNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       509 ~~~~~~~~~~~~a~~~~~~~~~------~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ..++...|++++|...+++++.      ..|....++..++.+|.+.|++++|.+.+++..+
T Consensus       258 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         258 ARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            8888999999999999998874      3455667888999999999999999999998765

>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=99.22  E-value=3.8e-10  Score=104.26  Aligned_cols=190  Identities=10%  Similarity=0.104  Sum_probs=132.2

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHhccCCC--C-ChhHHHHHHHHHHHcC-CHHHHHHHHHHhHHhcCCCCC-HHHHHHHHH
Q 006997          368 QVQTSLIHMFSKCGRINKAKEVFERVPD--K-DLAVWSAMINGYAIHG-MGDQALNLFYKMQHVEGLKPD-AVVYTSILS  442 (622)
Q Consensus       368 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~  442 (622)
                      .+++.+...+.+.+.+++|++.++++.+  | +...|+....++...| ++++|+..+++..+   +.|+ ..+|..+..
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~---~~p~~~~a~~~~~~  120 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIE---EQPKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH---HCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHH---HHHhhhhHHHHHhH
Confidence            3444555556666677777777776653  2 4456666666666655 47788888887776   5565 567777777


Q ss_pred             HHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCC--
Q 006997          443 ACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHN--  517 (622)
Q Consensus       443 ~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~--  517 (622)
                      ++...|++++|+..++++.+.   .| +...|..+..++...|++++|++.++++.  .+.+...|+.+...+...+.  
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~---dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~  197 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQ---DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYN  197 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHhhccHHHHHHHHhhhhhh---hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccc
Confidence            777888888888888887744   44 57777778888888888888888887776  33446677776666555443  


Q ss_pred             ----HHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          518 ----VELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       518 ----~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                          +++|+..+.++++++|++..+|..++.++...| .+++.+.++...+
T Consensus       198 ~~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~  247 (315)
T d2h6fa1         198 DRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRG-LSKYPNLLNQLLD  247 (315)
T ss_dssp             SHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHH
T ss_pred             hhhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHhcC-hHHHHHHHHHHHH
Confidence                577888888888888888888888877766544 4667777776655

>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=99.19  E-value=1.9e-10  Score=103.66  Aligned_cols=220  Identities=9%  Similarity=-0.037  Sum_probs=127.4

Q ss_pred             hHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHhccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHH
Q 006997          313 PSEAVNLFKRLLKTSVRPN---EATLATTLSACAELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEV  389 (622)
Q Consensus       313 ~~~a~~~~~~m~~~~~~~~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  389 (622)
                      .+.++.-+++........+   ..++..+...|.+.|+++.|...|+.+.+.. |.++.+++.+..+|.+.|++++|.+.
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhh
Confidence            3444555555544321111   1244455566667777777777777776655 44566677777777777777777777


Q ss_pred             hccCCC---CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcC
Q 006997          390 FERVPD---KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFG  465 (622)
Q Consensus       390 ~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~  465 (622)
                      |+++.+   .+..++..+..+|...|++++|.+.|++..+   ..|+ ......+..++.+.+..+.+..+......   
T Consensus        94 ~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---  167 (259)
T d1xnfa_          94 FDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQ---DDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK---  167 (259)
T ss_dssp             HHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH---
T ss_pred             hhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHh---hccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc---
Confidence            776653   2445677777778888888888888888877   4453 33333344444555555555555444442   


Q ss_pred             CCCChhHHHHHHHHHHhcCC----hHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchH
Q 006997          466 IEPSIEHYLCLVDLLGRAGR----FDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNY  539 (622)
Q Consensus       466 ~~p~~~~~~~l~~~~~~~g~----~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  539 (622)
                      ..++...+. ++..+.....    .+.+...+.... ..|+ ..+|..++..+...|++++|...|++++..+|++...|
T Consensus       168 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  246 (259)
T d1xnfa_         168 SDKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEH  246 (259)
T ss_dssp             SCCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHH
T ss_pred             cchhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHH
Confidence            223222222 2222222211    222222222111 1222 34677788888899999999999999999999765444


Q ss_pred             H
Q 006997          540 I  540 (622)
Q Consensus       540 ~  540 (622)
                      .
T Consensus       247 ~  247 (259)
T d1xnfa_         247 R  247 (259)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.16  E-value=6.4e-10  Score=102.68  Aligned_cols=223  Identities=10%  Similarity=0.082  Sum_probs=133.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC-ChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 006997          299 LWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELG-SLSKGKEIEEYIVLNGLESNRQVQTSLIHMF  377 (622)
Q Consensus       299 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  377 (622)
                      +++.+...+.+.+.+++|+++++++++.. +-+...|.....++...| ++++|...++.+.+.. +             
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p-------------  109 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-P-------------  109 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-T-------------
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-H-------------
Confidence            45555555566666666666666666542 112233444444444333 2455555554444433 2             


Q ss_pred             HhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHH
Q 006997          378 SKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSF  456 (622)
Q Consensus       378 ~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~  456 (622)
                                        .+..+|..+...+...|++++|++.++++.+   +.|+ ...|..+..++...|++++|++.
T Consensus       110 ------------------~~~~a~~~~~~~~~~l~~~~eAl~~~~kal~---~dp~n~~a~~~~~~~~~~~~~~~~Al~~  168 (315)
T d2h6fa1         110 ------------------KNYQVWHHRRVLVEWLRDPSQELEFIADILN---QDAKNYHAWQHRQWVIQEFKLWDNELQY  168 (315)
T ss_dssp             ------------------TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHTCCTTHHHH
T ss_pred             ------------------hhhhHHHHHhHHHHhhccHHHHHHHHhhhhh---hhhcchHHHHHHHHHHHHHHhhHHHHHH
Confidence                              2344556666666666777777777777776   5554 56777777777777777777777


Q ss_pred             HHHhHHhcCCCC-ChhHHHHHHHHHHhcCC------hHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHH
Q 006997          457 FKSMQSNFGIEP-SIEHYLCLVDLLGRAGR------FDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKN  527 (622)
Q Consensus       457 ~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~------~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  527 (622)
                      ++++.+.   .| +...|+.+..++.+.+.      +++|++.+.++.  .+.+...|..+...+.. ...+++.+.++.
T Consensus       169 ~~~al~~---~p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~  244 (315)
T d2h6fa1         169 VDQLLKE---DVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPNLLNQ  244 (315)
T ss_dssp             HHHHHHH---CTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHHHHHH
T ss_pred             HHHHHHH---CCccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHh-cChHHHHHHHHH
Confidence            7777743   44 45666666666655554      467777777665  34456677777665543 446778888888


Q ss_pred             HHccCCCCCc--hHHHHHHHHHhc--CChHHHHHHHHH
Q 006997          528 LLTLNPGSTG--NYILMANLFTSA--GMWKEAATARGL  561 (622)
Q Consensus       528 ~~~~~p~~~~--~~~~l~~~~~~~--g~~~~A~~~~~~  561 (622)
                      ++++.|+...  .+..++.+|...  ++.+.+...+++
T Consensus       245 ~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~k  282 (315)
T d2h6fa1         245 LLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNK  282 (315)
T ss_dssp             HHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHH
T ss_pred             HHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            8888876443  455667776543  444444444443

>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=99.13  E-value=2.9e-09  Score=100.81  Aligned_cols=258  Identities=10%  Similarity=0.007  Sum_probs=143.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHhccCChHHHHHHHHHHHHc----CCCCc---h
Q 006997          300 WTSMIGGYAQLGYPSEAVNLFKRLLKTSV-RPN----EATLATTLSACAELGSLSKGKEIEEYIVLN----GLESN---R  367 (622)
Q Consensus       300 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~~~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~~---~  367 (622)
                      ++.+...|...|++++|+..|++..+... .++    ...+..+...+...|++..+...+......    ..+..   .
T Consensus        54 ~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~  133 (366)
T d1hz4a_          54 TSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHE  133 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHH
Confidence            33444445555555555555544433110 001    112333334445555555555555444321    11111   1


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHhccCCC--------CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCC-C----H
Q 006997          368 QVQTSLIHMFSKCGRINKAKEVFERVPD--------KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKP-D----A  434 (622)
Q Consensus       368 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~--------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p-~----~  434 (622)
                      ..+..+...+...|+++.+...+.....        .....+......+...++..++...+.+......... .    .
T Consensus       134 ~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~  213 (366)
T d1hz4a_         134 FLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWIS  213 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHH
T ss_pred             HHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHH
Confidence            2334455556666666666666554331        1122344455566677777777777766554211111 1    1


Q ss_pred             HHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC--ChhHHHHHHHHHHhcCChHHHHHHHHhCC-------CCCc-HHh
Q 006997          435 VVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP--SIEHYLCLVDLLGRAGRFDLALKTIHEMP-------VEVQ-AQV  504 (622)
Q Consensus       435 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~-~~~  504 (622)
                      ..+......+...|+++.|...++.......-.+  ....+..+...+...|++++|...++++.       ..|+ ...
T Consensus       214 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  293 (366)
T d1hz4a_         214 NANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRN  293 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHH
Confidence            2345556677788888888888887763211111  13345567788888899998888888763       2233 446


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHccCCCC---------CchHHHHHHHHHhcCChHHHHH
Q 006997          505 WAPLLSACMKHHNVELGEYAAKNLLTLNPGS---------TGNYILMANLFTSAGMWKEAAT  557 (622)
Q Consensus       505 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~---------~~~~~~l~~~~~~~g~~~~A~~  557 (622)
                      +..+...+...|++++|.+.+++++++.+..         ...+..+...+...|+.+++.+
T Consensus       294 ~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         294 LLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHHH
Confidence            7778888999999999999999998865421         1223344455566677766654

>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=99.13  E-value=1.5e-10  Score=104.22  Aligned_cols=214  Identities=12%  Similarity=0.016  Sum_probs=151.4

Q ss_pred             ChHHHHHHHHHHHHcCCCC---chhHHHHHHHHHHhcCChHHHHHHhccCCC---CChhHHHHHHHHHHHcCCHHHHHHH
Q 006997          347 SLSKGKEIEEYIVLNGLES---NRQVQTSLIHMFSKCGRINKAKEVFERVPD---KDLAVWSAMINGYAIHGMGDQALNL  420 (622)
Q Consensus       347 ~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~  420 (622)
                      +.+.+...++++.......   ...++..+..+|.+.|++++|.+.|++..+   .++.+|..+..+|...|++++|++.
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhh
Confidence            3445555566665442111   235677788999999999999999998763   4678999999999999999999999


Q ss_pred             HHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-
Q 006997          421 FYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-  497 (622)
Q Consensus       421 ~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-  497 (622)
                      |+++.+   +.|+ ..++..+..++...|++++|...|+...+.   .| +......+...+.+.+..+.+..+..... 
T Consensus        94 ~~~al~---~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (259)
T d1xnfa_          94 FDSVLE---LDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  167 (259)
T ss_dssp             HHHHHH---HCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             hhHHHH---HHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhh---ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc
Confidence            999998   6675 567888999999999999999999999865   44 44444444455555565555544444332 


Q ss_pred             CCCcHHhHHHHHHHHHh----cCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          498 VEVQAQVWAPLLSACMK----HHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       498 ~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                      ..+....+. +...+..    .+..+.+...+.......|..+.++..+|.+|...|++++|.+.|++.....+
T Consensus       168 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  240 (259)
T d1xnfa_         168 SDKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  240 (259)
T ss_dssp             SCCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             cchhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence            122222222 2222221    23345555555555566777778899999999999999999999999987543

>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=99.13  E-value=2.2e-10  Score=107.48  Aligned_cols=231  Identities=7%  Similarity=-0.066  Sum_probs=163.1

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC--ChHHHHHHHHHHHHcCCCCchhH-HHHHHHHHHhcCChH
Q 006997          308 AQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELG--SLSKGKEIEEYIVLNGLESNRQV-QTSLIHMFSKCGRIN  384 (622)
Q Consensus       308 ~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~  384 (622)
                      ...|++++|+..++...+.. +-+...+..+..++...+  +++.+...+..+.+... .+... +......+...+.++
T Consensus        84 ~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~  161 (334)
T d1dcea1          84 ESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPA  161 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHH
T ss_pred             HHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhccccH
Confidence            34455677888888877653 224445555555554444  47788888888877653 33443 344556777788888


Q ss_pred             HHHHHhccCCCC---ChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhH
Q 006997          385 KAKEVFERVPDK---DLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQ  461 (622)
Q Consensus       385 ~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  461 (622)
                      +|...++.+...   +...|+.+..++...|++++|...+++..+   +.|+..   .+...+...+..+++...+....
T Consensus       162 ~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~---~~~~~~~~l~~~~~a~~~~~~~l  235 (334)
T d1dcea1         162 EELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPEN---VLLKEL---ELVQNAFFTDPNDQSAWFYHRWL  235 (334)
T ss_dssp             HHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHH---HHHHHH---HHHHHHHHHCSSCSHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHH---hHHHHH---HHHHHHHHhcchhHHHHHHHHHH
Confidence            999888887753   556777788888888888887766666555   333321   22333445566677777777776


Q ss_pred             HhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchH
Q 006997          462 SNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNY  539 (622)
Q Consensus       462 ~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  539 (622)
                      ..  -+++...+..++..+...|+.++|...+.+.. ..|+ ..+|..++.++...|++++|...++++++++|.++..|
T Consensus       236 ~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~  313 (334)
T d1dcea1         236 LG--RAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYL  313 (334)
T ss_dssp             HS--CCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHH
T ss_pred             Hh--CcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHH
Confidence            43  23445556667778888899999999998876 4443 56788899999999999999999999999999988899


Q ss_pred             HHHHHHHHh
Q 006997          540 ILMANLFTS  548 (622)
Q Consensus       540 ~~l~~~~~~  548 (622)
                      ..|+..+.-
T Consensus       314 ~~L~~~~~~  322 (334)
T d1dcea1         314 DDLRSKFLL  322 (334)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhH
Confidence            988887764

>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=99.09  E-value=1.1e-08  Score=94.06  Aligned_cols=184  Identities=13%  Similarity=0.053  Sum_probs=111.6

Q ss_pred             ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC--C-C-hhHHHHHHHHHHHcCCHHHHHHHHH
Q 006997          347 SLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD--K-D-LAVWSAMINGYAIHGMGDQALNLFY  422 (622)
Q Consensus       347 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~-~~~~~~l~~~~~~~~~~~~a~~~~~  422 (622)
                      ..+.+..+++.+++...+.+...+...+..+.+.|+++.|..+|+++.+  | + ...|...+..+.+.|+.+.|.++|+
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            3456667777776654455556666666777777777777777766543  2 2 2356666666667777777777777


Q ss_pred             HhHHhcCCCCC-HHHHHHHHHH-HhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC---
Q 006997          423 KMQHVEGLKPD-AVVYTSILSA-CSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP---  497 (622)
Q Consensus       423 ~~~~~~~~~p~-~~~~~~ll~~-~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---  497 (622)
                      ++.+   ..|+ ...|...... +...|+.+.|..+|+.+...+  +.+...|..+++.+.+.|+++.|..+|++..   
T Consensus       159 ~al~---~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~  233 (308)
T d2onda1         159 KARE---DARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  233 (308)
T ss_dssp             HHHT---STTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSS
T ss_pred             HHHH---hCCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh--hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC
Confidence            7765   3332 2333333322 334566777777777776541  3345666666777777777777777776653   


Q ss_pred             -CCCc--HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC
Q 006997          498 -VEVQ--AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS  535 (622)
Q Consensus       498 -~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  535 (622)
                       ..|+  ...|...+.....+|+.+.+..+++++.+..|+.
T Consensus       234 ~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~  274 (308)
T d2onda1         234 SLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREE  274 (308)
T ss_dssp             SSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTT
T ss_pred             CCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCccc
Confidence             1222  3356666666666677777777777776666654

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: HAT/Suf repeat
domain: Cleavage stimulation factor 77 kDa subunit CSTF3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.06  E-value=1.3e-08  Score=93.63  Aligned_cols=180  Identities=9%  Similarity=0.033  Sum_probs=144.8

Q ss_pred             CChHHHHHHhccCC----CCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC--HHHHHHHHHHHhccCchHHHH
Q 006997          381 GRINKAKEVFERVP----DKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD--AVVYTSILSACSHSGMVDDGL  454 (622)
Q Consensus       381 ~~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~--~~~~~~ll~~~~~~g~~~~a~  454 (622)
                      +..++|..+|++..    ..+...|...+..+...|+++.|..+|+++.+   ..|.  ...|...+..+.+.|+.+.|.
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~---~~~~~~~~~w~~~~~~~~~~~~~~~ar  154 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA---IEDIDPTLVYIQYMKFARRAEGIKSGR  154 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---SSSSCTHHHHHHHHHHHHHHHCHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH---HhcCChHHHHHHHHHHHHHcCChHHHH
Confidence            34577778887654    23556788888889999999999999999987   5554  346889999999999999999


Q ss_pred             HHHHHhHHhcCCCC-ChhHHHHHHHH-HHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHc
Q 006997          455 SFFKSMQSNFGIEP-SIEHYLCLVDL-LGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLT  530 (622)
Q Consensus       455 ~~~~~~~~~~~~~p-~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  530 (622)
                      ++|+++...   .| +...|...+.. +...|+.+.|..+|+++.  .+.++..|..++..+...|+++.|..+|++++.
T Consensus       155 ~i~~~al~~---~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~  231 (308)
T d2onda1         155 MIFKKARED---ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLT  231 (308)
T ss_dssp             HHHHHHHTS---TTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHh---CCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            999999843   44 45555555544 344689999999999987  455678899999999999999999999999999


Q ss_pred             cCCCCCc----hHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          531 LNPGSTG----NYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       531 ~~p~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      ..|.++.    .|..++......|+.+.+.++++++.+.-
T Consensus       232 ~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~  271 (308)
T d2onda1         232 SGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAF  271 (308)
T ss_dssp             SSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHT
T ss_pred             hCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            8776554    67788888888999999999999887643

>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=99.06  E-value=2.9e-10  Score=106.68  Aligned_cols=252  Identities=10%  Similarity=-0.069  Sum_probs=183.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH-HHH---HHHH-------HhccCChHHHHHHHHHHHHcCCCCchhHHH
Q 006997          303 MIGGYAQLGYPSEAVNLFKRLLKTSVRPNEAT-LAT---TLSA-------CAELGSLSKGKEIEEYIVLNGLESNRQVQT  371 (622)
Q Consensus       303 l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~---ll~~-------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  371 (622)
                      ++......+..++|++++++.++.  .|+..+ |+.   ++..       +...|.++++..+++.+.+.. |.+...+.
T Consensus        35 ~~~~~~~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~  111 (334)
T d1dcea1          35 VFQKRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWH  111 (334)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHhcccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHH
Confidence            333334444568899999988875  455543 222   2222       233455788888999888776 55677777


Q ss_pred             HHHHHHHhcC--ChHHHHHHhccCCC---CChhHHHH-HHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHH
Q 006997          372 SLIHMFSKCG--RINKAKEVFERVPD---KDLAVWSA-MINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSAC  444 (622)
Q Consensus       372 ~l~~~~~~~~--~~~~A~~~~~~~~~---~~~~~~~~-l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~  444 (622)
                      .+..++...+  ++++|...+.++..   ++...+.. ....+...+.+++|+..++++.+   ..|+ ...|..+..++
T Consensus       112 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~---~~p~~~~a~~~l~~~~  188 (334)
T d1dcea1         112 HRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLIT---RNFSNYSSWHYRSCLL  188 (334)
T ss_dssp             HHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTT---TTCCCHHHHHHHHHHH
T ss_pred             HhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHH---cCCCCHHHHHHHHHHH
Confidence            7777777665  47899999888753   34555543 44667778999999999999987   6665 67788888899


Q ss_pred             hccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHH
Q 006997          445 SHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGE  522 (622)
Q Consensus       445 ~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~  522 (622)
                      ...|++++|...++.....   .|+.   ..+...+...+..+++...+.+..  .+++...+..++..+...++.++|.
T Consensus       189 ~~~~~~~~A~~~~~~~~~~---~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~  262 (334)
T d1dcea1         189 PQLHPQPDSGPQGRLPENV---LLKE---LELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESC  262 (334)
T ss_dssp             HHHSCCCCSSSCCSSCHHH---HHHH---HHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHhHHh---HHHH---HHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHH
Confidence            9999988887766655532   2221   123344556677777887777654  3444556667777888889999999


Q ss_pred             HHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          523 YAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       523 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      ..+.++++.+|++..++..++.+|...|++++|.+.++++.+.+
T Consensus       263 ~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld  306 (334)
T d1dcea1         263 KELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD  306 (334)
T ss_dssp             HHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            99999999999999999999999999999999999999998743

>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=98.94  E-value=2.3e-09  Score=92.06  Aligned_cols=114  Identities=9%  Similarity=-0.062  Sum_probs=60.2

Q ss_pred             CCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHH
Q 006997          432 PDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPL  508 (622)
Q Consensus       432 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l  508 (622)
                      |+...+......+.+.|++++|+..|++++..   .| ++..|..+..+|.+.|++++|+..++++. ..|+ ..+|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~---~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHH
Confidence            44455555555556666666666666555533   23 34455555555555555555555555554 2332 4455555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHh
Q 006997          509 LSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTS  548 (622)
Q Consensus       509 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (622)
                      +.++...|++++|+..++++++++|++...+...+..+..
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~l~  118 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALR  118 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            5555555555555555555555555444444444444333

>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=98.94  E-value=3.3e-09  Score=81.30  Aligned_cols=90  Identities=14%  Similarity=0.020  Sum_probs=70.5

Q ss_pred             HHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChH
Q 006997          476 LVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWK  553 (622)
Q Consensus       476 l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  553 (622)
                      -...+.+.|++++|+..|+++.  .+.+...|..++.++...|++++|+..++++++++|+++..|..++.++...|+++
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHH
Confidence            4566777778888888887765  44456678888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHhhhC
Q 006997          554 EAATARGLMDDR  565 (622)
Q Consensus       554 ~A~~~~~~~~~~  565 (622)
                      +|+..|++..+.
T Consensus        89 ~A~~~~~~a~~~  100 (117)
T d1elwa_          89 EAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            888888877763

>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=98.91  E-value=1.1e-08  Score=78.22  Aligned_cols=106  Identities=11%  Similarity=0.030  Sum_probs=91.6

Q ss_pred             HHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhc
Q 006997          439 SILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKH  515 (622)
Q Consensus       439 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~  515 (622)
                      .-...+...|++++|+..|+++.+.   .| +...|..+..+|...|++++|+..++++.  .+.++..|..++.++...
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~   84 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKL---DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFL   84 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhc---CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHc
Confidence            3456678889999999999998854   45 67788889999999999999999999886  556688899999999999


Q ss_pred             CCHHHHHHHHHHHHccCCCCCchHHHHHHHHH
Q 006997          516 HNVELGEYAAKNLLTLNPGSTGNYILMANLFT  547 (622)
Q Consensus       516 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (622)
                      |++++|+..++++++++|+++.++..+..+..
T Consensus        85 ~~~~~A~~~~~~a~~~~p~~~~~~~~l~~l~~  116 (117)
T d1elwa_          85 NRFEEAKRTYEEGLKHEANNPQLKEGLQNMEA  116 (117)
T ss_dssp             TCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhC
Confidence            99999999999999999999999988887654

>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=98.87  E-value=1.7e-08  Score=85.12  Aligned_cols=116  Identities=14%  Similarity=0.093  Sum_probs=61.4

Q ss_pred             HhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHH
Q 006997          444 CSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELG  521 (622)
Q Consensus       444 ~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a  521 (622)
                      +...|+++.|++.|+++.     +|++.+|..+..+|...|++++|++.|++..  .+.+...|..++.++.+.|++++|
T Consensus        15 ~~~~~d~~~Al~~~~~i~-----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A   89 (192)
T d1hh8a_          15 AADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLA   89 (192)
T ss_dssp             HHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHCCCHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHH
Confidence            344555555555554332     3444555555555555555555555555554  233344555555555555666666


Q ss_pred             HHHHHHHHccCCCCC----------------chHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          522 EYAAKNLLTLNPGST----------------GNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       522 ~~~~~~~~~~~p~~~----------------~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      ...|+++++..|.++                .++..++.++.+.|++++|.+.++...+
T Consensus        90 ~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~  148 (192)
T d1hh8a_          90 IKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATS  148 (192)
T ss_dssp             HHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            655555555433322                2344556666666666666666655544

>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=98.84  E-value=4.8e-09  Score=79.60  Aligned_cols=89  Identities=12%  Similarity=-0.018  Sum_probs=80.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHhCC-CCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCCh
Q 006997          475 CLVDLLGRAGRFDLALKTIHEMP-VEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMW  552 (622)
Q Consensus       475 ~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  552 (622)
                      .+...+.+.|++++|+..++++. ..| ++.+|..++.++.+.|++++|+..++++++++|+++.++..++.+|...|++
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~~  100 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNA  100 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCCH
Confidence            45677888999999999999876 344 5888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhh
Q 006997          553 KEAATARGLMD  563 (622)
Q Consensus       553 ~~A~~~~~~~~  563 (622)
                      ++|.+.+++.+
T Consensus       101 ~~A~~~l~~~l  111 (112)
T d1hxia_         101 NAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999999753

>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=98.83  E-value=2.4e-08  Score=81.48  Aligned_cols=103  Identities=8%  Similarity=0.024  Sum_probs=49.8

Q ss_pred             HHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhc
Q 006997          439 SILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKH  515 (622)
Q Consensus       439 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~  515 (622)
                      .....|.+.|++++|+..|+++.+.   .| +...|..+..+|...|++++|+..|+++.  .+.+..+|..++.++...
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~   91 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMAL   91 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHhhhcccc---chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHc
Confidence            3344455555555555555555532   22 34444445555555555555555555443  222334455555555555


Q ss_pred             CCHHHHHHHHHHHHccCCCCCchHHHHHH
Q 006997          516 HNVELGEYAAKNLLTLNPGSTGNYILMAN  544 (622)
Q Consensus       516 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~  544 (622)
                      |++++|...+++++.++|+++.++..+..
T Consensus        92 g~~~eA~~~~~~a~~~~p~~~~~~~~l~~  120 (159)
T d1a17a_          92 GKFRAALRDYETVVKVKPHDKDAKMKYQE  120 (159)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            55555555555555555555444444433

>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=98.79  E-value=4.3e-08  Score=79.96  Aligned_cols=90  Identities=17%  Similarity=0.145  Sum_probs=55.8

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHH
Q 006997          402 SAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDL  479 (622)
Q Consensus       402 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~  479 (622)
                      ......|.+.|++++|+..|+++.+   +.|+ ...|..+..+|...|++++|+..|+++++.   .| +...|..++.+
T Consensus        14 ~~~gn~~~~~~~y~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~---~p~~~~a~~~~g~~   87 (159)
T d1a17a_          14 KTQANDYFKAKDYENAIKFYSQAIE---LNPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL---DKKYIKGYYRRAAS   87 (159)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHhhhccc---cchhhhhhhhhhHHHHHhccccchHHHHHHHHHHH---cccchHHHHHHHHH
Confidence            3344556666666666666666666   4454 455666666666666666666666666643   33 34566666666


Q ss_pred             HHhcCChHHHHHHHHhCC
Q 006997          480 LGRAGRFDLALKTIHEMP  497 (622)
Q Consensus       480 ~~~~g~~~~A~~~~~~~~  497 (622)
                      |...|++++|...+++..
T Consensus        88 ~~~~g~~~eA~~~~~~a~  105 (159)
T d1a17a_          88 NMALGKFRAALRDYETVV  105 (159)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHH
Confidence            666666666666666654

>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=98.76  E-value=3e-08  Score=83.53  Aligned_cols=88  Identities=10%  Similarity=0.003  Sum_probs=82.2

Q ss_pred             HHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHH
Q 006997          477 VDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAA  556 (622)
Q Consensus       477 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  556 (622)
                      ...+...|++++|++.|+++. +|++.+|..++.++...|++++|+..|+++++++|+++.+|..+|.+|.++|++++|.
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~-~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQ-DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHH
Confidence            556788999999999999976 7788899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhC
Q 006997          557 TARGLMDDR  565 (622)
Q Consensus       557 ~~~~~~~~~  565 (622)
                      +.|++....
T Consensus        91 ~~~~kAl~~   99 (192)
T d1hh8a_          91 KDLKEALIQ   99 (192)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHh
Confidence            999998763

>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=98.75  E-value=2e-08  Score=85.88  Aligned_cols=96  Identities=13%  Similarity=0.040  Sum_probs=66.8

Q ss_pred             CChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHH
Q 006997          396 KDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHY  473 (622)
Q Consensus       396 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~  473 (622)
                      |+...+......|.+.|++++|+..|+++.+   +.|+ ...|..+..+|.+.|++++|+..|++++   .+.| +...|
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~---~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al---~l~p~~~~a~   75 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAIT---RNPLVAVYYTNRALCYLKMQQPEQALADCRRAL---ELDGQSVKAH   75 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSCTTCHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHH---HhCCCcHHHH
Confidence            3444455566677777777777777777776   4454 5567777777777777777777777776   4456 36667


Q ss_pred             HHHHHHHHhcCChHHHHHHHHhCC
Q 006997          474 LCLVDLLGRAGRFDLALKTIHEMP  497 (622)
Q Consensus       474 ~~l~~~~~~~g~~~~A~~~~~~~~  497 (622)
                      ..+..+|.+.|++++|+..|+++.
T Consensus        76 ~~lg~~~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          76 FFLGQCQLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHH
Confidence            777777777777777777777654

>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=98.75  E-value=1.5e-07  Score=85.48  Aligned_cols=163  Identities=10%  Similarity=0.001  Sum_probs=100.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHhHHhc---CCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC----hhHHHH
Q 006997          404 MINGYAIHGMGDQALNLFYKMQHVE---GLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS----IEHYLC  475 (622)
Q Consensus       404 l~~~~~~~~~~~~a~~~~~~~~~~~---~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~----~~~~~~  475 (622)
                      ....|...|++++|.+.|.++.+..   +-+++ ..+|..+..+|.+.|++++|.+.+++....+.-..+    ..++..
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            3445556666666666666654411   11111 245666677777777777777777765532111111    334455


Q ss_pred             HHHHHHh-cCChHHHHHHHHhCC-----C--CCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCc-------hH
Q 006997          476 LVDLLGR-AGRFDLALKTIHEMP-----V--EVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTG-------NY  539 (622)
Q Consensus       476 l~~~~~~-~g~~~~A~~~~~~~~-----~--~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~-------~~  539 (622)
                      +...|.. .|++++|++.++++.     .  ++. ..++..++..+...|++++|...++++....|.++.       .+
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            5555644 477777777777653     1  111 335667777888888888888888888887765542       34


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          540 ILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       540 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      ...+.++...|+++.|.+.+++..+..
T Consensus       203 ~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         203 LKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            566667777888888888888776643

>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=6.5e-07  Score=81.12  Aligned_cols=164  Identities=6%  Similarity=0.006  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC----HHHHHHHHHHHh-ccCchHHHHHHHHHhHHhcCCCCC----hh
Q 006997          401 WSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD----AVVYTSILSACS-HSGMVDDGLSFFKSMQSNFGIEPS----IE  471 (622)
Q Consensus       401 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~----~~~~~~ll~~~~-~~g~~~~a~~~~~~~~~~~~~~p~----~~  471 (622)
                      |..+..+|.+.|++++|.+.+++..+...-..+    ..++..+...|. ..|++++|++.++++..-.....+    ..
T Consensus        80 ~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~  159 (290)
T d1qqea_          80 YVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNK  159 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhh
Confidence            344444455555555555555544331000011    123444444553 457778887777776532111111    34


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC-CCCc--------HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCch----
Q 006997          472 HYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ--------AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGN----  538 (622)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~--------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~----  538 (622)
                      ++..++..|...|++++|++.++++. ..+.        ...+...+..+...|+++.|...++++.+++|..+..    
T Consensus       160 ~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~  239 (290)
T d1qqea_         160 CFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESN  239 (290)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HH
T ss_pred             HHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHH
Confidence            46677788888888888888887754 1111        1123344556667899999999999999988864432    


Q ss_pred             -HHHHHHHHHh--cCChHHHHHHHHHhhh
Q 006997          539 -YILMANLFTS--AGMWKEAATARGLMDD  564 (622)
Q Consensus       539 -~~~l~~~~~~--~g~~~~A~~~~~~~~~  564 (622)
                       ...++.++..  .+.+++|+..|+++.+
T Consensus       240 ~l~~l~~a~~~~d~e~~~eai~~y~~~~~  268 (290)
T d1qqea_         240 FLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (290)
T ss_dssp             HHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHhh
Confidence             3455555554  3568888888875543

>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=98.68  E-value=1.5e-07  Score=77.29  Aligned_cols=86  Identities=13%  Similarity=0.028  Sum_probs=74.6

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHh
Q 006997          471 EHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTS  548 (622)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (622)
                      .+|..+..+|.+.|++++|+..++++.  .+.++.+|..++.++...|++++|+..|+++++++|+++.+...+..+..+
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~  142 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQR  142 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            356778889999999999999999887  344688899999999999999999999999999999999999999999877


Q ss_pred             cCChHHHH
Q 006997          549 AGMWKEAA  556 (622)
Q Consensus       549 ~g~~~~A~  556 (622)
                      .+...+..
T Consensus       143 ~~~~~~~e  150 (170)
T d1p5qa1         143 IRRQLARE  150 (170)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            76665543

>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=98.67  E-value=6.5e-08  Score=73.97  Aligned_cols=108  Identities=12%  Similarity=-0.030  Sum_probs=85.5

Q ss_pred             HHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCC---hHHHHHHHHhCC-CCCcH---HhHHHHHH
Q 006997          438 TSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGR---FDLALKTIHEMP-VEVQA---QVWAPLLS  510 (622)
Q Consensus       438 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~-~~~~~---~~~~~l~~  510 (622)
                      ..+++.+...+++++|.+.|++....  -+.++.++..+..++.+.++   +++|+.+++++. ..|++   .+|..++.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            35677788888999999999998854  13467888888888887554   456999999876 34433   36888999


Q ss_pred             HHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHH
Q 006997          511 ACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFT  547 (622)
Q Consensus       511 ~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (622)
                      +|.+.|++++|++.|+++++++|++..+...+..+..
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I~~  117 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDK  117 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHHHHH
Confidence            9999999999999999999999999888777665543

>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=98.63  E-value=2e-07  Score=76.62  Aligned_cols=112  Identities=10%  Similarity=0.032  Sum_probs=80.7

Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhc
Q 006997          436 VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKH  515 (622)
Q Consensus       436 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~  515 (622)
                      .+......+.+.|++++|+..|.+.+......+....               .-.....    .....++..+..+|.+.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~---------------~~~~~~~----~~~~~~~~nla~~y~k~   75 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSN---------------EEAQKAQ----ALRLASHLNLAMCHLKL   75 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCS---------------HHHHHHH----HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccch---------------HHHhhhc----hhHHHHHHHHHHHHHhh
Confidence            3445555677777777777777777643221111000               0000000    00124567788899999


Q ss_pred             CCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          516 HNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       516 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      |++++|+..++++++++|+++.++..+|.+|...|++++|+..|++..+.+
T Consensus        76 ~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  126 (170)
T d1p5qa1          76 QAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY  126 (170)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            999999999999999999999999999999999999999999999998743

>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=98.61  E-value=9e-08  Score=73.18  Aligned_cols=92  Identities=9%  Similarity=-0.051  Sum_probs=79.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcC---CHHHHHHHHHHHHccCCCC--CchHHHHHHHH
Q 006997          474 LCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHH---NVELGEYAAKNLLTLNPGS--TGNYILMANLF  546 (622)
Q Consensus       474 ~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~  546 (622)
                      ..+++.+...+++++|.+.|++..  .+.++.++..++.++.+.+   ++++|+.+++++++.+|.+  +.++..+|.+|
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            457788889999999999999987  4666888999999987644   5567999999999998754  34789999999


Q ss_pred             HhcCChHHHHHHHHHhhhC
Q 006997          547 TSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       547 ~~~g~~~~A~~~~~~~~~~  565 (622)
                      .+.|++++|++.|+++++.
T Consensus        83 ~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHh
Confidence            9999999999999999873

>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=98.61  E-value=1.4e-07  Score=73.37  Aligned_cols=92  Identities=11%  Similarity=0.031  Sum_probs=76.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCc-------hHHHHH
Q 006997          473 YLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTG-------NYILMA  543 (622)
Q Consensus       473 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~-------~~~~l~  543 (622)
                      +..+...+.+.|++++|+..|++..  .+.+..++..+..+|.+.|++++|+..++++++++|+++.       +|..++
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            4457778888888888888888876  4455778889999999999999999999999999988765       455666


Q ss_pred             HHHHhcCChHHHHHHHHHhhh
Q 006997          544 NLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       544 ~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      .++...+++++|++.|++...
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHh
Confidence            777888899999999987764

>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=98.57  E-value=3.2e-07  Score=73.78  Aligned_cols=109  Identities=8%  Similarity=-0.039  Sum_probs=79.8

Q ss_pred             HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC---hhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHH
Q 006997          436 VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS---IEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSAC  512 (622)
Q Consensus       436 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~  512 (622)
                      .+..-...+.+.|++.+|+..|.++.......+.   ......                 ..    .....++..++.++
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~-----------------~~----~~~~~~~~Nla~~~   77 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDK-----------------KK----NIEISCNLNLATCY   77 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHH-----------------HH----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHh-----------------hh----hHHHHHHhhHHHHH
Confidence            3455556677778888888887777643111111   000000                 00    11234677888899


Q ss_pred             HhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          513 MKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       513 ~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      .+.|++++|+..++++++++|.+..+|..+|.+|...|++++|...|++..+.
T Consensus        78 ~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          78 NKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999988873

>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=98.53  E-value=9e-07  Score=72.45  Aligned_cols=94  Identities=12%  Similarity=0.021  Sum_probs=78.4

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHh
Q 006997          471 EHYLCLVDLLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTS  548 (622)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (622)
                      .+|..+..+|.+.|++++|+..++++.  .+.+..+|..++.++...|++++|+..|+++++++|+++.+...+..+..+
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~  144 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKK  144 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            356678888999999999999999886  456688899999999999999999999999999999999999999998877


Q ss_pred             cCChHH-HHHHHHHhhh
Q 006997          549 AGMWKE-AATARGLMDD  564 (622)
Q Consensus       549 ~g~~~~-A~~~~~~~~~  564 (622)
                      .+...+ ..+.+.+|-+
T Consensus       145 ~~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1         145 AKEHNERDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHh
Confidence            765543 4555555543

>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=98.49  E-value=1.4e-05  Score=71.05  Aligned_cols=229  Identities=8%  Similarity=-0.076  Sum_probs=137.6

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCChHHHHHHHHHHHHcCCCCchhHHH
Q 006997          296 SVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAE----LGSLSKGKEIEEYIVLNGLESNRQVQT  371 (622)
Q Consensus       296 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  371 (622)
                      |+..+..|...+...+++++|++.|++..+.|   +...+..|...|..    ..+...+...+....+.+   ++....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            45566667777777777788888777777665   33444444444433    345555555555555443   111222


Q ss_pred             HHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHH----hcc
Q 006997          372 SLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSAC----SHS  447 (622)
Q Consensus       372 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~----~~~  447 (622)
                      .+...+...                           .....+.+.|...++...+ .|..+   ....+...+    ...
T Consensus        75 ~l~~~~~~~---------------------------~~~~~~~~~a~~~~~~a~~-~g~~~---a~~~l~~~~~~~~~~~  123 (265)
T d1ouva_          75 LLGNLYYSG---------------------------QGVSQNTNKALQYYSKACD-LKYAE---GCASLGGIYHDGKVVT  123 (265)
T ss_dssp             HHHHHHHHT---------------------------SSSCCCHHHHHHHHHHHHH-TTCHH---HHHHHHHHHHHCSSSC
T ss_pred             ccccccccc---------------------------cccchhhHHHHHHHhhhhh-hhhhh---HHHhhcccccCCCccc
Confidence            222221110                           0113455666666666665 33211   111121111    234


Q ss_pred             CchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh----cCChHHHHHHHHhCCCCCcHHhHHHHHHHHHh----cCCHH
Q 006997          448 GMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGR----AGRFDLALKTIHEMPVEVQAQVWAPLLSACMK----HHNVE  519 (622)
Q Consensus       448 g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~  519 (622)
                      .....+...+.....    ..+...+..|...|..    ..+...+..+++......+..+...+...+..    ..|.+
T Consensus       124 ~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~  199 (265)
T d1ouva_         124 RDFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFK  199 (265)
T ss_dssp             CCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHH
T ss_pred             chhHHHHHHhhhhhc----ccccchhhhhhhhhccCCCcccccccchhhhhccccccccccccchhhhcccCcccccchh
Confidence            455666666666542    3455666667777765    34566777777766544566677777766665    57899


Q ss_pred             HHHHHHHHHHccCCCCCchHHHHHHHHHh----cCChHHHHHHHHHhhhCCC
Q 006997          520 LGEYAAKNLLTLNPGSTGNYILMANLFTS----AGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       520 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  567 (622)
                      .|+..|+++.+.+  ++..+..|+.+|.+    ..+.++|.+.|++..+.|.
T Consensus       200 ~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         200 EALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             hhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            9999999998874  57889999999986    4489999999999987664

>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=98.49  E-value=5.1e-07  Score=74.17  Aligned_cols=65  Identities=9%  Similarity=0.019  Sum_probs=59.0

Q ss_pred             cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          501 QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       501 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      ....+..+..++.+.|++++|+..++++++++|+++.+|..+|.+|...|++++|++.|++..+.
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l  140 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  140 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh
Confidence            35567788888999999999999999999999999999999999999999999999999998873

>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=98.48  E-value=2.9e-08  Score=97.70  Aligned_cols=114  Identities=12%  Similarity=-0.025  Sum_probs=63.4

Q ss_pred             cCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCc-HHhHHHHHHHHHhcCCHHHHHHH
Q 006997          447 SGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQ-AQVWAPLLSACMKHHNVELGEYA  524 (622)
Q Consensus       447 ~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~  524 (622)
                      .+.++.++..+....   ++.| +...+..+...+.+.|+.++|...+++.. .++ ..++..++..+...|++++|+..
T Consensus        99 ~~~Y~~ai~~l~~~~---~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al-~~~~~~~~~~LG~l~~~~~~~~~A~~~  174 (497)
T d1ya0a1          99 SGFYTQLLQELCTVF---NVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSC-SYICQHCLVHLGDIARYRNQTSQAESY  174 (497)
T ss_dssp             HHHHHHHHHHHTC----------------------------------CCHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH---CCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHh-CCCHHHHHHHHHHHHHHcccHHHHHHH
Confidence            344555555444433   4444 45566677777888888888877776654 222 34677788888888888888888


Q ss_pred             HHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          525 AKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       525 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      |+++++++|+++..|..||.++...|+..+|...|.+...
T Consensus       175 y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~  214 (497)
T d1ya0a1         175 YRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIA  214 (497)
T ss_dssp             HHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHS
T ss_pred             HHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            8888888888888888888888888888888888887765

>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=98.45  E-value=7.6e-07  Score=71.50  Aligned_cols=129  Identities=12%  Similarity=-0.062  Sum_probs=96.9

Q ss_pred             hHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 006997          399 AVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVD  478 (622)
Q Consensus       399 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~  478 (622)
                      ..+......+.+.|++.+|+..|.++..   +.|...           ............        .....+|..+..
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~---~~~~~~-----------~~~~~~~~~~~~--------~~~~~~~~Nla~   75 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALD---FFIHTE-----------EWDDQILLDKKK--------NIEISCNLNLAT   75 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH---TTTTCT-----------TCCCHHHHHHHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCcchh-----------hhhhHHHHHhhh--------hHHHHHHhhHHH
Confidence            3556667788999999999999999887   322211           000011111111        112346778999


Q ss_pred             HHHhcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhc
Q 006997          479 LLGRAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSA  549 (622)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  549 (622)
                      +|.+.|++++|++.++++.  .+.+..+|..++.++...|++++|+..|+++++++|+++.+...+..+..+.
T Consensus        76 ~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~kl  148 (153)
T d2fbna1          76 CYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNKL  148 (153)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            9999999999999999886  4556889999999999999999999999999999999999988887765543

>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=98.41  E-value=8.2e-07  Score=72.87  Aligned_cols=87  Identities=7%  Similarity=-0.020  Sum_probs=74.9

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHhCC-C-CCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHH
Q 006997          469 SIEHYLCLVDLLGRAGRFDLALKTIHEMP-V-EVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLF  546 (622)
Q Consensus       469 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (622)
                      ....+..+..+|.+.|++++|+..++++. . +.++..|..++.++...|++++|+..|+++++++|+++.+...+..+.
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~  155 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVK  155 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            45567788899999999999999999886 3 445778999999999999999999999999999999999999998887


Q ss_pred             HhcCChHHH
Q 006997          547 TSAGMWKEA  555 (622)
Q Consensus       547 ~~~g~~~~A  555 (622)
                      .+.....++
T Consensus       156 ~~l~~~~~~  164 (169)
T d1ihga1         156 QKIKAQKDK  164 (169)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            766555544

>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=98.39  E-value=2.6e-06  Score=69.63  Aligned_cols=64  Identities=8%  Similarity=-0.010  Sum_probs=59.2

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          503 QVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      .++..+..++.+.|++++|+..++++++++|+++.++..++.+|...|++++|...|+++....
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            4566788889999999999999999999999999999999999999999999999999998743

>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=98.24  E-value=0.00092  Score=60.07  Aligned_cols=248  Identities=13%  Similarity=0.053  Sum_probs=119.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHH
Q 006997          271 LLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSK  350 (622)
Q Consensus       271 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~  350 (622)
                      .++..+.+.++++.|.+.+.+.  .+..+|..+...+.+.....-+     .+.......++.....++..|...|.++.
T Consensus        45 rl~~~~v~l~~~~~avd~~~k~--~~~~~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~  117 (336)
T d1b89a_          45 RLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEE  117 (336)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHhhccHHHHHHHHHHc--CCHHHHHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHH
Confidence            3444445555555555554433  2344555555555544443222     11122223344444455555555566665


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCC-C----------ChhHHHHHHHHHHHcCCHHHHHH
Q 006997          351 GKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPD-K----------DLAVWSAMINGYAIHGMGDQALN  419 (622)
Q Consensus       351 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~----------~~~~~~~l~~~~~~~~~~~~a~~  419 (622)
                      ...+++...... +.+...++.++.+|++.+ .++..+.+..... -          ....|.-++-.|.+.|++++|..
T Consensus       118 Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~  195 (336)
T d1b89a_         118 LITMLEAALGLE-RAHMGMFTELAILYSKFK-PQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  195 (336)
T ss_dssp             HHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHcCC-ccchHHHHHHHHHHHHhC-hHHHHHHHHhccccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHH
Confidence            555555543321 334455555665555543 2333333333211 0          11123444555555666666554


Q ss_pred             HHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCC
Q 006997          420 LFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVE  499 (622)
Q Consensus       420 ~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  499 (622)
                      +.-   +   ..++.......+..+.+.++++...+........   .|  ...+.++......-+..+..+.+++    
T Consensus       196 ~~i---~---~~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~---~p--~~i~~lL~~v~~~~d~~r~V~~~~k----  260 (336)
T d1b89a_         196 TMM---N---HPTDAWKEGQFKDIITKVANVELYYRAIQFYLEF---KP--LLLNDLLMVLSPRLDHTRAVNYFSK----  260 (336)
T ss_dssp             HHH---H---STTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH---CG--GGHHHHHHHHGGGCCHHHHHHHHHH----
T ss_pred             HHH---H---cchhhhhHHHHHHHHHccCChHHHHHHHHHHHHc---CH--HHHHHHHHHhccCCCHHHHHHHHHh----
Confidence            432   2   3334444444555566666666555555544422   22  3344455555555555555554444    


Q ss_pred             CcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHH
Q 006997          500 VQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATAR  559 (622)
Q Consensus       500 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  559 (622)
                                     .+++......++...+.  ++..++..+.++|...++++.-++..
T Consensus       261 ---------------~~~l~li~p~Le~v~~~--n~~~vn~al~~lyie~~d~~~l~~~i  303 (336)
T d1b89a_         261 ---------------VKQLPLVKPYLRSVQNH--NNKSVNESLNNLFITEEDYQALRTSI  303 (336)
T ss_dssp             ---------------TTCTTTTHHHHHHHHTT--CCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ---------------cCCcHHHHHHHHHHHHc--ChHHHHHHHHHHHhCcchhHHHHHHH
Confidence                           33444444444443332  24467888888888888865544433

>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=98.19  E-value=0.00074  Score=59.36  Aligned_cols=228  Identities=11%  Similarity=-0.056  Sum_probs=131.3

Q ss_pred             CchhHHHHHHHHHhcCCHHHHHHHHhhcCC-CCHHHHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 006997          265 EDPLDNLLVSMYTKCGDLELARRVFDAVLE-KSVFLWTSMIGGYAQ----LGYPSEAVNLFKRLLKTSVRPNEATLATTL  339 (622)
Q Consensus       265 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll  339 (622)
                      |+..+..|...+.+.+++++|.+.|++..+ .+..++..|...|..    ..+...|...++.....+   +......+.
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l~   77 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLG   77 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhccc
Confidence            455677788888999999999999998854 477778778888876    568889999999888766   223333333


Q ss_pred             HHH----hccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHhccCCCCChhHHHHHHHHHHHcCCHH
Q 006997          340 SAC----AELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVFERVPDKDLAVWSAMINGYAIHGMGD  415 (622)
Q Consensus       340 ~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  415 (622)
                      ..+    ....+.+.+...++...+.|..   .....+...+.....                           ......
T Consensus        78 ~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~---------------------------~~~~~~  127 (265)
T d1ouva_          78 NLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKV---------------------------VTRDFK  127 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSS---------------------------SCCCHH
T ss_pred             cccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCc---------------------------ccchhH
Confidence            332    2345678888888887776632   112222222221100                           111223


Q ss_pred             HHHHHHHHhHHhcCCCCCHHHHHHHHHHHhc----cCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh----cCChH
Q 006997          416 QALNLFYKMQHVEGLKPDAVVYTSILSACSH----SGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGR----AGRFD  487 (622)
Q Consensus       416 ~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~  487 (622)
                      .+...+.....    ..+...+..+...+..    ..+...+...++...+    ..+......+...|..    ..+++
T Consensus       128 ~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~----~g~~~A~~~lg~~y~~g~~~~~d~~  199 (265)
T d1ouva_         128 KAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACD----LKDSPGCFNAGNMYHHGEGATKNFK  199 (265)
T ss_dssp             HHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTCSSCCCHH
T ss_pred             HHHHHhhhhhc----ccccchhhhhhhhhccCCCcccccccchhhhhcccc----ccccccccchhhhcccCcccccchh
Confidence            33333333332    1223333333333332    3344555555555442    1244444445555544    45677


Q ss_pred             HHHHHHHhCCCCCcHHhHHHHHHHHHh----cCCHHHHHHHHHHHHccCC
Q 006997          488 LALKTIHEMPVEVQAQVWAPLLSACMK----HHNVELGEYAAKNLLTLNP  533 (622)
Q Consensus       488 ~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p  533 (622)
                      +|+.+|++.....++..+..|+..|..    .+|.++|.+.|+++.+..+
T Consensus       200 ~A~~~~~~aa~~g~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         200 EALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             hhhhhHhhhhcccCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            777777766533445566666666654    3477778888888877665

>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=98.18  E-value=5.4e-06  Score=62.15  Aligned_cols=85  Identities=11%  Similarity=-0.003  Sum_probs=40.7

Q ss_pred             HHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHh
Q 006997          405 INGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGR  482 (622)
Q Consensus       405 ~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~  482 (622)
                      ...+.+.|++++|+..|++..+   ..|+ ...|..+..++.+.|++++|+..|+++.+.   .| +...+..+..+|..
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~---~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~---~p~~~~a~~~la~~y~~   96 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQ---KEPEREEAWRSLGLTQAENEKDGLAIIALNHARML---DPKDIAVHAALAVSHTN   96 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhcc---cccccchhhhhhhhhhhhhhhHHHhhccccccccc---ccccccchHHHHHHHHH
Confidence            3344455555555555555554   3343 344444555555555555555555554432   23 24444444444445


Q ss_pred             cCChHHHHHHHHh
Q 006997          483 AGRFDLALKTIHE  495 (622)
Q Consensus       483 ~g~~~~A~~~~~~  495 (622)
                      .|++++|++.+++
T Consensus        97 ~g~~~~A~~~l~~  109 (112)
T d1hxia_          97 EHNANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHH
Confidence            5555555444443

>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=98.09  E-value=2.2e-06  Score=67.83  Aligned_cols=43  Identities=12%  Similarity=0.041  Sum_probs=32.0

Q ss_pred             CHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCC
Q 006997          517 NVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRR  566 (622)
Q Consensus       517 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  566 (622)
                      +++.|.+.|+++++++|++...+..|+...       +|.+++.++.+.|
T Consensus       101 ~~~~A~~~~~kal~l~P~~~~~~~~L~~~~-------ka~~~~~e~~k~~  143 (145)
T d1zu2a1         101 NFDLATQFFQQAVDEQPDNTHYLKSLEMTA-------KAPQLHAEAYKQG  143 (145)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHHH-------THHHHHHHHHHSS
T ss_pred             hHHHhhhhhhcccccCCCHHHHHHHHHHHH-------HHHHHHHHHHHHh
Confidence            468899999999999999887777776664       4555555555544

>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=98.06  E-value=6.6e-06  Score=59.39  Aligned_cols=75  Identities=12%  Similarity=0.053  Sum_probs=57.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHhCC--------CCC-cHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHH
Q 006997          472 HYLCLVDLLGRAGRFDLALKTIHEMP--------VEV-QAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILM  542 (622)
Q Consensus       472 ~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  542 (622)
                      .+-.+...+.+.|++++|+..|+++.        ..+ ...++..++.++.+.|++++|+..++++++++|+++.++..+
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl   86 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHH
Confidence            33456666777777777777776653        112 256788899999999999999999999999999999998887


Q ss_pred             HHHH
Q 006997          543 ANLF  546 (622)
Q Consensus       543 ~~~~  546 (622)
                      +...
T Consensus        87 ~~~~   90 (95)
T d1tjca_          87 KYFE   90 (95)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6553

>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=98.06  E-value=1.2e-06  Score=69.33  Aligned_cols=51  Identities=14%  Similarity=0.122  Sum_probs=44.3

Q ss_pred             CCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCC-----------hHHHHHHHHHhhhCC
Q 006997          516 HNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGM-----------WKEAATARGLMDDRR  566 (622)
Q Consensus       516 ~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~-----------~~~A~~~~~~~~~~~  566 (622)
                      +.+++|+..++++++++|+++.+|..+|.+|...|+           +++|.+.|++..+-.
T Consensus        55 ~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~  116 (145)
T d1zu2a1          55 QMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQ  116 (145)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccC
Confidence            456889999999999999999999999999988764           688999999887643

>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=98.06  E-value=1.2e-05  Score=62.01  Aligned_cols=97  Identities=9%  Similarity=0.082  Sum_probs=57.1

Q ss_pred             HHHHHHhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc--------HHhHHHH
Q 006997          439 SILSACSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ--------AQVWAPL  508 (622)
Q Consensus       439 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~--------~~~~~~l  508 (622)
                      .+...+...|++++|+..|.+.++.   .| +...+..+..+|.+.|++++|+..++++. ..|+        ..+|..+
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKEL---DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh---CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            3445555556666666666655533   23 35555556666666666666666665543 1111        2345566


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHccCCCCCchH
Q 006997          509 LSACMKHHNVELGEYAAKNLLTLNPGSTGNY  539 (622)
Q Consensus       509 ~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~  539 (622)
                      +..+...+++++|+..+++++...| ++...
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~~~-~~~~~  115 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAEHR-TPDVL  115 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCC-CHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCC-CHHHH
Confidence            6677777888888888888887766 34433

>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=98.04  E-value=1.3e-05  Score=64.31  Aligned_cols=63  Identities=14%  Similarity=-0.054  Sum_probs=50.4

Q ss_pred             HhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC-----------CchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          503 QVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS-----------TGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       503 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      .+|+.+..++...|++++|...+++++++.|..           ..++..+|.+|...|++++|.+.|++..+.
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            467778888888888888888888888754421           235788899999999999999999988763

>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=98.02  E-value=1.5e-05  Score=65.26  Aligned_cols=115  Identities=7%  Similarity=-0.044  Sum_probs=82.4

Q ss_pred             HHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHhCCCCCcHHhHHHHHHHHHhcCC
Q 006997          438 TSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLALKTIHEMPVEVQAQVWAPLLSACMKHHN  517 (622)
Q Consensus       438 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~  517 (622)
                      ..........|++++|.+.|.+...-   .+....        ......+.+...-..+. +.....+..++.++...|+
T Consensus        15 ~~~g~~~~~~g~~e~A~~~~~~AL~l---~rG~~l--------~~~~~~~w~~~~r~~l~-~~~~~a~~~la~~~~~~g~   82 (179)
T d2ff4a2          15 KTAGVHAAAAGRFEQASRHLSAALRE---WRGPVL--------DDLRDFQFVEPFATALV-EDKVLAHTAKAEAEIACGR   82 (179)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTT---CCSSTT--------GGGTTSTTHHHHHHHHH-HHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhh---Cccccc--------ccCcchHHHHHHHHHHH-HHHHHHHHHHHHHHHHCCC
Confidence            33445677889999999999988843   222110        00000000111111110 1124567888999999999


Q ss_pred             HHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          518 VELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       518 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      +++|+..++++++.+|.+...|..++.+|.+.|++.+|++.|+++.+
T Consensus        83 ~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~  129 (179)
T d2ff4a2          83 ASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKT  129 (179)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999855

>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=97.91  E-value=1.6e-06  Score=85.03  Aligned_cols=166  Identities=13%  Similarity=0.009  Sum_probs=92.8

Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHH--hccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHh
Q 006997          313 PSEAVNLFKRLLKTSVRPNEATLATTLSAC--AELGSLSKGKEIEEYIVLNGLESNRQVQTSLIHMFSKCGRINKAKEVF  390 (622)
Q Consensus       313 ~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  390 (622)
                      +..+.+.++...+....++.......+..+  ...+.++.+...+....+.. +++...+..+...+.+.|+.+.|...+
T Consensus        65 y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~  143 (497)
T d1ya0a1          65 FKNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQ  143 (497)
T ss_dssp             THHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------C
T ss_pred             HHHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHH
Confidence            455667777766554344433222222221  22334444444443333322 344566777888888889999988887


Q ss_pred             ccCCCCCh-hHHHHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCC
Q 006997          391 ERVPDKDL-AVWSAMINGYAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEP  468 (622)
Q Consensus       391 ~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p  468 (622)
                      .....++. .++..+...+...|++++|...|++..+   +.|+ ..+|+.+...+...|+..+|+..|.+....  -+|
T Consensus       144 ~~al~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~---l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~--~~~  218 (497)
T d1ya0a1         144 SSSCSYICQHCLVHLGDIARYRNQTSQAESYYRHAAQ---LVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAV--KFP  218 (497)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSS--SBC
T ss_pred             HHHhCCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHH---HCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCC
Confidence            76554332 4667788889999999999999999998   7787 578999999999999999999999998843  255


Q ss_pred             ChhHHHHHHHHHHhcC
Q 006997          469 SIEHYLCLVDLLGRAG  484 (622)
Q Consensus       469 ~~~~~~~l~~~~~~~g  484 (622)
                      -+..+..|...+.+..
T Consensus       219 ~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         219 FPAASTNLQKALSKAL  234 (497)
T ss_dssp             CHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHhh
Confidence            6788888888886654

>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=97.85  E-value=3.2e-05  Score=55.60  Aligned_cols=62  Identities=8%  Similarity=-0.119  Sum_probs=54.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC-------CchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          504 VWAPLLSACMKHHNVELGEYAAKNLLTLNPGS-------TGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       504 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      ..-.++..+.+.|+++.|+..+++++++.|.+       +.++..++.+|.+.|++++|+..++++++.
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            34578889999999999999999999876543       357889999999999999999999999874

>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=97.76  E-value=0.012  Score=52.50  Aligned_cols=130  Identities=8%  Similarity=0.003  Sum_probs=57.0

Q ss_pred             HHHHHHHhhcCCChhHHHHHhccCCCCCCCcchHHHHHHHHHhCCCchHHHHHHHHHHHcCCCCChhhHHHHHhhhhhhh
Q 006997           68 QTGLIDMYSKCSDFVSSRKVLDEMPVRLRSVVSWNSIISAHSRACLNDEAILVLKEMWVLGLELSASTFVSVVSGCSFRQ  147 (622)
Q Consensus        68 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~  147 (622)
                      -..+.+.|.+.|.++.|..++..+.       -|..++..+.+.+++..|.+++....                      
T Consensus        17 ~~~i~~~c~~~~lye~A~~lY~~~~-------d~~rl~~~~v~l~~~~~avd~~~k~~----------------------   67 (336)
T d1b89a_          17 IQQVGDRCYDEKMYDAAKLLYNNVS-------NFGRLASTLVHLGEYQAAVDGARKAN----------------------   67 (336)
T ss_dssp             ------------CTTTHHHHHHHTT-------CHHHHHHHHHTTTCHHHHHHHHHHHT----------------------
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhCC-------CHHHHHHHHHhhccHHHHHHHHHHcC----------------------
Confidence            3344555556666666666666555       35555566666666666655554331                      


Q ss_pred             hHHHHHHHHHhCCCCCChhhHhHHHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCC
Q 006997          148 GISMHCCVYKLGLLNNEIPLANSVMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSV  227 (622)
Q Consensus       148 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  227 (622)
                                      +..+|..+...+.+......|.- .......+......++..|-..|.+++.+.+++..... -
T Consensus        68 ----------------~~~~~k~~~~~l~~~~e~~la~i-~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~  129 (336)
T d1b89a_          68 ----------------STRTWKEVCFACVDGKEFRLAQM-CGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-E  129 (336)
T ss_dssp             ----------------CHHHHHHHHHHHHHTTCHHHHHH-TTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-T
T ss_pred             ----------------CHHHHHHHHHHHHhCcHHHHHHH-HHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-C
Confidence                            33444455555555444433311 11111122233344555555666666666665554322 1


Q ss_pred             CCCHhHHHHHHHHHhcc
Q 006997          228 TPDLVVFLNLILGCAQV  244 (622)
Q Consensus       228 ~p~~~~~~~ll~~~~~~  244 (622)
                      .++...++.++..+++.
T Consensus       130 ~~~~~~~~~L~~lyak~  146 (336)
T d1b89a_         130 RAHMGMFTELAILYSKF  146 (336)
T ss_dssp             TCCHHHHHHHHHHHHTT
T ss_pred             ccchHHHHHHHHHHHHh
Confidence            33444455555555543

>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=97.73  E-value=4.1e-05  Score=67.00  Aligned_cols=127  Identities=14%  Similarity=-0.021  Sum_probs=90.0

Q ss_pred             HHHcCCHHHHHHHHHHhHHhcCCCCC-HHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHHhcCC
Q 006997          408 YAIHGMGDQALNLFYKMQHVEGLKPD-AVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPS-IEHYLCLVDLLGRAGR  485 (622)
Q Consensus       408 ~~~~~~~~~a~~~~~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~  485 (622)
                      ..+.|++++|+..+++..+   ..|+ ...+..+...++..|++++|...++...+.   .|+ ...+..+...+...+.
T Consensus         6 aL~~G~l~eAl~~l~~al~---~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l---~P~~~~~~~~l~~ll~a~~~   79 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIK---ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAAQA   79 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHH---TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHhccc
Confidence            3467899999999999887   6665 678888889999999999999999998854   664 4455555566655555


Q ss_pred             hHHHHHHHHhCC--CCCc-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHH
Q 006997          486 FDLALKTIHEMP--VEVQ-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYI  540 (622)
Q Consensus       486 ~~~A~~~~~~~~--~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  540 (622)
                      .+++..-.....  .+|+ ...+...+..+...|+.++|.+.++++.++.|+.+..+.
T Consensus        80 ~~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~~  137 (264)
T d1zbpa1          80 RKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLAN  137 (264)
T ss_dssp             HHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEET
T ss_pred             cHHHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCcccc
Confidence            555444333221  2232 333444556677889999999999999999998776654

>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=97.72  E-value=0.00012  Score=58.48  Aligned_cols=65  Identities=12%  Similarity=-0.050  Sum_probs=44.4

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHhCC--------CCCc-----HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCC
Q 006997          471 EHYLCLVDLLGRAGRFDLALKTIHEMP--------VEVQ-----AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGS  535 (622)
Q Consensus       471 ~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~~~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~  535 (622)
                      ..|+.+..+|...|++++|+..+++..        ..++     ...+..++.++...|++++|+..|++++++.|+.
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~  133 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEER  133 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHh
Confidence            345556666666666666666665542        1111     2356778889999999999999999999886643

>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=97.51  E-value=5.2e-05  Score=66.31  Aligned_cols=119  Identities=10%  Similarity=0.040  Sum_probs=87.6

Q ss_pred             HhccCchHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHHhcCChHHHHHHHHhCC-CCCc-HHhHHHHHHHHHhcCCHHH
Q 006997          444 CSHSGMVDDGLSFFKSMQSNFGIEP-SIEHYLCLVDLLGRAGRFDLALKTIHEMP-VEVQ-AQVWAPLLSACMKHHNVEL  520 (622)
Q Consensus       444 ~~~~g~~~~a~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~  520 (622)
                      ..+.|++++|+..+++.++.   .| +...+..++..|+..|++++|.+.++... ..|+ ...+..+...+...+..++
T Consensus         6 aL~~G~l~eAl~~l~~al~~---~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKA---SPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHT---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHH
Confidence            45679999999999999964   55 68899999999999999999999999986 4555 5556556555554444444


Q ss_pred             HHHHHHHHHc-cCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhC
Q 006997          521 GEYAAKNLLT-LNPGSTGNYILMANLFTSAGMWKEAATARGLMDDR  565 (622)
Q Consensus       521 a~~~~~~~~~-~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  565 (622)
                      +......... ..|.+...+...+..+.+.|+.++|.+.++++.+.
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            3332222222 23444455667788899999999999999998764

>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=0.0015  Score=52.90  Aligned_cols=111  Identities=11%  Similarity=0.023  Sum_probs=76.4

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHH
Q 006997          402 SAMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLG  481 (622)
Q Consensus       402 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~  481 (622)
                      ..........|++++|.+.|.+...   +.+....     ..+ ..+.+  +...-..+..     .....+..++..+.
T Consensus        15 ~~~g~~~~~~g~~e~A~~~~~~AL~---l~rG~~l-----~~~-~~~~w--~~~~r~~l~~-----~~~~a~~~la~~~~   78 (179)
T d2ff4a2          15 KTAGVHAAAAGRFEQASRHLSAALR---EWRGPVL-----DDL-RDFQF--VEPFATALVE-----DKVLAHTAKAEAEI   78 (179)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHT---TCCSSTT-----GGG-TTSTT--HHHHHHHHHH-----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHh---hCccccc-----ccC-cchHH--HHHHHHHHHH-----HHHHHHHHHHHHHH
Confidence            3344577889999999999999998   4443210     000 01111  1111111111     12355677888899


Q ss_pred             hcCChHHHHHHHHhCC--CCCcHHhHHHHHHHHHhcCCHHHHHHHHHHH
Q 006997          482 RAGRFDLALKTIHEMP--VEVQAQVWAPLLSACMKHHNVELGEYAAKNL  528 (622)
Q Consensus       482 ~~g~~~~A~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  528 (622)
                      +.|++++|+..++++.  .+-+...|..++.++...|+.++|++.|+++
T Consensus        79 ~~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~  127 (179)
T d2ff4a2          79 ACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRV  127 (179)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HCCCchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            9999999999999886  4556888999999999999999999999987

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=97.33  E-value=0.07  Score=50.31  Aligned_cols=116  Identities=9%  Similarity=0.057  Sum_probs=61.9

Q ss_pred             CCHHHHHHHHHHhHHhcCCCCCHH--HHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChHHH
Q 006997          412 GMGDQALNLFYKMQHVEGLKPDAV--VYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFDLA  489 (622)
Q Consensus       412 ~~~~~a~~~~~~~~~~~~~~p~~~--~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  489 (622)
                      .+.+.|..++..........++..  ....+.......+..+.+...+......   ..+.....-.+....+.+++..+
T Consensus       228 ~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~w~~~~al~~~~~~~~  304 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRGL  304 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhccc---ccchHHHHHHHHHHHHcCChHHH
Confidence            466677777776655222222221  1122223334455566666666655532   33444444444455566777777


Q ss_pred             HHHHHhCCCCCcH-HhH-HHHHHHHHhcCCHHHHHHHHHHHHc
Q 006997          490 LKTIHEMPVEVQA-QVW-APLLSACMKHHNVELGEYAAKNLLT  530 (622)
Q Consensus       490 ~~~~~~~~~~~~~-~~~-~~l~~~~~~~~~~~~a~~~~~~~~~  530 (622)
                      ...++.++..+.. .-| .=++.+....|+.+.|...|..+..
T Consensus       305 ~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~  347 (450)
T d1qsaa1         305 NTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (450)
T ss_dssp             HHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc
Confidence            7777777633221 111 2245566677777777777777654

>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=96.44  E-value=0.015  Score=44.04  Aligned_cols=81  Identities=6%  Similarity=-0.127  Sum_probs=50.1

Q ss_pred             ChHHHHHHHHhCCCCCcHHhHHHHHHHHHh----cCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHh----cCChHHHH
Q 006997          485 RFDLALKTIHEMPVEVQAQVWAPLLSACMK----HHNVELGEYAAKNLLTLNPGSTGNYILMANLFTS----AGMWKEAA  556 (622)
Q Consensus       485 ~~~~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~  556 (622)
                      +.++|++++++.....++.....|...|..    ..|.++|.+.|+++.+..  ++.....|+.+|..    ..+.++|.
T Consensus        38 ~~~~a~~~~~~aa~~g~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d~~~A~  115 (133)
T d1klxa_          38 NKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGVVKNEKQAV  115 (133)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             CHHHHHHHHhhhhcccchhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC--cchHHHHHHHHHHcCCccCCCHHHHH
Confidence            444555555544322333444444444432    356778888888877653  46677788888776    45788888


Q ss_pred             HHHHHhhhCCC
Q 006997          557 TARGLMDDRRL  567 (622)
Q Consensus       557 ~~~~~~~~~~~  567 (622)
                      ++|++..+.|.
T Consensus       116 ~~~~~Aa~~G~  126 (133)
T d1klxa_         116 KTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHTTC
T ss_pred             HHHHHHHHCCC
Confidence            88888776554

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.34  E-value=0.1  Score=37.49  Aligned_cols=141  Identities=12%  Similarity=0.081  Sum_probs=98.2

Q ss_pred             HHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHhcCChH
Q 006997          408 YAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGRAGRFD  487 (622)
Q Consensus       408 ~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  487 (622)
                      +...|..++..++..+...    ..+..-|+.++--....-+-+-..+.++.+-+-|.+.|-.. ...++.++...+.  
T Consensus        12 ~ildG~ve~Gveii~k~~~----ss~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~N-lk~vv~C~~~~n~--   84 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITK----SSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQN-LKSVVECGVINNT--   84 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHH----HSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSC-THHHHHHHHHTTC--
T ss_pred             HHHhhhHHhHHHHHHHHcc----cCCccccceeeeecccccchHHHHHHHHHHhhhcCchhhhc-HHHHHHHHHHhcc--
Confidence            4556888888888888776    12334456666555556677777778877766555544211 1223444444432  


Q ss_pred             HHHHHHHhCCCCCcHHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHHHHHhhhCCC
Q 006997          488 LALKTIHEMPVEVQAQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATARGLMDDRRL  567 (622)
Q Consensus       488 ~A~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  567 (622)
                                   +.....-.+.....+|.-+.-.++++.+++.+.-+|+....++.+|.+.|...++.+++.+..++|.
T Consensus        85 -------------~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          85 -------------LNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             -------------CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             -------------hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence                         2333445567778889999999999998886655889999999999999999999999999999887


Q ss_pred             c
Q 006997          568 T  568 (622)
Q Consensus       568 ~  568 (622)
                      +
T Consensus       152 K  152 (161)
T d1wy6a1         152 K  152 (161)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=96.30  E-value=0.014  Score=42.71  Aligned_cols=47  Identities=9%  Similarity=-0.012  Sum_probs=26.1

Q ss_pred             HHHHHHHHHHHHccCCCCC-chHHHHHHHHHhcCChHHHHHHHHHhhh
Q 006997          518 VELGEYAAKNLLTLNPGST-GNYILMANLFTSAGMWKEAATARGLMDD  564 (622)
Q Consensus       518 ~~~a~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~  564 (622)
                      .++|+.+++.++..+|.+. ..++.|+-.|.+.|++++|++.++++++
T Consensus        54 ~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          54 ERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            3455555555555555432 4555555556666666666666655554

>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=95.87  E-value=0.042  Score=40.05  Aligned_cols=75  Identities=12%  Similarity=0.072  Sum_probs=55.5

Q ss_pred             CCChhHHHHHHHHHHhcC---ChHHHHHHHHhCC-CCC-c-HHhHHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHH
Q 006997          467 EPSIEHYLCLVDLLGRAG---RFDLALKTIHEMP-VEV-Q-AQVWAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYI  540 (622)
Q Consensus       467 ~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~-~~~-~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~  540 (622)
                      .|++.+--.+..++.++.   +.++++.+++++. ..| + ...+..|.-+|.+.|+++.|.+.++++++.+|++..+..
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA~~  111 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGA  111 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHHHH
Confidence            345555555667776654   4567888887765 333 3 357788888999999999999999999999998876654


Q ss_pred             H
Q 006997          541 L  541 (622)
Q Consensus       541 ~  541 (622)
                      .
T Consensus       112 L  112 (124)
T d2pqrb1         112 L  112 (124)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=95.21  E-value=0.15  Score=38.18  Aligned_cols=112  Identities=9%  Similarity=-0.099  Sum_probs=77.4

Q ss_pred             CCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh----cCChH
Q 006997          412 GMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGR----AGRFD  487 (622)
Q Consensus       412 ~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~  487 (622)
                      .++++|+++|++..+ .|. |  .....+.  .....+.++|.+++++..+. |   ++.....|...|..    ..+.+
T Consensus         7 kd~~~A~~~~~kaa~-~g~-~--~a~~~l~--~~~~~~~~~a~~~~~~aa~~-g---~~~a~~~Lg~~y~~g~~~~~d~~   76 (133)
T d1klxa_           7 KDLKKAIQYYVKACE-LNE-M--FGCLSLV--SNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLR   76 (133)
T ss_dssp             HHHHHHHHHHHHHHH-TTC-T--THHHHHH--TCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHH
T ss_pred             cCHHHHHHHHHHHHH-CCC-h--hhhhhhc--cccccCHHHHHHHHhhhhcc-c---chhhhhhHHHhhhhccccchhhH
Confidence            367888899988887 552 2  2222222  34456788999999888753 3   45555666666654    45688


Q ss_pred             HHHHHHHhCCCCCcHHhHHHHHHHHHh----cCCHHHHHHHHHHHHccCC
Q 006997          488 LALKTIHEMPVEVQAQVWAPLLSACMK----HHNVELGEYAAKNLLTLNP  533 (622)
Q Consensus       488 ~A~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~p  533 (622)
                      +|.++|++....-++.....|...|..    ..|.++|.+.++++.++..
T Consensus        77 ~A~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          77 KAAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            999999987644456666677777665    4689999999999988654

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=94.27  E-value=2.1  Score=39.66  Aligned_cols=351  Identities=11%  Similarity=0.013  Sum_probs=202.7

Q ss_pred             HHHHHHhcCChHHHHHHHhhcCCCCcchHHHHHHHHHcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHH
Q 006997          171 VMSMYAKFGKVNEARSIFDEIGETSIVSWTTIIGGYVNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLA  250 (622)
Q Consensus       171 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  250 (622)
                      .+..+.+.+++......+..-+ .+...-.....+..+.|+.+.|...+..+-..|.. .                .+.+
T Consensus        78 ~l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~-~----------------p~~c  139 (450)
T d1qsaa1          78 FVNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKS-Q----------------PNAC  139 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSC-C----------------CTHH
T ss_pred             HHHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCC-C----------------chHH
Confidence            3456677788877766664322 24444556778888899999998888776554421 1                2223


Q ss_pred             HHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 006997          251 LSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELARRVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRP  330 (622)
Q Consensus       251 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~  330 (622)
                      ..++..+.+.| ..+...+-.-+......|+...|..+...+...........+.....   ...+......   .  .+
T Consensus       140 ~~l~~~~~~~~-~lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~---p~~~~~~~~~---~--~~  210 (450)
T d1qsaa1         140 DKLFSVWRASG-KQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANN---PNTVLTFART---T--GA  210 (450)
T ss_dssp             HHHHHHHHHTT-CSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHC---GGGHHHHHHH---S--CC
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhC---hHhHHHHHhc---C--CC
Confidence            33444444444 34444455556667777899999999888766555555555554432   2333222211   1  22


Q ss_pred             CHHHHHHHHHHHhc--cCChHHHHHHHHHHHHcCCCCchhHHHHH----HHHHHhcCChHHHHHHhccCCC--CChhHHH
Q 006997          331 NEATLATTLSACAE--LGSLSKGKEIEEYIVLNGLESNRQVQTSL----IHMFSKCGRINKAKEVFERVPD--KDLAVWS  402 (622)
Q Consensus       331 ~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l----~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~  402 (622)
                      +......+..++.+  ..+.+.+...+........ .+..-...+    .......+..+.+...+.....  .+.....
T Consensus       211 ~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  289 (450)
T d1qsaa1         211 TDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQ-LNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIE  289 (450)
T ss_dssp             CHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHH
T ss_pred             ChhhhHHHHHHHHHHhccChhHHHHHHHhhhhccc-ccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHH
Confidence            33333333333332  3567788888877765432 222222222    2222334566777666654432  2333333


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHhHHhcCCCCCHHHHHHHHHHHhccCchHHHHHHHHHhHHhcCCCCChhHHHHHHHHHHh
Q 006997          403 AMINGYAIHGMGDQALNLFYKMQHVEGLKPDAVVYTSILSACSHSGMVDDGLSFFKSMQSNFGIEPSIEHYLCLVDLLGR  482 (622)
Q Consensus       403 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  482 (622)
                      -.+......+++..+...+..|..  .......-.--+..++...|+.+.|...|..+..    .++  -|..|...  +
T Consensus       290 w~~~~al~~~~~~~~~~~~~~l~~--~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~----~~~--fYG~LAa~--~  359 (450)
T d1qsaa1         290 RRVRMALGTGDRRGLNTWLARLPM--EAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ----QRG--FYPMVAAQ--R  359 (450)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHSCT--TGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----SCS--HHHHHHHH--H
T ss_pred             HHHHHHHHcCChHHHHHHHHhcCc--ccccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc----CCC--hHHHHHHH--H
Confidence            345556678899999999988764  1112234455677889999999999999998862    333  33333321  2


Q ss_pred             cCChHHHHHHHHhCCCCCcHH-h---HHHHHHHHHhcCCHHHHHHHHHHHHccCCCCCchHHHHHHHHHhcCChHHHHHH
Q 006997          483 AGRFDLALKTIHEMPVEVQAQ-V---WAPLLSACMKHHNVELGEYAAKNLLTLNPGSTGNYILMANLFTSAGMWKEAATA  558 (622)
Q Consensus       483 ~g~~~~A~~~~~~~~~~~~~~-~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  558 (622)
                      .|..-.. . ....+..+... .   -..-+..+...|....|...+..++...  ++.-...++.+..+.|.++.|+..
T Consensus       360 Lg~~~~~-~-~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~aI~a  435 (450)
T d1qsaa1         360 IGEEYEL-K-IDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLSVQA  435 (450)
T ss_dssp             TTCCCCC-C-CCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCCCCC-C-cCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChhHHHHH
Confidence            2221000 0 00011111110 0   1122345667899999999998887643  466778889999999999999988


Q ss_pred             HHHhh
Q 006997          559 RGLMD  563 (622)
Q Consensus       559 ~~~~~  563 (622)
                      ..+..
T Consensus       436 ~~~~~  440 (450)
T d1qsaa1         436 TIAGK  440 (450)
T ss_dssp             HHHTT
T ss_pred             HHHHH
Confidence            87664

>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=93.04  E-value=1  Score=32.22  Aligned_cols=140  Identities=9%  Similarity=0.026  Sum_probs=84.7

Q ss_pred             HcCCChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHHHHHHhcCCHHHHH
Q 006997          207 VNVGNVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLVSMYTKCGDLELAR  286 (622)
Q Consensus       207 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  286 (622)
                      .-.|..++..+++.+....   .+..-|+.++.-....-+-+...+.++.+-+.   .|          ...++++....
T Consensus        13 ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FD----------ls~C~Nlk~vv   76 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FD----------LDKCQNLKSVV   76 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SC----------GGGCSCTHHHH
T ss_pred             HHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cC----------chhhhcHHHHH
Confidence            3456666666666666542   34455565655555555555554444443221   11          12233333333


Q ss_pred             HHHhhcCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCChHHHHHHHHHHHHcCCC
Q 006997          287 RVFDAVLEKSVFLWTSMIGGYAQLGYPSEAVNLFKRLLKTSVRPNEATLATTLSACAELGSLSKGKEIEEYIVLNGLE  364 (622)
Q Consensus       287 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  364 (622)
                      ..+-.+.. +....+..+.....+|+-++-.++++.+.+.+ +|++.....+..+|.+.|+..++.+++.++-+.|+.
T Consensus        77 ~C~~~~n~-~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          77 ECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhcc-hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            33333222 33344555677788888888888888877754 778888888888999999999988888888877753

>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=91.51  E-value=0.36  Score=32.70  Aligned_cols=60  Identities=13%  Similarity=0.117  Sum_probs=37.8

Q ss_pred             hhHHHHHHHHHhCCCCCCcccHHHHHHHhhccCChhhHHHHHHHHHHhcCCCCchhHHHHH
Q 006997           12 EETLSTYSSMLQTGVHGNSFTFPLVLKACANINSIWDGKRVHSHVLKVGFQQDAFVQTGLI   72 (622)
Q Consensus        12 ~~a~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~   72 (622)
                      .+..+-++.+-..++-|++....+.|++|.+.+|+..|.++++-+.... .++...|..++
T Consensus        23 we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yil   82 (105)
T d1v54e_          23 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI   82 (105)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHH
Confidence            3444455555556677777777777777777777777777777666443 23344555444

>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=84.12  E-value=4.5  Score=27.29  Aligned_cols=62  Identities=8%  Similarity=0.157  Sum_probs=44.8

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHhHHHHHHHHHhccCChHHHHHHHHHHHHhCCCCCchhHHHHH
Q 006997          211 NVNEAFGLCNQMRRMSVTPDLVVFLNLILGCAQVGNLFLALSMHSLLLKSGYNNEDPLDNLLV  273 (622)
Q Consensus       211 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  273 (622)
                      +.-++.+-++.+....+.|++....+.+++|.+.+++..|.++++-++... .++...|..++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHH
Confidence            344566667777777788888888889999999999999988888877543 22344555544